individual num chr1 str1 pos1 chr2 str2 pos2 class span tumreads normreads normpanelreads normpanelsamps normpaneldetails min1 max1 range1 stdev1 min2 max2 range2 stdev2 gene1 site1 gene2 site2 fusion fmapqzT1 fmapqzN1 fmapqzT2 fmapqzN2 nuwpT1 nuwpN1 nuwpT2 nuwpN2 zstdev1 zstdev2 quality score somatic somatic_score BPtry dRpos1 dRpos2 T_BPhit T_BPpos1 T_diffpos1 T_BPpos2 T_diffpos2 T_SWreads T_SWscore T_firstseq T_lenhomology T_lenhomology_soft T_lenforeign T_foreignseq T_BWAreads N_BPhit N_BPpos1 N_diffpos1 N_BPpos2 N_diffpos2 N_SWreads N_SWscore N_firstseq N_lenhomology N_lenhomology_soft N_lenforeign N_foreignseq N_BWAreads BPresult BPsomaticratio LUSC-21-1076 1 6 1 35729224 6 0 35855628 tandem_dup 126410 25 0 0 0 26_samples:0 35729224 35729466 243 47 35855385 35855634 250 47 C6orf126 IGR: 15Kb before C6orf126(+) SRPK1 Intron of SRPK1(-): 167bp after exon 5 - 0 0 0 0 1 3 2 0 -6.573395e-01 -6.573395e-01 1 25 1 25 1 35729224 35855634 1 35729224 0 35855628 -6 19 8.447157e-01 1 1 66 35 GCAAAATTACTGTACTTCAGAGATAAAGAGTCTTT 56 1 -1 -35729225 -1 -35855635 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 2 8 0 38867453 8 0 42720351 long_range 3852916 23 0 0 0 26_samples:0 38867154 38867440 287 69 42720021 42720356 336 76 ADAM9 Intron of ADAM9(+): 2Kb before exon 3 RNF170 Intron of RNF170(-): 203bp after exon 5 Protein fusion: in frame (ADAM9-RNF170) 0 0 2.000000e-02 0 1 3 2 3 7.302822e-01 1.171798e+00 9.949550e-01 2.288397e+01 1 2.288397e+01 1 38867440 42720356 1 38867453 13 42720351 -5 16 9.458581e-01 0 1 65 0 21 1 -1 -38867441 -1 -42720357 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 3 19 1 37108280 19 0 37117937 tandem_dup 9648 21 0 0 0 26_samples:0 37108288 37108679 392 69 37117580 37117936 357 59 ZNF382 Intron of ZNF382(+): 7Kb after exon 4 ZNF382 Exon 5 of ZNF382(+) Duplication within transcript: mid-exon 0 0 0 0 1 1 0 2 7.302822e-01 9.954505e-02 1 21 1 21 1 37108288 37117936 1 37108280 -8 37117937 1 8 9.586852e-01 1 1 73 15 GTCCTCAGTGTGGAA 30 1 37108125 -163 37118144 208 1 8.464940e-01 1 8 73 0 5 1 6 LUSC-21-1076 4 6 1 35726115 6 1 39119275 long_range 3393170 17 0 0 0 26_samples:0 35726112 35726368 257 54 39119282 39119564 283 52 C6orf126 IGR: 18Kb before C6orf126(+) KCNK5 IGR: 37Kb before KCNK5(-) - 0 0 3.000000e-02 0 1 4 2 3 -1.740321e-01 -2.902385e-01 1 17 1 17 1 35726112 39119282 1 35726115 3 39119275 -7 19 9.772287e-01 1 5 76 0 34 1 -1 -35726113 -1 -39119283 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 5 8 1 38383807 19 1 35677689 inter_chr NaN 17 0 0 0 26_samples:0 38383810 38384096 287 67 35677683 35677925 243 51 C8orf86 Intron of C8orf86(-): 2Kb after exon 1 FXYD5 IGR: 32Kb before FXYD5(+) - 0 3.000000e-02 0 0 1 1 2 3 5.813099e-01 -3.483417e-01 1 17 1 17 1 38383810 35677683 1 38383807 -3 35677689 6 15 9.900539e-01 1 0 78 0 19 1 -1 -38383811 -1 -35677684 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 8 2 1 62039705 2 0 63176910 long_range 1137213 14 0 0 0 26_samples:0 62039700 62039964 265 49 63176616 63176913 298 54 FAM161A IGR: 12Kb before FAM161A(-) EHBP1 Intron of EHBP1(+): 616bp after exon 13 - 3.000000e-02 3.000000e-02 0 0 4 3 2 1 -4.135113e-01 -1.430912e-01 1 14 1 14 1 62039700 63176913 1 62039705 5 63176910 -3 8 1 1 3 66 0 12 1 62039499 -201 63176950 37 1 8.112260e-01 1 2 79 1 T 4 1 3 LUSC-21-1076 9 19 0 45440886 19 1 45446770 deletion 5884 14 0 0 0 26_samples:0 45440661 45440880 220 38 45446764 45446970 207 32 APOC4 IGR: 5Kb before APOC4(+) APOC4 Intron of APOC4(+): 1Kb after exon 1 - 2.000000e-02 3.000000e-02 4.000000e-02 0 2 3 3 3 -1.008435e+00 -1.332940e+00 1 14 1 14 1 45440880 45446764 1 45440886 6 45446770 6 13 9.633570e-01 0 0 67 6 CCCCCA 28 1 45440849 -31 45446621 -143 1 8.380063e-01 0 5 78 0 2 1 14 LUSC-21-1076 11 10 1 34100692 10 1 34103411 inversion 2701 13 0 0 0 26_samples:0 34100718 34100977 260 48 34103419 34103635 217 37 PARD3 IGR: 298Kb before PARD3(-) PARD3 IGR: 295Kb before PARD3(-) - 0 0 0 0 1 1 0 0 -4.675953e-01 -1.062519e+00 1 13 1 13 1 34100718 34103419 1 34100692 -26 34103411 -8 9 8.989767e-01 1 1 76 0 12 1 -1 -34100719 -1 -34103420 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 12 12 1 61072388 22 0 29065842 inter_chr NaN 13 0 0 0 26_samples:0 61072393 61072692 300 68 29065596 29065849 254 55 SLC16A7 IGR: 989Kb before SLC16A7(+) TTC28 Intron of TTC28(-): 10Kb after exon 1 - 0 2.000000e-02 0 0 1 2 1 0 6.140850e-01 -8.900721e-02 1 13 1 13 1 61072393 29065849 1 61072388 -5 29065842 -7 5 1 1 3 70 0 11 1 61072188 -205 29065759 -90 1 8.394022e-01 1 6 76 0 0 1 Inf LUSC-21-1076 13 2 1 104333920 3 1 160562416 inter_chr NaN 12 0 0 0 26_samples:0 104333932 104334148 217 38 160562429 160562787 359 74 LOC150568 IGR: 717Kb before LOC150568(+) PPM1L Intron of PPM1L(+): 88Kb after exon 1 - 0 3.000000e-02 0 0 2 2 4 0 -1.008435e+00 9.385890e-01 1 12 1 12 1 104333932 160562429 1 104333920 -12 160562416 -13 5 1 1 3 68 0 8 1 -1 -104333933 -1 -160562430 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 15 7 1 107856500 7 0 107931805 tandem_dup 75274 12 0 0 0 26_samples:0 107856509 107856747 239 45 107931559 107931783 225 42 NRCAM Intron of NRCAM(-): 6Kb before exon 11 NRCAM 5'-UTR of NRCAM(-): 51Kb before coding start Duplication within transcript 3.000000e-02 4.000000e-02 0 0 2 4 2 1 -6.298473e-01 -7.920994e-01 1 12 1 12 1 107856509 107931783 1 107856500 -9 107931805 22 15 9.974651e-01 1 2 72 0 18 1 -1 -107856510 -1 -107931784 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 16 10 0 34330494 10 0 34344136 inversion 13678 12 0 0 0 26_samples:0 34330139 34330465 327 66 34343906 34344143 238 44 PARD3 IGR: 68Kb before PARD3(-) PARD3 IGR: 54Kb before PARD3(-) - 0 0 0 0 2 3 1 1 5.059169e-01 -6.839313e-01 1 12 1 12 1 34330465 34344143 1 34330494 29 34344136 -7 12 9.781846e-01 0 0 72 0 20 1 -1 -34330466 -1 -34344144 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 17 1 1 72368245 11 0 127972916 inter_chr NaN 11 0 0 0 26_samples:0 72368249 72368522 274 55 127972681 127972895 215 52 NEGR1 Intron of NEGR1(-): 33Kb after exon 2 ETS1 IGR: 356Kb before ETS1(-) - 0 0 0 0 1 0 1 1 -6.656668e-02 -2.196427e-01 1 11 1 11 1 72368249 127972895 1 72368245 -4 127972916 21 11 9.980455e-01 1 2 67 0 14 1 -1 -72368250 -1 -127972896 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 18 2 0 105324251 2 0 105325638 inversion 1377 11 0 0 0 26_samples:0 105323931 105324250 320 62 105325361 105325627 267 53 POU3F3 IGR: 148Kb before POU3F3(+) POU3F3 IGR: 146Kb before POU3F3(+) - 0 0 0 0 0 0 0 1 2.906106e-01 -1.686173e-01 1 11 1 11 1 105324250 105325627 1 105324251 1 105325638 11 3 1 0 3 77 0 8 1 -1 -105324251 -1 -105325628 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 19 8 0 38338131 8 1 38347934 deletion 9803 11 0 0 0 26_samples:0 38337866 38338134 269 60 38347937 38348210 274 53 C8orf86 IGR: 30Kb before C8orf86(-) C8orf86 IGR: 20Kb before C8orf86(-) - 0 0 0 0 3 3 3 4 1.885600e-01 -1.686173e-01 1 11 1 11 1 38338134 38347937 1 38338131 -3 38347934 -3 10 9.946363e-01 0 2 73 0 14 1 -1 -38338135 -1 -38347938 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 21 10 0 92448600 10 1 92473950 deletion 25358 11 0 0 0 26_samples:0 92448346 92448595 250 58 92473953 92474212 260 58 HTR7 IGR: 52Kb before HTR7(-) HTR7 IGR: 27Kb before HTR7(-) - 5.000000e-02 1.100000e-01 0 0 4 2 1 2 8.650932e-02 8.650932e-02 1 11 1 11 1 92448595 92473953 1 92448600 5 92473950 -3 5 9.740244e-01 0 6 75 0 9 1 92448796 201 92473852 -101 1 8.198990e-01 0 0 74 38 CATGAAAAATCATCATTTGACTAATGTACCATTAGTCT 6 1 1.500000e+00 LUSC-21-1076 23 19 0 40891094 19 1 45249395 long_range 4358302 11 0 0 0 26_samples:0 40890833 40891091 259 65 45249393 45249649 257 59 HIPK4 Intron of HIPK4(-): 1Kb before exon 2 BCL3 Promoter of BCL3(+): 3Kb from tx start - 0 0 1.000000e-02 0 1 4 1 4 4.436866e-01 1.375347e-01 1 11 1 11 1 40891091 45249393 1 40891094 3 45249395 2 11 9.864353e-01 0 1 81 0 22 1 -1 -40891092 -1 -45249394 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 25 6 0 35741777 6 0 35773056 inversion 31277 10 0 0 0 26_samples:0 35741502 35741768 267 64 35772812 35773045 234 60 C6orf126 Promoter of C6orf126(+): 3Kb from tx start LHFPL5 Promoter of LHFPL5(+): 26bp from tx start Antisense fusion 0 0 0 0 2 0 1 1 3.926613e-01 1.885600e-01 1 10 1 10 1 35741768 35773045 1 35741777 9 35773056 11 10 9.736637e-01 0 0 59 0 26 1 -1 -35741769 -1 -35773046 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 27 13 1 98724194 13 1 107486842 long_range 8762623 10 0 0 0 26_samples:0 98724216 98724459 244 59 107486839 107487097 259 65 IPO5 IGR: 48Kb after IPO5(+) ARGLU1 IGR: 291Kb before ARGLU1(-) - 0 6.000000e-02 0 0 2 3 1 2 1.375347e-01 4.436866e-01 1 10 1 10 1 98724216 107486839 1 98724194 -22 107486842 3 4 1 1 7 73 0 8 1 -1 -98724217 -1 -107486840 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 10 3 0 20090394 10 1 9506951 inter_chr NaN 13 0 0 0 26_samples:0 20090101 20090391 291 59 9506960 9507258 299 59 KAT2B Intron of KAT2B(+): 8Kb after exon 1 SFTA1P IGR: 1Mb before SFTA1P(-) - 0 0 0 0 7 5 2 1 1.273288e-01 1.273288e-01 6.924768e-01 9.002198e+00 1 9.002198e+00 1 20090391 9506960 1 20090394 3 9506951 -9 8 1 0 4 61 0 11 1 -1 -20090392 -1 -9506961 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 33 10 0 96916628 10 1 96927521 deletion 10895 9 0 0 0 26_samples:0 96916304 96916628 325 69 96927523 96927758 236 44 C10orf129 IGR: 37Kb before C10orf129(+) C10orf129 IGR: 26Kb before C10orf129(+) - 7.000000e-02 9.000000e-02 0 5.000000e-02 4 2 2 3 6.374368e-01 -5.643218e-01 1 9 1 9 1 96916628 96927523 1 96916628 0 96927521 -2 3 9.923123e-01 0 10 122 0 9 1 -1 -96916629 -1 -96927524 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 32 9 1 86980962 9 1 87080784 inversion 99825 9 0 0 0 26_samples:0 86980968 86981229 262 54 87080793 87081156 364 85 SLC28A3 5'-UTR of SLC28A3(-): 25Kb before coding start SLC28A3 IGR: 188Kb before SLC28A3(-) - 2.000000e-02 0 0 0 1 2 2 2 -8.361835e-02 1.406562e+00 9.370299e-01 8.433269e+00 1 8.433269e+00 1 86980968 87080793 1 86980962 -6 87080784 -9 6 9.704975e-01 1 2 69 0 9 1 -1 -86980969 -1 -87080794 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 35 1 1 27340654 1 1 27375718 inversion 35064 8 0 0 0 26_samples:0 27340654 27340910 257 48 27375718 27375906 189 30 FAM46B Promoter of FAM46B(-): 1Kb from tx start FAM46B IGR: 44Kb before FAM46B(-) - 0 0 0 0 2 2 3 2 -3.720404e-01 -1.237307e+00 1 8 1 8 1 27340654 27375718 1 -1 -27340655 -1 -27375719 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -27340655 -1 -27375719 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-21-1076 38 8 1 38174584 8 0 41328547 long_range 3153973 8 0 0 0 26_samples:0 38174578 38174834 257 53 41328248 41328551 304 72 WHSC1L1 Intron of WHSC1L1(-): 1Kb before exon 10 GOLGA7 IGR: 20Kb before GOLGA7(+) - 0 0 0 0 2 1 2 2 -1.316887e-01 7.816478e-01 1 8 1 8 1 38174578 41328551 1 38174584 6 41328547 -4 7 9.737290e-01 1 1 70 0 15 1 -1 -38174579 -1 -41328552 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 39 8 1 39141789 8 1 41300730 long_range 2158981 8 0 0 0 26_samples:0 39141799 39142030 232 47 41300780 41300969 190 32 ADAM32 Intron of ADAM32(+): 513bp before exon 25 GOLGA7 IGR: 47Kb before GOLGA7(+) - 2.000000e-02 4.000000e-02 2.000000e-02 0 2 1 2 1 -4.201107e-01 -1.141166e+00 1 8 1 8 1 39141799 41300780 1 39141789 -10 41300730 -50 6 9.964159e-01 1 5 73 0 9 1 -1 -39141800 -1 -41300781 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 42 17 0 11806395 17 0 20897866 long_range 9091459 8 0 0 0 26_samples:0 11806146 11806397 252 66 20897612 20897856 245 54 DNAH9 Intron of DNAH9(+): 168bp after exon 60 USP22 IGR: 5Kb before USP22(-) - 0 0 0 0 1 1 1 0 4.932258e-01 -8.361835e-02 1 8 1 8 1 11806397 20897856 1 11806395 -2 20897866 10 8 9.955117e-01 0 1 76 0 17 1 -1 -11806398 -1 -20897857 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 44 20 1 16064339 20 0 17217874 long_range 1153511 8 0 0 0 26_samples:0 16064368 16064633 266 59 17217666 17217879 214 45 MACROD2 IGR: 31Kb after MACROD2(+) PCSK2 Intron of PCSK2(+): 10Kb after exon 1 - 0 0 0 0 2 1 1 2 1.567334e-01 -5.162514e-01 1 8 1 8 1 16064368 17217879 1 16064339 -29 17217874 -5 6 9.970978e-01 1 3 75 0 10 1 -1 -16064369 -1 -17217880 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 26 10 1 33295919 10 0 35220920 long_range 1924985 10 0 0 0 26_samples:0 33295940 33296180 241 46 35220548 35220925 378 89 ITGB1 IGR: 49Kb after ITGB1(-) CUL2 IGR: 78Kb before CUL2(-) - 2.000000e-02 7.000000e-02 0 8.000000e-02 2 4 2 2 -5.257947e-01 1.668295e+00 7.701358e-01 7.701358e+00 1 7.701358e+00 1 33295940 35220925 1 33295919 -21 35220920 -5 9 9.890579e-01 1 2 65 0 15 1 33296053 113 35221126 201 1 7.832621e-01 1 0 84 13 AAAAAAAAAAGTA 9 1 1.666667e+00 LUSC-21-1076 46 1 0 173833960 3 0 94651358 inter_chr NaN 7 0 0 0 26_samples:0 173833717 173833909 193 34 94651113 94651336 224 52 GAS5 3'-UTR of GAS5(-): 3Kb after coding stop LOC255025 IGR: 6Kb before LOC255025(+) - 0 0 0 0 2 0 2 1 -9.069489e-01 -1.269146e-01 1 7 1 7 1 173833909 94651336 1 173833960 51 94651358 22 3 9.875754e-01 0 3 81 0 7 1 -1 -173833910 -1 -94651337 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 49 3 1 13718824 3 0 13868247 tandem_dup 149356 7 0 0 0 26_samples:0 13718856 13719053 198 42 13868029 13868212 184 42 LOC285375 5'-UTR of LOC285375(+): 69Kb before coding start WNT7A Intron of WNT7A(-): 7Kb before exon 4 - 0 0 0 0 2 2 2 1 -5.602670e-01 -5.602670e-01 1 7 1 7 1 13718856 13868212 1 13718824 -32 13868247 35 11 9.852656e-01 1 1 77 1 G 16 1 -1 -13718857 -1 -13868213 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 52 5 0 59142860 5 1 59144825 deletion 1965 7 0 0 0 26_samples:0 59142530 59142860 331 78 59144825 59145040 216 35 PDE4D Intron of PDE4D(-): 46Kb after exon 1 PDE4D Intron of PDE4D(-): 44Kb after exon 1 Deletion within intron 0 0 3.000000e-02 0 0 1 0 0 9.998017e-01 -8.636137e-01 1 7 1 7 1 59142860 59144825 1 59142765 -95 59144602 -223 1 8.417008e-01 0 28 118 0 5 1 59142765 -95 59144602 -223 1 9.918775e-01 0 28 118 0 5 0 1 LUSC-21-1076 53 5 1 167423359 5 0 167455230 tandem_dup 31840 7 0 0 0 26_samples:0 167423390 167423652 263 73 167454976 167455230 255 62 ODZ2 Intron of ODZ2(+): 3Kb after exon 5 ODZ2 Intron of ODZ2(+): 19Kb before exon 6 Duplication within intron 0 0 0 0 2 0 2 0 7.831255e-01 3.064378e-01 1 7 1 7 1 167423390 167455230 1 167423359 -31 167455230 0 2 1 1 3 84 0 8 1 -1 -167423391 -1 -167455231 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 54 6 0 42855120 13 1 26932647 inter_chr NaN 7 0 0 0 26_samples:0 42854904 42855105 202 33 26932679 26932880 202 35 RPL7L1 IGR: 374bp after RPL7L1(+) CDK8 Intron of CDK8(+): 5Kb after exon 4 - 1.500000e-01 1.700000e-01 0 0 4 0 1 1 -9.502842e-01 -8.636137e-01 1 7 1 7 1 42855105 26932679 1 42855120 15 26932647 -32 4 9.973069e-01 0 2 74 0 5 1 -1 -42855106 -1 -26932680 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 55 7 0 136564006 7 1 136569914 deletion 5932 7 0 0 0 26_samples:0 136563775 136563987 213 37 136569919 136570171 253 54 CHRM2 5'-UTR of CHRM2(+): 136Kb before coding start CHRM2 5'-UTR of CHRM2(+): 130Kb before coding start Deletion within transcript 0 0 0 0 1 0 0 1 -7.769432e-01 -4.024410e-02 1 7 1 7 1 136563987 136569919 1 136564006 19 136569914 -5 6 9.954675e-01 0 2 67 0 10 1 -1 -136563988 -1 -136569920 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 56 7 0 1762009 17 1 20657103 inter_chr NaN 7 0 0 0 26_samples:0 1761743 1762015 273 72 20657112 20657406 295 78 ELFN1 5'-UTR of ELFN1(+): 22Kb before coding start CCDC144NL IGR: 110Kb before CCDC144NL(-) - 4.000000e-02 0 2.000000e-02 1.200000e-01 3 3 1 0 7.397902e-01 9.998017e-01 1 7 1 7 1 1762015 20657112 1 1762009 -6 20657103 -9 5 9.767730e-01 0 3 68 0 10 1 -1 -1762016 -1 -20657113 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 58 8 0 111196283 8 1 114213336 long_range 3017061 7 0 0 0 26_samples:0 111196011 111196275 265 56 114213336 114213568 233 45 KCNV1 IGR: 217Kb before KCNV1(-) CSMD3 Intron of CSMD3(-): 27Kb before exon 5 - 1.000000e-02 0 0 0 2 2 1 1 4.642638e-02 -4.302613e-01 1 7 1 7 1 111196275 114213336 1 111196283 8 114213336 0 6 9.810341e-01 0 0 73 0 6 1 -1 -111196276 -1 -114213337 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 62 13 1 53050196 16 1 22846269 inter_chr NaN 7 0 0 0 26_samples:0 53050218 53050391 174 25 22846330 22846511 182 30 CKAP2 3'-UTR of CKAP2(+): 942bp after coding stop HS3ST2 Intron of HS3ST2(+): 20Kb after exon 1 - 0 0 0 0 1 0 2 1 -1.296966e+00 -1.080290e+00 1 7 1 7 1 53050218 22846330 1 53050196 -22 22846269 -61 5 9.959298e-01 1 0 74 0 7 1 -1 -53050219 -1 -22846331 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 63 14 1 49022245 14 0 49031031 tandem_dup 8751 7 0 0 0 26_samples:0 49022240 49022432 193 35 49030750 49030991 242 46 RPS29 IGR: 1Mb before RPS29(-) RPS29 IGR: 1Mb before RPS29(-) - 0 5.000000e-02 2.000000e-02 3.000000e-02 0 2 0 3 -8.636137e-01 -3.869260e-01 1 7 1 7 1 49022240 49030991 1 49022245 5 49031031 40 3 9.759883e-01 1 3 74 0 6 1 -1 -49022241 -1 -49030992 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 45 1 0 27340620 1 1 27365486 deletion 24866 7 0 0 0 26_samples:0 27340327 27340619 293 84 27365485 27365763 279 78 FAM46B Promoter of FAM46B(-): 1Kb from tx start FAM46B IGR: 34Kb before FAM46B(-) - 5.000000e-02 6.000000e-02 0 0 3 2 2 3 1.259813e+00 9.998017e-01 9.827642e-01 6.879349e+00 1 6.879349e+00 1 27340619 27365485 1 27340620 1 27365486 1 6 9.676468e-01 0 4 76 0 10 1 -1 -27340620 -1 -27365486 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 57 8 0 37337908 8 1 42835357 long_range 5497493 7 0 0 0 26_samples:0 37337599 37337858 260 59 42835351 42835718 368 85 ZNF703 IGR: 215Kb before ZNF703(+) HOOK3 Intron of HOOK3(+): 2Kb before exon 14 - 0 0 0 5.000000e-02 1 3 1 2 1.764321e-01 1.303148e+00 9.728961e-01 6.810273e+00 1 6.810273e+00 1 37337858 42835351 1 37337908 50 42835357 6 10 9.899361e-01 0 3 75 0 12 1 -1 -37337859 -1 -42835352 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 64 14 1 99733196 14 0 99780628 tandem_dup 47347 7 0 0 0 26_samples:0 99733212 99733414 203 48 99780230 99780559 330 89 BCL11B Intron of BCL11B(-): 4Kb after exon 1 BCL11B IGR: 43Kb after BCL11B(-) - 0 0 0 0 2 3 2 1 -3.002555e-01 1.476489e+00 9.023779e-01 6.316646e+00 1 6.316646e+00 1 99733212 99780559 1 99733196 -16 99780628 69 2 9.960033e-01 1 3 71 0 4 1 -1 -99733213 -1 -99780560 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 69 1 0 185993587 1 1 185995281 deletion 1729 6 0 0 0 26_samples:0 185993375 185993578 204 40 185995307 185995525 219 55 HMCN1 Intron of HMCN1(+): 1Kb after exon 36 HMCN1 Intron of HMCN1(+): 3Kb after exon 36 Deletion within intron 0 0 0 0 0 2 0 0 -6.469375e-01 3.091140e-03 1 6 1 6 1 185993578 185995307 1 185993587 9 185995281 -26 5 9.783746e-01 0 2 71 0 9 1 -1 -185993579 -1 -185995308 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 74 2 0 23668237 2 0 27853875 long_range 4185623 6 0 0 0 26_samples:0 23668003 23668233 231 52 27853621 27853856 236 60 KLHL29 5'-UTR of KLHL29(+): 117Kb before coding start GPN1 Intron of GPN1(+): 38bp before exon 4 Antisense fusion 0 0 0 0 1 0 1 1 -1.269146e-01 2.197673e-01 1 6 1 6 1 23668233 27853856 1 23668237 4 27853875 19 6 9.458433e-01 0 0 75 0 11 1 -1 -23668234 -1 -27853857 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 76 3 1 188768359 3 0 189066634 tandem_dup 298238 6 0 0 0 26_samples:0 188768403 188768655 253 62 189066406 189066641 236 57 TPRG1 IGR: 121Kb before TPRG1(+) TPRG1 IGR: 25Kb after TPRG1(+) - 0 0 0 0 1 3 1 1 3.064378e-01 8.976162e-02 1 6 1 6 1 188768403 189066641 1 188768359 -44 189066634 -7 8 1 1 3 62 0 14 1 -1 -188768404 -1 -189066642 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 78 3 0 123594950 7 0 103222542 inter_chr NaN 6 0 0 0 26_samples:0 123594711 123594855 145 18 103222350 103222526 177 40 MYLK 5'-UTR of MYLK(-): 82Kb before coding start RELN Intron of RELN(-): 6Kb before exon 29 - 0 3.000000e-02 0 0 1 0 2 1 -1.600313e+00 -6.469375e-01 1 6 1 6 1 123594855 103222526 1 123594950 95 103222542 16 7 9.871798e-01 0 3 71 0 11 1 -1 -123594856 -1 -103222527 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 81 5 0 24239312 5 0 24254039 inversion 14724 6 0 0 0 26_samples:0 24239028 24239319 292 70 24253751 24254043 293 73 CDH10 IGR: 248Kb before CDH10(-) CDH10 IGR: 233Kb before CDH10(-) - 0 0 0 0 1 1 2 2 6.531197e-01 7.831255e-01 1 6 1 6 1 24239319 24254043 1 24239312 -7 24254039 -4 6 9.856632e-01 0 6 70 0 11 1 -1 -24239320 -1 -24254044 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 82 5 1 24239573 5 1 24254060 inversion 14426 6 0 0 0 26_samples:0 24239635 24239824 190 40 24254061 24254276 216 41 CDH10 IGR: 248Kb before CDH10(-) CDH10 IGR: 233Kb before CDH10(-) - 0 0 0 0 1 1 2 2 -6.469375e-01 -6.036022e-01 1 6 1 6 1 24239635 24254061 1 24239573 -62 24254060 -1 7 9.780058e-01 1 2 81 2 CC 16 1 -1 -24239636 -1 -24254062 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 88 8 1 112450592 10 1 44790182 inter_chr NaN 6 0 0 0 26_samples:0 112450668 112450928 261 67 44790194 44790355 162 26 CSMD3 IGR: 784Kb before CSMD3(-) CXCL12 IGR: 75Kb before CXCL12(-) - 0 0 2.000000e-02 0 2 1 1 1 5.231140e-01 -1.253631e+00 1 6 1 6 1 112450668 44790194 1 112450592 -76 44790182 -12 8 9.852316e-01 1 0 73 0 11 1 112450485 -183 44789840 -354 1 8.188610e-01 1 3 83 0 4 1 2.750000e+00 LUSC-21-1076 92 9 0 68510360 10 0 34200860 inter_chr NaN 6 0 0 0 26_samples:0 68510113 68510354 242 52 34200602 34200829 228 50 PGM5P2 IGR: 570Kb before PGM5P2(-) PARD3 IGR: 198Kb before PARD3(-) - 1.400000e-01 1.300000e-01 1.000000e-02 3.000000e-02 4 1 2 2 -1.269146e-01 -2.135851e-01 1 6 1 6 1 68510354 34200829 1 68510360 6 34200860 31 14 9.987601e-01 0 4 72 0 21 1 -1 -68510355 -1 -34200830 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 95 15 1 75057908 15 0 75181251 tandem_dup 123337 6 0 0 0 26_samples:0 75057910 75058161 252 63 75181004 75181247 244 64 CSK IGR: 17Kb before CSK(+) MPI Promoter of MPI(+): 1Kb from tx start - 2.000000e-02 0 0 0 3 4 2 1 3.497731e-01 3.931083e-01 1 6 1 6 1 75057910 75181247 1 75057908 -2 75181251 4 10 9.995427e-01 1 2 78 0 18 1 -1 -75057911 -1 -75181248 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 87 8 1 38870910 8 1 42681863 long_range 3810972 6 0 0 0 26_samples:0 38870931 38871195 265 52 42681903 42682091 189 41 ADAM9 Intron of ADAM9(+): 553bp before exon 4 THAP1 IGR: 10Kb before THAP1(-) - 0 4.000000e-02 0 1.100000e-01 5 3 3 1 -1.269146e-01 -6.036022e-01 9.846154e-01 5.907692e+00 1 5.907692e+00 1 38870931 42681903 1 38870910 -21 42681863 -40 7 1 1 4 75 0 11 1 -1 -38870932 -1 -42681904 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 94 13 0 98745196 13 0 107291404 long_range 8546215 6 0 0 0 26_samples:0 98745024 98745194 171 37 107291043 107291409 367 87 FARP1 IGR: 50Kb before FARP1(+) ARGLU1 IGR: 96Kb before ARGLU1(-) - 0 0 0 0 2 1 1 1 -7.769432e-01 1.389819e+00 9.440763e-01 5.664458e+00 1 5.664458e+00 1 98745194 107291409 1 98745196 2 107291404 -5 7 9.745430e-01 0 0 79 0 10 1 -1 -98745195 -1 -107291410 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 75 2 1 23681564 18 0 23780787 inter_chr NaN 6 0 0 0 26_samples:0 23681583 23681905 323 79 23780545 23780752 208 58 KLHL29 5'-UTR of KLHL29(+): 103Kb before coding start PSMA8 IGR: 7Kb after PSMA8(+) - 0 0 6.000000e-02 3.000000e-02 3 2 4 6 1.043137e+00 1.330969e-01 8.888175e-01 5.332905e+00 1 5.332905e+00 1 23681583 23780752 1 23681564 -19 23780787 35 8 9.850769e-01 1 3 70 0 17 1 -1 -23681584 -1 -23780753 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 98 1 0 24644931 1 1 24650240 deletion 5355 5 0 0 0 26_samples:0 24644613 24644902 290 75 24650257 24650476 220 49 GRHL3 Promoter of GRHL3(+): 979bp from tx start GRHL3 Intron of GRHL3(+): 650bp after exon 1 Deletion within transcript 0 0 0 0 0 1 0 0 8.438419e-01 -2.122425e-01 1 5 1 5 1 24644902 24650257 1 24644931 29 24650240 -17 6 9.971107e-01 0 3 70 0 9 1 -1 -24644903 -1 -24650258 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 106 1 0 236610340 19 1 37866153 inter_chr NaN 5 0 0 0 26_samples:0 236610184 236610340 157 26 37866153 37866258 106 2 EDARADD Intron of EDARADD(+): 20Kb after exon 4 ZNF527 Intron of ZNF527(+): 1Kb after exon 2 Protein fusion: in frame (EDARADD-ZNF527) 0 0 0 1.300000e-01 1 2 4 4 -1.146471e+00 -2.121318e+00 1 5 1 5 1 236610340 37866153 1 236610468 128 37866154 1 2 1 0 2 102 0 25 1 236610468 128 37866154 1 3 1 0 2 102 0 24 -1 1.041667e+00 LUSC-21-1076 115 3 0 100815546 8 1 109605713 inter_chr NaN 5 0 0 0 26_samples:0 100815321 100815459 139 15 109605745 109605914 170 31 IMPG2 IGR: 130Kb before IMPG2(-) TTC35 IGR: 150Kb before TTC35(+) - 0 0 1.000000e-02 3.000000e-02 1 1 1 2 -1.593276e+00 -9.433779e-01 1 5 1 5 1 100815459 109605745 1 100815546 87 109605713 -32 5 9.961216e-01 0 4 77 0 7 1 -1 -100815460 -1 -109605746 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 116 4 1 139007199 4 0 140184035 long_range 1176836 5 0 0 0 26_samples:0 139007199 139007391 193 37 140183840 140184035 196 40 SLC7A11 IGR: 78Kb before SLC7A11(-) C4orf49 IGR: 3Kb before C4orf49(-) - 0 0 2.000000e-02 0 2 0 2 1 -6.996661e-01 -5.778102e-01 1 5 1 5 1 139007199 140184035 1 139007151 -48 140184033 -2 1 9.583152e-01 1 0 67 21 TTTCGGCCTTTTCGGAAAGAT 12 1 139006936 -263 140184390 355 1 8.532704e-01 1 5 88 0 6 0 2 LUSC-21-1076 121 6 0 157140010 6 1 157400484 deletion 260474 5 0 0 0 26_samples:0 157139874 157140010 137 16 157400484 157400623 140 15 ARID1B Intron of ARID1B(+): 10Kb before exon 2 ARID1B Intron of ARID1B(+): 5Kb before exon 6 Deletion of 4 exons: in frame 0 0 0 0 2 0 1 1 -1.552657e+00 -1.593276e+00 1 5 1 5 1 157140010 157400484 1 157140036 26 157400379 -105 1 9.444425e-01 0 0 76 3 CAA 11 1 -1 -157140011 -1 -157400485 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-21-1076 123 7 0 77366891 7 1 77417405 deletion 50576 5 0 0 0 26_samples:0 77366632 77366864 233 58 77417440 77417670 231 63 RSBN1L Intron of RSBN1L(+): 1Kb after exon 2 TMEM60 IGR: 6Kb before TMEM60(-) - 0 0 2.000000e-02 0 1 2 1 2 1.533252e-01 3.564183e-01 1 5 1 5 1 77366864 77417440 1 77366891 27 77417405 -35 4 9.134645e-01 0 0 75 0 8 1 77367226 362 77417619 179 1 9.560998e-01 0 13 96 0 6 1 1.333333e+00 LUSC-21-1076 127 7 0 54076882 9 0 79546102 inter_chr NaN 5 0 0 0 26_samples:0 54076758 54076874 117 7 79545849 79546023 175 27 HPVC1 IGR: 192Kb before HPVC1(-) PRUNE2 IGR: 25Kb after PRUNE2(-) - 0 0 0 0 2 3 1 0 -1.918225e+00 -1.105852e+00 1 5 1 5 1 54076874 79546023 1 54076882 8 79546102 79 9 9.846197e-01 0 4 75 0 13 1 -1 -54076875 -1 -79546024 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 131 8 0 112771139 8 1 113269281 deletion 498162 5 0 0 0 26_samples:0 112770895 112771127 233 57 113269289 113269533 245 66 CSMD3 IGR: 464Kb before CSMD3(-) CSMD3 Intron of CSMD3(-): 2Kb before exon 63 - 0 0 0 0 1 1 2 0 1.127066e-01 4.782742e-01 1 5 1 5 1 112771127 113269289 1 112771139 12 113269281 -8 6 1 0 0 51 0 17 1 -1 -112771128 -1 -113269290 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 137 10 1 5032471 10 0 5039046 tandem_dup 6558 5 0 0 0 26_samples:0 5032476 5032707 232 61 5038794 5039034 241 55 AKR1C2 Intron of AKR1C2(-): 246bp before exon 10 AKR1C2 Intron of AKR1C2(-): 977bp before exon 7 Duplication of 3 exons: out of frame 0 0 1.400000e-01 1.400000e-01 1 1 1 0 2.751811e-01 3.146929e-02 1 5 1 5 1 5032476 5039034 1 5032471 -5 5039046 12 4 1 1 5 76 0 8 1 -1 -5032477 -1 -5039035 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 143 17 1 46059411 17 1 46061788 inversion 2383 5 0 0 0 26_samples:0 46059437 46059619 183 29 46061820 46062016 197 34 CDK5RAP3 IGR: 291bp after CDK5RAP3(+) CDK5RAP3 IGR: 3Kb after CDK5RAP3(+) - 0 0 0 0 0 1 0 1 -1.024615e+00 -8.215220e-01 1 5 1 5 1 46059437 46061820 1 46059411 -26 46061788 -32 7 1 1 3 74 0 10 1 -1 -46059438 -1 -46061821 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 132 8 1 108090314 10 0 44890726 inter_chr NaN 5 0 0 0 26_samples:0 108090313 108090575 263 81 44890483 44890726 244 60 ANGPT1 IGR: 171Kb before ANGPT1(-) CXCL12 IGR: 18Kb before CXCL12(-) - 2.000000e-02 2.000000e-02 0 0 2 2 2 3 1.087554e+00 2.345624e-01 9.993293e-01 4.996646e+00 1 4.996646e+00 1 108090313 44890726 1 108090314 1 44890726 0 8 9.837718e-01 1 2 61 0 14 1 -1 -108090314 -1 -44890727 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 31 7 1 53652311 12 1 59894965 inter_chr NaN 9 0 0 0 26_samples:0 53652313 53652505 193 32 59894995 59895256 262 54 POM121L12 IGR: 549Kb before POM121L12(+) SLC16A7 IGR: 188Kb before SLC16A7(+) - 0 0 0 0 8 3 1 1 -1.141166e+00 -8.361835e-02 5.000000e-01 4.500000e+00 1 4.500000e+00 1 53652313 59894995 1 53652311 -2 59894965 -30 3 1 1 4 66 0 8 1 -1 -53652314 -1 -59894996 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 111 2 1 27853975 18 0 24397143 inter_chr NaN 5 0 0 0 26_samples:0 27854041 27854252 212 45 24396958 24397145 188 33 GPN1 Intron of GPN1(+): 108bp after exon 4 AQP4 IGR: 35Kb before AQP4(-) - 0 0 0 2.000000e-02 3 1 2 6 -3.747170e-01 -8.621406e-01 8.888889e-01 4.444444e+00 1 4.444444e+00 1 27854041 24397145 1 27853975 -66 24397143 -2 6 9.907082e-01 1 1 77 0 14 1 -1 -27854042 -1 -24397146 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 130 8 0 81210610 8 1 84208362 long_range 2997799 5 0 0 0 26_samples:0 81210368 81210584 217 48 84208383 84208651 269 92 ZBTB10 IGR: 188Kb before ZBTB10(+) RALYL IGR: 887Kb before RALYL(+) - 0 0 0 0 2 3 1 0 -2.528611e-01 1.534359e+00 8.676185e-01 4.338092e+00 1 4.338092e+00 1 81210584 84208383 1 81210610 26 84208362 -21 5 9.870987e-01 0 0 82 0 7 1 81210829 245 84208349 -34 1 9.139934e-01 0 2 73 0 3 1 2.333333e+00 LUSC-21-1076 148 1 1 1231761 1 0 1250894 tandem_dup 19089 4 0 0 0 26_samples:0 1231804 1232017 214 54 1250682 1250893 212 52 ACAP3 Intron of ACAP3(-): 1bp after exon 15 CPSF3L Intron of CPSF3L(-): 7bp after exon 5 Protein fusion: out of frame (ACAP3-CPSF3L) 0 0 0 0 1 0 1 2 3.228536e-02 -4.180311e-02 1 4 1 4 1 1231804 1250893 1 1231761 -43 1250894 1 6 9.993337e-01 1 4 72 0 13 1 -1 -1231805 -1 -1250894 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 149 1 1 40368428 1 0 40459051 tandem_dup 90524 4 0 0 0 26_samples:0 40368434 40368628 195 41 40458791 40458958 168 51 MYCL1 Promoter of MYCL1(-): 747bp from tx start MFSD2A IGR: 38Kb before MFSD2A(+) - 0 0 2.000000e-02 0 2 1 3 2 -4.492897e-01 -7.884735e-02 1 4 1 4 1 40368434 40458958 1 40368428 -6 40459051 93 5 9.933161e-01 1 1 72 0 8 1 -1 -40368435 -1 -40458959 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 184 3 1 123593452 15 1 33439619 inter_chr NaN 4 0 0 0 26_samples:0 123593530 123593720 191 40 33439615 33439771 157 25 MYLK 5'-UTR of MYLK(-): 81Kb before coding start RYR3 IGR: 164Kb before RYR3(+) - 0 0 3.000000e-02 0 2 1 1 1 -4.863339e-01 -1.041997e+00 1 4 1 4 1 123593530 33439615 1 123593452 -78 33439619 4 7 9.944302e-01 1 1 76 0 9 1 -1 -123593531 -1 -33439616 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 187 3 0 185497514 19 1 39220267 inter_chr NaN 4 0 0 0 26_samples:0 185497330 185497481 152 23 39220350 39220483 134 33 IGF2BP2 Intron of IGF2BP2(-): 43Kb after exon 2 ACTN4 3'-UTR of ACTN4(+): 278bp after coding stop - 0 0 0 3.000000e-02 1 1 1 2 -1.116086e+00 -7.456436e-01 1 4 1 4 1 185497481 39220350 1 185497514 33 39220267 -83 6 9.677929e-01 0 1 64 0 10 1 -1 -185497482 -1 -39220351 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 210 7 0 42680382 7 1 42683236 deletion 2929 4 0 0 0 26_samples:0 42680150 42680352 203 43 42683281 42683459 179 38 C7orf25 IGR: 269Kb before C7orf25(-) C7orf25 IGR: 266Kb before C7orf25(-) - 0 0 0 0 3 1 1 2 -3.752012e-01 -5.604224e-01 1 4 1 4 1 42680352 42683281 1 42680382 30 42683236 -45 3 9.474557e-01 0 0 62 0 6 1 -1 -42680353 -1 -42683282 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 222 8 1 107455092 8 1 109037697 long_range 1582703 4 0 0 0 26_samples:0 107455097 107455259 163 29 109037800 109038003 204 50 OXR1 Intron of OXR1(+): 76Kb before exon 3 RSPO2 Intron of RSPO2(-): 36Kb before exon 3 Protein fusion: out of frame (RSPO2-OXR1) 0 0 2.000000e-02 0 1 1 2 1 -8.938205e-01 -1.158916e-01 1 4 1 4 1 107455097 109037800 1 107455092 -5 109037697 -103 3 9.891315e-01 1 1 67 1 A 4 1 -1 -107455098 -1 -109037801 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 223 8 0 134385557 8 0 134398722 inversion 13165 4 0 0 0 26_samples:0 134385376 134385557 182 36 134398528 134398722 195 39 ST3GAL1 IGR: 82Kb before ST3GAL1(-) ST3GAL1 IGR: 68Kb before ST3GAL1(-) - 0 0 0 0 1 0 1 1 -6.345109e-01 -5.233782e-01 1 4 1 4 1 134385557 134398722 1 134385567 10 134398787 65 1 1 0 2 76 0 5 1 -1 -134385558 -1 -134398723 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-21-1076 224 8 0 142317870 8 1 142319504 deletion 1728 4 0 0 0 26_samples:0 142317683 142317827 145 20 142319555 142319700 146 21 LOC731779 IGR: 33Kb before LOC731779(+) LOC731779 IGR: 31Kb before LOC731779(+) - 0 0 0 0 1 3 0 2 -1.227219e+00 -1.190174e+00 1 4 1 4 1 142317827 142319555 1 142317870 43 142319504 -51 2 1 0 3 77 0 9 1 -1 -142317828 -1 -142319556 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 231 9 1 77858963 9 1 77860509 inversion 1546 4 0 0 0 26_samples:0 77858963 77859234 272 71 77860509 77860699 191 38 OSTF1 IGR: 156Kb before OSTF1(+) OSTF1 IGR: 157Kb before OSTF1(+) - 0 0 0 0 0 1 0 3 6.620374e-01 -5.604224e-01 1 4 1 4 1 77858963 77860509 1 77858963 0 77860509 0 4 9.822235e-01 1 7 72 0 7 1 -1 -77858964 -1 -77860510 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 241 10 0 91055613 10 1 91062710 deletion 7234 4 0 0 0 26_samples:0 91055368 91055514 147 25 91062748 91062870 123 10 IFIT2 IGR: 6Kb before IFIT2(+) IFIT2 Intron of IFIT2(+): 863bp after exon 1 - 0 0 0 4.000000e-02 0 0 0 0 -1.041997e+00 -1.597661e+00 1 4 1 4 1 91055514 91062748 1 91055613 99 91062710 -38 6 9.884790e-01 0 3 73 0 13 1 -1 -91055515 -1 -91062749 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 242 10 1 13339343 10 1 13373961 inversion 34622 4 0 0 0 26_samples:0 13339366 13339556 191 47 13373988 13374206 219 59 PHYH Intron of PHYH(-): 821bp after exon 2 SEPHS1 Intron of SEPHS1(-): 2Kb after exon 5 Antisense fusion 0 3.000000e-02 0 0 4 0 3 1 -2.270243e-01 2.175065e-01 1 4 1 4 1 13339366 13373988 1 13339343 -23 13373961 -27 4 8.710275e-01 1 0 61 0 8 1 -1 -13339367 -1 -13373989 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 250 12 0 19519042 12 1 19528472 deletion 9430 4 0 0 0 26_samples:0 19518920 19519042 123 9 19528472 19528619 148 20 PLEKHA5 Exon 24 of PLEKHA5(+) PLEKHA5 3'-UTR of PLEKHA5(+): 6Kb after coding stop - 0 0 0 0 1 0 2 0 -1.634705e+00 -1.227219e+00 1 4 1 4 1 19519042 19528472 1 19518848 -194 19528121 -351 1 8.458139e-01 0 0 77 10 GCCAGGCATG 3 1 19519393 351 19528234 -238 1 8.067127e-01 0 2 86 8 CTGGCCAA 5 0 6.000000e-01 LUSC-21-1076 262 15 0 77457678 15 1 77691405 deletion 233747 4 0 0 0 26_samples:0 77457430 77457662 233 64 77691409 77691626 218 48 SGK269 Intron of SGK269(-): 7Kb before exon 4 HMG20A IGR: 22Kb before HMG20A(+) - 2.000000e-02 5.000000e-02 0 0 2 2 2 1 4.027277e-01 -1.899801e-01 1 4 1 4 1 77457662 77691409 1 77457678 16 77691405 -4 8 9.702844e-01 0 1 68 0 8 1 -1 -77457663 -1 -77691410 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1076 268 16 0 78293350 16 1 78295655 deletion 2305 4 0 0 0 26_samples:0 78293147 78293350 204 47 78295655 78295791 137 14 WWOX Intron of WWOX(+): 19Kb before exon 6 WWOX Intron of WWOX(+): 17Kb before exon 6 Deletion within intron 0 0 0 0 1 1 0 0 -2.270243e-01 -1.449484e+00 1 4 1 4 1 78293350 78295655 1 78293346 -4 78295646 -9 4 9.032157e-01 0 5 76 0 8 1 78293346 -4 78295646 -9 4 8.802455e-01 0 5 76 0 6 -1 1.333333e+00 LUSC-21-1076 279 23 0 7754617 23 1 7756143 deletion 1668 4 0 0 0 26_samples:0 7754302 7754478 177 35 7756146 7756268 123 12 VCX IGR: 56Kb before VCX(+) VCX IGR: 54Kb before VCX(+) - 0 0 0 0 0 0 0 0 -6.715551e-01 -1.523573e+00 1 4 1 4 1 7754478 7756146 1 7754617 139 7756143 -3 5 1 0 5 77 0 8 1 7754555 77 7755790 -356 3 8.669214e-01 0 5 79 0 4 1 2 LUSC-21-1078 1 9 0 20863778 9 1 21972267 long_range 1108543 27 0 0 0 26_samples:0 20863480 20863714 235 60 21972257 21972532 276 61 KIAA1797 Intron of KIAA1797(+): 1Kb after exon 18 CDKN2A Intron of CDKN2A(-): 1Kb before exon 2 Antisense fusion 0 0 0 0 3 1 1 0 3.014179e-02 9.085482e-02 1 27 1 27 1 20863714 21972257 1 20863778 64 21972267 10 20 9.946635e-01 0 2 80 0 36 1 20863778 64 21972267 10 1 1 0 2 80 0 3 1 12 LUSC-21-1078 2 2 0 164463098 2 1 164625511 deletion 162427 15 0 0 0 26_samples:0 164462702 164463103 402 78 164625530 164625758 229 46 FIGN IGR: 1Kb before FIGN(-) FIGN IGR: 33Kb after FIGN(-) - 2.000000e-02 0 0 0 2 0 2 0 1.050110e+00 -7.262053e-01 9.998742e-01 1.499811e+01 1 1.499811e+01 1 164463103 164625530 1 164463098 -5 164625511 -19 20 9.891559e-01 0 1 72 0 28 1 -1 -164463104 -1 -164625531 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1078 3 1 0 63822134 4 0 96041630 inter_chr NaN 6 0 0 0 26_samples:0 63822031 63822134 104 4 96041286 96041630 345 92 ALG6 IGR: 11Kb before ALG6(+) BMPR1B Intron of BMPR1B(+): 3Kb before exon 7 - 6.000000e-02 9.000000e-02 2.000000e-02 2.000000e-02 2 2 2 2 -2.197211e+00 1.459552e+00 9.115337e-01 5.469202e+00 1 5.469202e+00 1 63822134 96041630 1 63822131 -3 96041803 173 9 9.956722e-01 0 40 101 0 42 1 63822131 -3 96041803 173 7 9.860814e-01 0 40 101 0 20 -1 2.100000e+00 LUSC-21-1082 1 22 0 50653911 22 1 50970516 deletion 316606 68 0 0 0 26_samples:0 50653553 50653908 356 62 50970514 50971050 537 77 SELO Intron of SELO(+): 238bp before exon 6 ODF3B 5'-UTR of ODF3B(-): 8bp before coding start Antisense fusion 0 0 0 0 3 4 2 1 -3.037880e-02 9.987380e-01 1 68 1 68 1 50653908 50970514 1 50653911 3 50970516 2 20 9.625228e-01 0 0 78 0 59 1 -1 -50653909 -1 -50970515 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 2 10 1 22621596 10 1 23559134 inversion 937536 63 0 0 0 26_samples:0 22621592 22621974 383 75 23559128 23559439 312 69 BMI1 IGR: 1Kb after BMI1(+) C10orf67 IGR: 46Kb before C10orf67(-) - 0 0 1.000000e-02 2.000000e-02 3 1 3 1 8.615224e-01 4.498757e-01 1 63 1 63 1 22621592 23559128 1 22621596 4 23559134 6 20 9.969195e-01 1 4 66 0 58 1 -1 -22621593 -1 -23559129 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 3 20 0 51223218 20 1 52173232 deletion 950003 61 0 0 0 26_samples:0 51222881 51223226 346 68 52173229 52173767 539 77 TSHZ2 IGR: 366Kb before TSHZ2(+) ZNF217 IGR: 10Kb before ZNF217(-) - 0 0 1.000000e-02 2.000000e-02 4 5 3 4 3.812679e-01 9.987380e-01 9.985687e-01 6.091269e+01 1 6.091269e+01 1 51223226 52173229 1 51223218 -8 52173232 3 20 9.742505e-01 0 5 72 0 68 1 -1 -51223227 -1 -52173230 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 4 1 0 208593911 19 0 11121434 inter_chr NaN 40 0 0 0 26_samples:0 208593647 208593916 270 56 11121021 11121435 415 71 PLXNA2 IGR: 398Kb before PLXNA2(-) SMARCA4 Intron of SMARCA4(+): 228bp after exon 14 - 3.000000e-02 0 0 0 2 2 1 1 -4.420255e-01 5.870913e-01 1 40 1 40 1 208593916 11121435 1 208593911 -5 11121434 -1 20 9.773775e-01 0 2 78 0 26 1 -1 -208593917 -1 -11121436 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 5 13 0 103685188 13 1 103697124 deletion 11928 35 0 0 0 26_samples:0 103684791 103685192 402 74 103697120 103697537 418 71 SLC10A2 IGR: 11Kb before SLC10A2(-) SLC10A2 3'-UTR of SLC10A2(-): 1Kb after coding stop - 1.000000e-02 0 3.000000e-02 2.000000e-02 2 4 2 1 7.929146e-01 5.870913e-01 1 35 1 35 1 103685192 103697120 1 103685188 -4 103697124 4 20 9.944983e-01 0 4 84 0 36 1 103685045 -147 103696912 -208 2 8.512809e-01 0 7 77 0 7 1 5.142857e+00 LUSC-21-1082 6 5 0 7627919 5 1 7693965 deletion 66036 33 0 0 0 26_samples:0 7627497 7627927 431 73 7693963 7694310 348 62 ADCY2 Intron of ADCY2(+): 1Kb after exon 4 ADCY2 Intron of ADCY2(+): 2Kb before exon 6 Deletion of 1 exon: out of frame 0 0 0 0 2 1 2 0 7.243068e-01 -3.037880e-02 1 33 1 33 1 7627927 7693963 1 7627919 -8 7693965 2 20 9.897667e-01 0 1 75 0 38 1 -1 -7627928 -1 -7693964 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 7 10 0 23593868 10 0 23602091 inversion 8226 32 0 0 0 26_samples:0 23593572 23593871 300 64 23601777 23602097 321 66 C10orf67 IGR: 12Kb before C10orf67(-) C10orf67 IGR: 3Kb before C10orf67(-) - 0 0 0 0 2 1 2 0 1.068368e-01 2.440523e-01 1 32 1 32 1 23593871 23602097 1 23593868 -3 23602091 -6 20 9.908132e-01 0 1 70 0 49 1 -1 -23593872 -1 -23602098 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 9 1 0 201111030 1 1 201267420 deletion 156387 30 0 0 0 26_samples:0 201110758 201111032 275 58 201267419 201267857 439 77 TMEM9 Intron of TMEM9(-): 2Kb after exon 5 PKP1 Intron of PKP1(+): 4Kb after exon 2 - 0 0 0 0 1 0 4 1 -3.048099e-01 9.987380e-01 1 30 1 30 1 201111032 201267419 1 201111030 -2 201267420 1 20 9.753978e-01 0 3 72 0 47 1 -1 -201111033 -1 -201267420 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 10 4 0 53751006 4 1 53752735 deletion 1728 30 0 0 0 26_samples:0 53750605 53751011 407 71 53752739 53753083 345 67 SCFD2 Intron of SCFD2(-): 903bp after exon 8 SCFD2 Intron of SCFD2(-): 706bp before exon 8 Deletion of 1 exon: in frame 0 0 0 0 1 0 0 0 5.870913e-01 3.126601e-01 1 30 1 30 1 53751011 53752739 1 53751006 -5 53752735 -4 20 9.668354e-01 0 2 77 0 35 1 -1 -53751012 -1 -53752740 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 11 2 0 21482738 7 0 67788336 inter_chr NaN 28 0 0 0 26_samples:0 21482440 21482743 304 57 67788045 67788338 294 60 APOB IGR: 258Kb before APOB(-) STAG3L4 IGR: 1Mb before STAG3L4(+) - 0 0 0 0 2 1 1 3 -2.994576e-01 -1.179719e-01 1 28 1 28 1 21482743 67788338 1 21482738 -5 67788336 -2 16 9.656776e-01 0 4 85 0 27 1 -1 -21482744 -1 -67788339 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 13 12 1 68144319 12 0 113957399 long_range 45813092 27 0 0 0 26_samples:0 68144316 68144631 316 60 113957099 113957408 310 56 DYRK2 IGR: 102Kb before DYRK2(+) LHX5 IGR: 57Kb before LHX5(-) - 0 0 0 0 2 0 3 1 -1.179719e-01 -3.599528e-01 1 27 1 27 1 68144316 113957408 1 68144319 3 113957399 -9 20 9.853437e-01 1 0 64 0 37 1 -1 -68144317 -1 -113957409 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 14 3 1 118220083 3 1 118302650 inversion 82546 26 0 0 0 26_samples:0 118220106 118220380 275 46 118302652 118302909 258 42 IGSF11 IGR: 399Kb before IGSF11(-) IGSF11 IGR: 317Kb before IGSF11(-) - 0 0 0 0 4 2 2 0 -9.649052e-01 -1.206886e+00 1 26 1 26 1 118220106 118302652 1 118220083 -23 118302650 -2 14 9.981493e-01 1 3 79 0 24 1 -1 -118220107 -1 -118302653 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 12 1 0 26664244 1 1 27195969 deletion 531722 27 0 0 0 26_samples:0 26663892 26664246 355 68 27195968 27196261 294 61 AIM1L Intron of AIM1L(-): 81bp before exon 8 SFN IGR: 6Kb before SFN(+) - 0 0 5.000000e-02 5.000000e-02 4 3 4 6 3.659900e-01 -5.747664e-02 9.277219e-01 2.504849e+01 1 2.504849e+01 1 26664246 27195968 1 26664244 -2 27195969 1 20 9.916414e-01 0 3 69 0 35 1 -1 -26664247 -1 -27195969 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 17 7 0 112736659 10 1 132958123 inter_chr NaN 25 0 0 0 26_samples:0 112736358 112736658 301 60 132958119 132958415 297 62 GPR85 IGR: 16Kb before GPR85(-) TCERG1L Intron of TCERG1L(-): 3Kb after exon 6 - 0 0 0 0 5 1 2 1 -1.179719e-01 3.018605e-03 9.927793e-01 2.481948e+01 1 2.481948e+01 1 112736658 132958119 1 112736659 1 132958123 4 20 9.772173e-01 0 0 65 0 32 1 -1 -112736659 -1 -132958120 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 16 6 1 30969730 6 0 32988254 long_range 2018494 25 0 0 0 26_samples:0 30969738 30970237 500 82 32987993 32988232 240 48 MUC21 IGR: 18Kb before MUC21(+) HLA-DOA IGR: 16Kb before HLA-DOA(-) - 0 0 0 0 3 3 3 4 1.212923e+00 -8.439148e-01 9.904391e-01 2.476098e+01 1 2.476098e+01 1 30969738 32988232 1 30969730 -8 32988254 22 18 9.894586e-01 1 2 73 0 30 1 -1 -30969739 -1 -32988233 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 20 16 0 21625070 16 1 22933565 long_range 1308486 24 0 0 0 26_samples:0 21624749 21625076 328 68 22933562 22933891 330 70 METTL9 Intron of METTL9(+): 920bp after exon 2 HS3ST2 IGR: 6Kb after HS3ST2(+) - 3.000000e-02 0 1.000000e-02 0 2 1 3 0 3.659900e-01 4.869805e-01 1 24 1 24 1 21625076 22933562 1 21625070 -6 22933565 3 20 9.993494e-01 0 2 74 0 34 1 -1 -21625077 -1 -22933563 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 22 2 1 148674794 2 0 232314069 long_range 83639274 22 0 0 0 26_samples:0 148674800 148675151 352 66 232313784 232314074 291 52 ACVR2A Intron of ACVR2A(+): 52bp before exon 6 NCL IGR: 5Kb before NCL(-) - 0 0 2.000000e-02 3.000000e-02 3 0 4 2 2.449996e-01 -6.019338e-01 1 22 1 22 1 148674800 232314074 1 148674794 -6 232314069 -5 20 9.698414e-01 1 0 73 0 24 1 -1 -148674801 -1 -232314075 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 24 7 1 112704102 10 0 132987397 inter_chr NaN 22 0 0 0 26_samples:0 112704098 112704404 307 70 132987094 132987398 305 71 GPR85 IGR: 16Kb before GPR85(-) TCERG1L Intron of TCERG1L(-): 22Kb before exon 5 - 0 0 0 0 2 0 2 1 4.869805e-01 5.474758e-01 1 22 1 22 1 112704098 132987398 1 112704102 4 132987397 -1 12 1 1 2 65 0 17 1 -1 -112704099 -1 -132987399 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 21 19 0 59033719 19 0 59057403 inversion 23674 23 0 0 0 26_samples:0 59033461 59033727 267 45 59057118 59057401 284 43 ZBTB45 Promoter of ZBTB45(-): 3Kb from tx start TRIM28 Intron of TRIM28(+): 138bp after exon 3 Transcript fusion (TRIM28-ZBTB45) 2.000000e-02 4.000000e-02 0 0 2 4 6 2 -1.025400e+00 -1.146391e+00 9.225346e-01 2.121830e+01 1 2.121830e+01 1 59033727 59057401 1 59033719 -8 59057403 2 20 9.793950e-01 0 2 75 0 37 1 -1 -59033728 -1 -59057402 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 25 9 0 18875789 9 1 18970038 deletion 94241 22 0 0 0 26_samples:0 18875369 18875791 423 84 18970032 18970358 327 68 ADAMTSL1 Intron of ADAMTSL1(+): 12Kb before exon 24 FAM154A Intron of FAM154A(-): 19Kb before exon 2 Antisense fusion 0 3.000000e-02 0 0 4 2 3 1 1.333914e+00 3.659900e-01 9.641055e-01 2.121032e+01 1 2.121032e+01 1 18875791 18970032 1 18875789 -2 18970038 6 18 9.922502e-01 0 2 77 0 21 1 -1 -18875792 -1 -18970033 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 33 15 1 66030360 19 1 59039458 inter_chr NaN 20 0 0 0 26_samples:0 66030354 66030679 326 60 59039498 59039752 255 46 DENND4A Intron of DENND4A(-): 71bp before exon 7 ZBTB45 IGR: 15Kb before ZBTB45(-) - 0 0 0 0 2 1 3 2 -1.179719e-01 -9.649052e-01 1 20 1 20 1 66030354 59039498 1 66030360 6 59039458 -40 15 9.778830e-01 1 0 69 0 22 1 -1 -66030355 -1 -59039499 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 18 12 1 69636715 12 1 70011780 inversion 375062 25 0 0 0 26_samples:0 69636713 69637116 404 89 70011775 70012054 280 59 CPSF6 Intron of CPSF6(+): 3Kb after exon 1 LRRC10 IGR: 7Kb after LRRC10(-) - 0 0 0 0 4 3 1 1 1.636390e+00 -1.784671e-01 7.950812e-01 1.987703e+01 1 1.987703e+01 1 69636713 70011775 1 69636715 2 70011780 5 20 9.836969e-01 1 3 76 0 31 1 -1 -69636714 -1 -70011776 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 29 2 0 202108098 2 1 232313961 long_range 30205860 20 0 0 0 26_samples:0 202107818 202108098 281 56 232313958 232314245 288 56 CASP8 5'-UTR of CASP8(+): 23Kb before coding start NCL IGR: 6Kb before NCL(-) - 0 0 0 0 5 0 4 3 -3.599528e-01 -3.599528e-01 9.914585e-01 1.982917e+01 1 1.982917e+01 1 202108098 232313958 1 202108098 0 232313961 3 18 9.838241e-01 0 5 68 0 19 1 -1 -202108099 -1 -232313959 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 30 3 1 7927674 3 0 53139337 long_range 45211622 20 0 0 0 26_samples:0 7927677 7927970 294 58 53139031 53139299 269 52 LOC100288428 IGR: 335Kb before LOC100288428(-) RFT1 Intron of RFT1(-): 390bp after exon 9 - 2.000000e-02 0 2.000000e-02 2.000000e-02 5 1 2 3 -2.389624e-01 -6.019338e-01 9.914585e-01 1.982917e+01 1 1.982917e+01 1 7927677 53139299 1 7927674 -3 53139337 38 11 9.545765e-01 1 0 70 1 T 16 1 -1 -7927678 -1 -53139300 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 26 22 0 38579988 22 1 39909708 long_range 1329756 22 0 0 0 26_samples:0 38579643 38579992 350 67 39909748 39910182 435 87 PLA2G6 Promoter of PLA2G6(-): 2Kb from tx start SMCR7L Exon 6 of SMCR7L(+) - 2.000000e-02 2.000000e-02 0 0 4 3 3 1 3.054948e-01 1.515400e+00 8.795778e-01 1.935071e+01 1 1.935071e+01 1 38579992 39909748 1 38579988 -4 39909708 -40 20 9.860489e-01 0 5 75 0 40 1 -1 -38579993 -1 -39909749 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 27 2 1 60455603 4 0 66818076 inter_chr NaN 21 0 0 0 26_samples:0 60455598 60456001 404 73 66817896 66818081 186 29 BCL11A IGR: 223Kb before BCL11A(-) EPHA5 IGR: 282Kb after EPHA5(-) - 0 0 3.000000e-02 0 2 1 6 1 6.684662e-01 -1.993324e+00 9.198658e-01 1.931718e+01 1 1.931718e+01 1 60455598 66818081 1 60455603 5 66818076 -5 7 9.789860e-01 1 2 73 0 15 1 -1 -60455599 -1 -66818082 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 28 2 0 60462006 4 1 66817883 inter_chr NaN 21 0 0 0 26_samples:0 60461510 60461977 468 75 66817870 66818076 207 31 BCL11A IGR: 216Kb before BCL11A(-) EPHA5 IGR: 282Kb after EPHA5(-) - 0 0 3.000000e-02 0 5 3 6 1 7.894567e-01 -1.872334e+00 9.122625e-01 1.915751e+01 1 1.915751e+01 1 60461977 66817870 1 60462006 29 66817883 13 13 9.992760e-01 0 3 86 0 19 1 -1 -60461978 -1 -66817871 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 35 2 0 148675079 2 1 202110894 long_range 53435822 19 0 0 0 26_samples:0 148674822 148675082 261 54 202110904 202111201 298 60 ACVR2A Intron of ACVR2A(+): 87bp after exon 6 CASP8 5'-UTR of CASP8(+): 20Kb before coding start Transcript fusion (ACVR2A-CASP8) 0 0 0 0 3 0 2 2 -4.178957e-01 -8.469438e-02 1 19 1 19 1 148675082 202110904 1 148675079 -3 202110894 -10 20 9.827950e-01 0 3 74 0 34 1 -1 -148675083 -1 -202110905 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 37 19 1 47582268 19 0 47591979 tandem_dup 9702 19 0 0 0 26_samples:0 47582284 47582678 395 75 47591750 47591986 237 44 ZC3H4 Intron of ZC3H4(-): 2Kb after exon 11 ZC3H4 Intron of ZC3H4(-): 1Kb after exon 5 Duplication of 6 exons: out of frame 3.000000e-02 4.000000e-02 0 2.000000e-02 3 1 3 2 7.483090e-01 -9.732313e-01 1 19 1 19 1 47582284 47591986 1 47582268 -16 47591979 -7 20 9.691406e-01 1 2 73 0 35 1 47582077 -207 47591882 -104 5 8.447693e-01 1 6 95 0 11 1 3.181818e+00 LUSC-21-1082 19 8 1 2477654 22 1 22667353 inter_chr NaN 24 0 0 0 26_samples:0 2477652 2477939 288 59 22667350 22667602 253 46 CSMD1 IGR: 315Kb before CSMD1(-) LOC96610 5'-UTR of LOC96610(+): 10Kb before coding start - 0 3.000000e-02 2.600000e-01 2.500000e-01 4 0 7 4 -1.784671e-01 -9.649052e-01 7.652705e-01 1.836649e+01 1 1.836649e+01 1 2477652 22667350 1 2477654 2 22667353 3 16 9.768040e-01 1 1 76 0 27 1 -1 -2477653 -1 -22667351 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 34 2 0 115485110 2 1 127546902 long_range 12061812 19 0 0 0 26_samples:0 115484622 115485086 465 86 127546898 127547255 358 60 DPP10 Intron of DPP10(+): 285Kb after exon 1 GYPC IGR: 133Kb before GYPC(+) - 0 0 2.000000e-02 0 3 3 3 2 1.359178e+00 -8.469438e-02 9.557149e-01 1.815858e+01 1 1.815858e+01 1 115485086 127546898 1 115485110 24 127546902 4 14 9.723456e-01 0 0 76 0 24 1 -1 -115485087 -1 -127546899 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 41 13 0 48721735 13 1 49101706 deletion 379969 18 0 0 0 26_samples:0 48721419 48721732 314 62 49101701 49101972 272 62 MED4 IGR: 52Kb after MED4(-) RCBTB2 5'-UTR of RCBTB2(-): 6Kb before coding start - 2.000000e-02 4.000000e-02 0 0 4 2 2 0 2.637273e-02 2.637273e-02 1 18 1 18 1 48721732 49101701 1 48721735 3 49101706 5 11 9.954161e-01 0 2 77 0 14 1 -1 -48721733 -1 -49101702 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 39 11 1 117682295 11 0 118340680 tandem_dup 658396 18 0 0 0 26_samples:0 117682289 117682593 305 60 118340427 118340685 259 58 FXYD2 IGR: 9Kb before FXYD2(-) MLL Intron of MLL(+): 1Kb after exon 2 - 4.000000e-02 6.000000e-02 0 0 5 2 2 0 -8.469438e-02 -1.957615e-01 9.846154e-01 1.772308e+01 1 1.772308e+01 1 117682289 118340685 1 117682295 6 118340680 -5 20 9.747041e-01 1 1 70 0 36 1 117682207 -82 118340832 147 1 8.888684e-01 1 0 76 12 AGATCGGAAGAG 3 1 12 LUSC-21-1082 40 11 0 108303623 13 0 73498704 inter_chr NaN 18 0 0 0 26_samples:0 108303333 108303627 295 63 73498375 73498683 309 60 C11orf65 Intron of C11orf65(-): 1Kb before exon 3 PIBF1 Intron of PIBF1(+): 7Kb before exon 14 Protein fusion: out of frame (PIBF1-C11orf65) 0 0 1.000000e-02 0 2 0 5 2 8.190629e-02 -8.469438e-02 9.846154e-01 1.772308e+01 1 1.772308e+01 1 108303627 73498683 1 108303623 -4 73498704 21 12 9.951068e-01 0 3 66 0 21 1 -1 -108303628 -1 -73498684 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 36 6 0 112713340 6 1 113501560 deletion 788208 19 0 0 0 26_samples:0 112713062 112713348 287 73 113501556 113501841 286 71 RFPL4B IGR: 45Kb before RFPL4B(+) MARCKS IGR: 677Kb before MARCKS(+) - 0 0 0 0 2 1 6 3 6.372419e-01 5.261747e-01 8.888889e-01 1.688889e+01 1 1.688889e+01 1 112713348 113501556 1 112713340 -8 113501560 4 5 1 0 3 67 0 12 1 -1 -112713349 -1 -113501557 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 15 2 0 101747259 2 1 108362467 long_range 6615211 25 0 0 0 26_samples:0 101746965 101747250 286 70 108362461 108362956 496 92 TBC1D8 Intron of TBC1D8(-): 20Kb after exon 1 LOC729121 IGR: 77Kb before LOC729121(-) - 0 0 0 2.000000e-02 1 0 5 3 4.869805e-01 1.817876e+00 6.417058e-01 1.604265e+01 1 1.604265e+01 1 101747250 108362461 1 101747259 9 108362467 6 20 9.941759e-01 0 2 76 0 29 1 -1 -101747251 -1 -108362462 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 43 3 0 71061987 3 1 71273139 deletion 211156 16 0 0 0 26_samples:0 71061667 71061992 326 68 71273148 71273478 331 65 FOXP1 Intron of FOXP1(-): 3Kb after exon 12 FOXP1 5'-UTR of FOXP1(-): 26Kb before coding start Deletion within transcript 0 0 0 0 1 0 4 2 3.595741e-01 1.929734e-01 1 16 1 16 1 71061992 71273148 1 71061987 -5 71273139 -9 15 9.759242e-01 0 3 65 0 18 1 -1 -71061993 -1 -71273149 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 46 1 1 43833505 1 1 246385307 long_range 202551750 15 0 0 0 26_samples:0 43833572 43833779 208 34 246385322 246385537 216 36 ELOVL1 5'-UTR of ELOVL1(-): 2Kb before coding start SMYD3 Intron of SMYD3(-): 105Kb after exon 5 Antisense fusion 0 0 0 0 2 0 2 0 -1.528567e+00 -1.417500e+00 1 15 1 15 1 43833572 246385322 1 43833505 -67 246385307 -15 9 9.127819e-01 1 3 56 0 15 1 -1 -43833573 -1 -246385323 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 45 5 0 36839032 10 0 22805004 inter_chr NaN 16 0 0 0 26_samples:0 36838712 36839038 327 76 22804708 22805010 303 65 NIPBL IGR: 38Kb before NIPBL(+) PIP4K2A IGR: 19Kb before PIP4K2A(-) - 0 0 0 0 2 1 6 2 8.038425e-01 1.929734e-01 8.888889e-01 1.422222e+01 1 1.422222e+01 1 36839038 22805010 1 36839032 -6 22805004 -6 11 9.988526e-01 0 4 70 0 20 1 -1 -36839039 -1 -22805011 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 49 2 1 43415669 2 0 43453854 tandem_dup 38158 14 0 0 0 26_samples:0 43415666 43416004 339 81 43453615 43453824 210 57 ZFP36L2 IGR: 34Kb before ZFP36L2(-) ZFP36L2 Promoter of ZFP36L2(-): 79bp from tx start - 2.000000e-02 3.000000e-02 0 0 4 2 1 0 1.031417e+00 -2.137452e-01 9.999690e-01 1.399957e+01 1 1.399957e+01 1 43415666 43453824 1 43415669 3 43453854 30 12 9.888071e-01 1 1 66 0 41 1 -1 -43415667 -1 -43453825 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 8 15 0 77142120 15 1 77158253 deletion 16129 32 0 0 0 26_samples:0 77141809 77142118 310 63 77158247 77158549 303 62 SCAPER Intron of SCAPER(-): 8Kb before exon 4 SCAPER Intron of SCAPER(-): 3Kb before exon 2 Deletion of 2 exons: in frame 0 0 0 0 2 1 9 2 3.822899e-02 -3.037880e-02 4.155527e-01 1.329769e+01 1 1.329769e+01 1 77142118 77158247 1 77142120 2 77158253 6 20 9.984994e-01 0 4 77 0 39 1 -1 -77142119 -1 -77158248 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 53 4 1 2715400 4 1 46672620 long_range 43957222 13 0 0 0 26_samples:0 2715399 2715668 270 61 46672621 46672973 353 73 FAM193A Intron of FAM193A(+): 2Kb before exon 18 COX7B2 IGR: 64Kb before COX7B2(-) - 0 0 0 0 3 1 3 2 -6.218139e-03 6.163629e-01 1 13 1 13 1 2715399 46672621 1 2715400 1 46672620 -1 19 9.818307e-01 1 0 73 0 25 1 -1 -2715400 -1 -46672622 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 55 11 0 127489260 13 1 50501682 inter_chr NaN 13 0 0 0 26_samples:0 127488964 127489263 300 69 50501676 50502002 327 67 ETS1 IGR: 839Kb before ETS1(-) C13orf1 Intron of C13orf1(-): 379bp after exon 2 - 0 0 0 0 3 1 4 2 4.088359e-01 3.050724e-01 1 13 1 13 1 127489263 50501676 1 127489260 -3 50501682 6 20 9.970311e-01 0 1 69 0 36 1 127489440 177 50501474 -202 1 8.727367e-01 0 8 111 0 5 1 7.200000e+00 LUSC-21-1082 56 12 0 52909029 12 1 52910420 deletion 1494 13 0 0 0 26_samples:0 52908730 52908916 187 28 52910410 52910591 182 39 KRT5 Exon 9 of KRT5(-) KRT5 Intron of KRT5(-): 11bp after exon 7 Deletion within transcript: mid-exon 0 0 0 2.000000e-02 2 2 1 0 -1.718316e+00 -1.147617e+00 1 13 1 13 1 52908916 52910410 1 52909029 113 52910420 10 6 9.422861e-01 0 5 84 35 AGATGTTGACTGGTCCAACTCCTTCTCCACTGAGT 21 1 -1 -52908917 -1 -52910411 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 57 20 0 49533381 20 1 49579256 deletion 45878 13 0 0 0 26_samples:0 49533140 49533376 237 50 49579254 49579520 267 62 ADNP 5'-UTR of ADNP(-): 13Kb before coding start MOCS3 IGR: 4Kb before MOCS3(+) - 0 0 2.000000e-02 2.000000e-02 2 0 4 3 -5.769174e-01 4.566361e-02 1 13 1 13 1 49533376 49579254 1 49533381 5 49579256 2 12 9.884302e-01 0 2 69 0 19 1 -1 -49533377 -1 -49579255 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 54 10 0 76956374 10 1 77370926 deletion 414551 13 0 0 0 26_samples:0 76955960 76956370 411 85 77370921 77371187 267 53 VDAC2 IGR: 14Kb before VDAC2(+) C10orf11 IGR: 172Kb before C10orf11(+) - 2.000000e-02 0 0 0 4 4 3 2 1.238944e+00 -4.212722e-01 9.865413e-01 1.282504e+01 1 1.282504e+01 1 76956370 77370921 1 76956374 4 77370926 5 6 9.735572e-01 0 2 78 0 12 1 -1 -76956371 -1 -77370922 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 38 1 0 48481907 23 1 11952829 inter_chr NaN 18 0 0 0 26_samples:0 48481592 48481909 318 62 11952824 11953106 283 58 SKINTL IGR: 85Kb before SKINTL(-) MSL3 IGR: 175Kb before MSL3(+) - 0 0 0 0 3 2 7 3 2.637273e-02 -1.957615e-01 7.032967e-01 1.265934e+01 1 1.265934e+01 1 48481909 11952824 1 48481907 -2 11952829 5 6 1 0 2 73 0 13 1 -1 -48481910 -1 -11952825 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 66 14 1 61072826 14 1 62170657 long_range 1097829 12 0 0 0 26_samples:0 61072831 61073143 313 72 62170660 62170935 276 58 SIX1 IGR: 39Kb before SIX1(-) HIF1A Intron of HIF1A(+): 8Kb after exon 1 - 0 0 0 0 2 2 2 0 5.644811e-01 -1.618634e-01 1 12 1 12 1 61072831 62170660 1 61072826 -5 62170657 -3 13 9.857516e-01 1 2 67 0 19 1 -1 -61072832 -1 -62170661 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 58 23 1 53500975 23 0 53579959 tandem_dup 78968 13 0 0 0 26_samples:0 53500991 53501245 255 59 53579548 53579959 412 89 HSD17B10 IGR: 43Kb before HSD17B10(-) HUWE1 Intron of HUWE1(-): 105bp before exon 62 - 2.000000e-02 1.100000e-01 0 0 3 2 3 1 -1.099816e-01 1.446471e+00 9.182754e-01 1.193758e+01 1 1.193758e+01 1 53500991 53579959 1 53500975 -16 53579959 0 7 9.913569e-01 1 3 76 0 8 1 -1 -53500992 -1 -53579960 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 63 5 0 52838956 5 1 173266806 long_range 120427873 12 0 0 0 26_samples:0 52838528 52838953 426 87 173266826 173267058 233 47 NDUFS4 IGR: 18Kb before NDUFS4(+) CPEB4 IGR: 49Kb before CPEB4(+) - 0 0 0 0 4 1 4 2 1.342707e+00 -7.325627e-01 9.613070e-01 1.153568e+01 1 1.153568e+01 1 52838953 173266826 1 52838956 3 173266806 -20 18 9.739780e-01 0 3 65 0 21 1 -1 -52838954 -1 -173266827 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 44 4 0 18626238 4 1 18816901 deletion 190682 16 0 0 0 26_samples:0 18625763 18626235 473 93 18816917 18817227 311 73 LCORL IGR: 744Kb before LCORL(-) LCORL IGR: 935Kb before LCORL(-) - 0 0 2.000000e-02 0 2 1 3 1 1.747913e+00 6.372419e-01 7.050382e-01 1.128061e+01 1 1.128061e+01 1 18626235 18816917 1 18626238 3 18816901 -16 15 9.769481e-01 0 2 66 0 21 1 -1 -18626236 -1 -18816918 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 67 1 0 43984436 1 0 245853272 long_range 201868838 11 0 0 0 26_samples:0 43984171 43984436 266 48 245852992 245853274 283 60 PTPRF IGR: 12Kb before PTPRF(+) KIF26B Intron of KIF26B(+): 1Kb after exon 12 - 0 0 2.000000e-02 2.000000e-02 1 3 1 4 -6.230194e-01 -3.623671e-02 1 11 1 11 1 43984436 245853274 1 43984436 0 245853272 -2 6 1 0 1 75 0 7 1 -1 -43984437 -1 -245853275 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 72 3 1 133034369 3 0 133260642 tandem_dup 226244 11 0 0 0 26_samples:0 133034402 133034664 263 58 133260354 133260646 293 59 TMEM108 Intron of TMEM108(+): 64Kb before exon 4 CDV3 IGR: 32Kb before CDV3(+) - 0 0 0 0 2 0 3 1 -1.340338e-01 -8.513527e-02 1 11 1 11 1 133034402 133260646 1 133034369 -33 133260642 -4 7 8.890708e-01 1 1 72 0 13 1 -1 -133034403 -1 -133260647 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 73 3 1 187720896 3 0 187727114 tandem_dup 6198 11 0 0 0 26_samples:0 187720907 187721157 251 59 187726879 187727105 227 48 LPP IGR: 151Kb before LPP(+) LPP IGR: 145Kb before LPP(+) - 0 0 0 0 2 2 2 2 -8.513527e-02 -6.230194e-01 1 11 1 11 1 187720907 187727105 1 187720896 -11 187727114 9 12 9.954854e-01 1 0 70 0 41 1 -1 -187720908 -1 -187727106 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 74 4 0 2758013 10 0 126086482 inter_chr NaN 11 0 0 0 26_samples:0 2757847 2758011 165 28 126086168 126086395 228 43 TNIP2 Exon 1 of TNIP2(-) OAT 3'-UTR of OAT(-): 116bp after coding stop - 0 0 0 0 2 0 3 0 -1.600990e+00 -8.675122e-01 1 11 1 11 1 2758011 126086395 1 2758013 2 126086482 87 7 9.940011e-01 0 4 61 0 15 1 -1 -2758012 -1 -126086396 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 79 18 0 22672254 18 1 22827998 deletion 155755 11 0 0 0 26_samples:0 22672025 22672256 232 50 22828011 22828308 298 73 ZNF521 Intron of ZNF521(-): 211bp before exon 6 ZNF521 Intron of ZNF521(-): 20Kb before exon 4 Deletion of 2 exons: in frame 0 0 0 0 2 0 4 1 -5.252223e-01 5.994445e-01 1 11 1 11 1 22672256 22828011 1 22672254 -2 22827998 -13 11 9.986026e-01 0 3 76 0 14 1 -1 -22672257 -1 -22828012 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 75 7 0 33147281 7 1 33424154 deletion 276894 11 0 0 0 26_samples:0 33147027 33147267 241 51 33424161 33424471 311 65 RP9 Intron of RP9(-): 2Kb after exon 1 BBS9 Intron of BBS9(+): 711bp after exon 17 - 0 0 0 0 2 1 5 1 -4.763237e-01 2.082561e-01 9.846154e-01 1.083077e+01 1 1.083077e+01 1 33147267 33424161 1 33147281 14 33424154 -7 5 9.956987e-01 0 6 68 0 11 1 -1 -33147268 -1 -33424162 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 47 3 1 141964997 3 1 141967415 inversion 2416 15 0 0 0 26_samples:0 141964997 141965436 440 76 141967413 141967716 304 58 XRN1 IGR: 60Kb before XRN1(-) XRN1 IGR: 58Kb before XRN1(-) - 0 0 0 0 4 2 7 2 8.038425e-01 -1.957615e-01 7.032967e-01 1.054945e+01 1 1.054945e+01 1 141964997 141967413 1 141964997 0 141967415 2 7 9.784502e-01 1 3 74 0 15 1 -1 -141964998 -1 -141967414 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 62 4 0 12745212 12 0 77961741 inter_chr NaN 12 0 0 0 26_samples:0 12745044 12745219 176 25 77961447 77961748 302 61 HSP90AB2P IGR: 590Kb before HSP90AB2P(+) NAV3 IGR: 263Kb before NAV3(+) - 0 2.000000e-02 4.000000e-02 3.000000e-02 5 2 6 3 -1.873961e+00 -6.218139e-03 8.752137e-01 1.050256e+01 1 1.050256e+01 1 12745219 77961748 1 12745212 -7 77961741 -7 11 9.816504e-01 0 4 85 0 18 1 -1 -12745220 -1 -77961749 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 81 1 0 174168664 1 1 174179329 deletion 10661 10 0 0 0 26_samples:0 174168409 174168667 259 78 174179328 174179650 323 80 RABGAP1L 5'-UTR of RABGAP1L(+): 20Kb before coding start RABGAP1L 5'-UTR of RABGAP1L(+): 9Kb before coding start Deletion within transcript 1.000000e-02 0 0 0 3 0 3 2 8.439373e-01 9.417344e-01 1 10 1 10 1 174168667 174179328 1 174168664 -3 174179329 1 8 9.607049e-01 0 4 71 0 15 1 -1 -174168668 -1 -174179329 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 95 13 0 89976072 13 1 89977498 deletion 1422 10 0 0 0 26_samples:0 89975796 89976068 273 59 89977490 89977785 296 56 MIR622 IGR: 907Kb before MIR622(+) MIR622 IGR: 906Kb before MIR622(+) - 4.000000e-02 0 0 0 2 1 1 1 -8.513527e-02 -2.318309e-01 1 10 1 10 1 89976068 89977490 1 89976072 4 89977498 8 11 9.885569e-01 0 1 77 0 17 1 -1 -89976069 -1 -89977491 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 96 17 0 19603749 22 0 32019870 inter_chr NaN 10 0 0 0 26_samples:0 19603525 19603748 224 41 32019588 32019835 248 45 SLC47A2 Intron of SLC47A2(-): 2Kb after exon 13 PISD Exon 4 of PISD(-) - 0 0 0 0 2 1 1 1 -9.653093e-01 -7.697150e-01 1 10 1 10 1 19603748 32019835 1 19603749 1 32019870 35 7 9.975334e-01 0 4 70 0 21 1 -1 -19603749 -1 -32019836 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 109 3 0 3255628 3 0 56533765 long_range 53278128 9 0 0 0 26_samples:0 3255356 3255635 280 61 56533464 56533763 300 66 CRBN IGR: 34Kb after CRBN(-) CCDC66 IGR: 57Kb before CCDC66(+) - 0 0 0 0 1 0 1 2 3.875178e-02 2.684380e-01 1 9 1 9 1 3255635 56533763 1 3255628 -7 56533765 2 2 1 0 2 73 0 5 1 3255823 188 56533965 202 1 9.071538e-01 0 1 77 0 4 1 1.250000e+00 LUSC-21-1082 121 21 0 28698554 21 1 29002199 deletion 303730 9 0 0 0 26_samples:0 28698325 28698493 169 45 29002223 29002494 272 65 NCRNA00113 IGR: 396Kb before NCRNA00113(+) NCRNA00113 IGR: 92Kb before NCRNA00113(+) - 0 0 0 0 1 0 3 1 -6.962440e-01 2.225007e-01 1 9 1 9 1 28698493 29002223 1 28698554 61 29002199 -24 5 9.790815e-01 0 2 70 0 8 1 -1 -28698494 -1 -29002224 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 61 2 1 75593384 22 1 29065489 inter_chr NaN 12 0 0 0 26_samples:0 75593404 75593651 248 51 29065487 29065889 403 80 FAM176A IGR: 126Kb before FAM176A(-) TTC28 Intron of TTC28(-): 10Kb after exon 1 - 0 2.000000e-02 0 0 2 1 7 0 -5.250357e-01 9.795352e-01 7.032967e-01 8.439560e+00 1 8.439560e+00 1 75593404 29065487 1 75593384 -20 29065489 2 7 9.962637e-01 1 1 68 0 7 1 75593235 -169 29065285 -202 1 8.722626e-01 1 1 81 0 5 1 1.400000e+00 LUSC-21-1082 111 7 0 23702976 7 1 23793255 deletion 90318 9 0 0 0 26_samples:0 23702546 23702956 411 92 23793274 23793500 227 61 C7orf46 IGR: 17Kb before C7orf46(+) STK31 Intron of STK31(+): 660bp before exon 10 - 0 0 0 0 2 1 3 0 1.462806e+00 3.875178e-02 9.098120e-01 8.188308e+00 1 8.188308e+00 1 23702956 23793274 1 23702976 20 23793255 -19 12 9.925667e-01 0 2 58 0 16 1 -1 -23702957 -1 -23793275 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 99 1 1 159453604 1 0 159456781 tandem_dup 3139 9 0 0 0 26_samples:0 159453625 159453850 226 48 159456520 159456764 245 60 OR10J1 IGR: 44Kb before OR10J1(+) OR10J1 IGR: 47Kb before OR10J1(+) - 0 0 0 0 6 3 1 1 -5.584323e-01 -7.185457e-03 8.888889e-01 8 1 8 1 159453625 159456764 1 159453604 -21 159456781 17 4 8.064177e-01 1 0 67 0 14 1 -1 -159453626 -1 -159456765 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 119 19 0 27914937 19 1 27916578 deletion 1642 9 0 0 0 26_samples:0 27914659 27914930 272 61 27916572 27916840 269 59 LOC148189 IGR: 366Kb before LOC148189(-) LOC148189 IGR: 365Kb before LOC148189(-) - 3.000000e-02 1.100000e-01 2.500000e-01 1.400000e-01 2 1 6 3 3.875178e-02 -5.312269e-02 8.888889e-01 8 1 8 1 27914930 27916572 1 27914937 7 27916578 6 11 9.580267e-01 0 2 62 0 21 1 27915141 211 27916668 96 2 8.827673e-01 0 15 123 0 14 1 1.500000e+00 LUSC-21-1082 123 1 0 155330876 1 1 155332546 deletion 1661 8 0 0 0 26_samples:0 155330589 155330881 293 64 155332542 155332761 220 43 ASH1L Intron of ASH1L(-): 681bp before exon 13 ASH1L Intron of ASH1L(-): 2Kb before exon 13 Deletion within intron 0 3.000000e-02 0 0 4 3 0 1 1.765635e-01 -7.881185e-01 1 8 1 8 1 155330881 155332542 1 155330876 -5 155332546 4 8 9.991871e-01 0 5 64 0 13 1 -1 -155330882 -1 -155332543 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 145 3 1 3241639 3 1 56513455 long_range 53271816 8 0 0 0 26_samples:0 3241639 3241884 246 47 56513455 56513684 230 39 CRBN IGR: 50Kb before CRBN(-) ERC2 IGR: 11Kb after ERC2(-) - 0 0 0 0 2 1 3 0 -6.043695e-01 -9.718674e-01 1 8 1 8 1 3241639 56513455 1 3241629 -10 56513416 -39 1 9.021630e-01 1 0 70 1 G 3 1 -1 -3241640 -1 -56513456 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-21-1082 147 4 0 58549405 4 0 58815013 inversion 265609 8 0 0 0 26_samples:0 58549134 58549404 271 65 58814735 58815013 279 60 IGFBP7 IGR: 652Kb before IGFBP7(-) IGFBP7 IGR: 918Kb before IGFBP7(-) - 0 0 0 0 3 1 3 3 2.225007e-01 -7.185457e-03 1 8 1 8 1 58549404 58815013 1 58549405 1 58815013 0 6 8.598936e-01 0 0 82 12 CTAACACATAAT 13 1 -1 -58549405 -1 -58815014 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 31 11 1 108287422 13 1 73498113 inter_chr NaN 20 0 0 0 26_samples:0 108287431 108287818 388 72 73498112 73498596 485 97 C11orf65 Intron of C11orf65(-): 10Kb before exon 4 PIBF1 Intron of PIBF1(+): 7Kb after exon 13 Protein fusion: out of frame (C11orf65-PIBF1) 0 0 0 0 6 2 5 2 6.079710e-01 2.120352e+00 3.784586e-01 7.569172e+00 1 7.569172e+00 1 108287431 73498112 1 108287422 -9 73498113 1 13 9.940645e-01 1 5 74 0 18 1 -1 -108287432 -1 -73498113 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 120 20 0 35607480 22 1 32019940 inter_chr NaN 9 0 0 0 26_samples:0 35607086 35607484 399 93 32019935 32020230 296 69 RBL1 IGR: 19Kb before RBL1(-) PISD Intron of PISD(-): 100bp before exon 4 - 3.000000e-02 6.000000e-02 0 0 6 3 1 0 1.508743e+00 4.062497e-01 7.854645e-01 7.069181e+00 1 7.069181e+00 1 35607484 32019935 1 35607480 -4 32019940 5 10 9.920019e-01 0 0 70 0 20 1 -1 -35607485 -1 -32019936 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 93 6 0 139989451 22 0 29065771 inter_chr NaN 10 0 0 0 26_samples:0 139989172 139989451 280 62 29065502 29065764 263 70 CITED2 IGR: 296Kb before CITED2(-) TTC28 Intron of TTC28(-): 10Kb after exon 1 - 0 0 0 0 2 1 7 0 6.156040e-02 4.527488e-01 7.032967e-01 7.032967e+00 1 7.032967e+00 1 139989451 29065764 1 139989451 0 29065771 7 6 9.963908e-01 0 4 80 0 11 1 -1 -139989452 -1 -29065765 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 202 2 0 64976960 2 1 66795419 long_range 1818543 7 0 0 0 26_samples:0 64976704 64976870 167 23 66795413 66795597 185 35 SERTAD2 IGR: 118Kb before SERTAD2(-) MEIS1 Intron of MEIS1(+): 386bp before exon 11 - 0 0 0 0 1 0 3 0 -1.481924e+00 -9.921794e-01 1 7 1 7 1 64976870 66795413 1 64976960 90 66795419 6 11 9.899610e-01 0 5 74 0 12 1 -1 -64976871 -1 -66795414 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 247 22 0 31123428 22 1 32018716 deletion 895325 7 0 0 0 26_samples:0 31123148 31123423 276 61 32018748 32018963 216 40 OSBP2 Intron of OSBP2(+): 14Kb before exon 2 PISD Intron of PISD(-): 877bp before exon 5 Antisense fusion 0 0 0 0 1 2 2 0 6.893419e-02 -7.881191e-01 1 7 1 7 1 31123423 32018748 1 31123428 5 32018716 -32 12 9.949700e-01 0 4 69 0 23 1 -1 -31123424 -1 -32018749 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 209 4 1 174935889 4 0 174947439 tandem_dup 11527 7 0 0 0 26_samples:0 174935898 174936159 262 87 174947145 174947425 281 71 FBXO8 IGR: 222Kb before FBXO8(-) FBXO8 IGR: 210Kb before FBXO8(-) - 0 0 0 0 3 1 3 0 1.130048e+00 4.770548e-01 9.978054e-01 6.984638e+00 1 6.984638e+00 1 174935898 174947425 1 174935889 -9 174947439 14 9 9.798815e-01 1 1 80 0 14 1 174935697 -201 174947494 69 1 7.950751e-01 1 1 84 0 4 1 3.500000e+00 LUSC-21-1082 158 20 1 29861761 20 1 30051045 inversion 189284 8 0 0 0 26_samples:0 29861761 29862090 330 89 30051045 30051279 235 61 DEFB115 IGR: 16Kb before DEFB115(+) DEFB124 IGR: 2Kb before DEFB124(-) - 2.000000e-02 2.000000e-02 8.000000e-02 6.000000e-02 4 2 6 2 1.324994e+00 3.875178e-02 8.593892e-01 6.875113e+00 1 6.875113e+00 1 29861761 30051045 1 -1 -29861762 -1 -30051046 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -29861762 -1 -30051046 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-21-1082 244 19 0 19173950 19 1 19174935 deletion 980 7 0 0 0 26_samples:0 19173669 19173952 284 65 19174932 19175253 322 91 SLC25A42 Promoter of SLC25A42(+): 851bp from tx start SLC25A42 5'-UTR of SLC25A42(+): 32Kb before coding start Deletion within transcript 0 0 0 0 0 0 1 2 2.321824e-01 1.293296e+00 9.753908e-01 6.827736e+00 1 6.827736e+00 1 19173952 19174932 1 19173950 -2 19174935 3 4 1 0 0 73 0 13 1 -1 -19173953 -1 -19174933 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 216 6 0 93314142 11 1 77532834 inter_chr NaN 7 0 0 0 26_samples:0 93313867 93314102 236 42 77532857 77533044 188 50 EPHA7 IGR: 636Kb before EPHA7(-) C11orf67 5'-UTR of C11orf67(+): 21Kb before coding start - 0 0 0 0 6 1 4 0 -7.064950e-01 -3.799985e-01 8.888889e-01 6.222222e+00 1 6.222222e+00 1 93314102 77532857 1 93314142 40 77532834 -23 9 9.821935e-01 0 4 76 0 11 1 -1 -93314103 -1 -77532858 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 322 2 0 123942633 21 1 31142445 inter_chr NaN 6 0 0 0 26_samples:0 123942449 123942626 178 38 31142521 31142736 216 55 CNTNAP5 IGR: 840Kb before CNTNAP5(+) GRIK1 Intron of GRIK1(-): 76Kb before exon 2 - 2.000000e-02 2.000000e-02 0 0 4 3 2 0 -8.697433e-01 -1.759382e-01 1 6 1 6 1 123942626 31142521 1 123942633 7 31142445 -76 5 1 0 2 60 0 10 1 -1 -123942627 -1 -31142522 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 323 2 1 123942410 21 0 31153259 inter_chr NaN 6 0 0 0 26_samples:0 123942410 123942628 219 45 31152991 31153215 225 44 CNTNAP5 IGR: 840Kb before CNTNAP5(+) GRIK1 Intron of GRIK1(-): 87Kb before exon 2 - 2.000000e-02 2.000000e-02 0 0 4 3 2 1 -5.840588e-01 -6.248709e-01 1 6 1 6 1 123942410 31153215 1 123942410 0 31153259 44 2 1 1 2 71 0 8 1 -1 -123942411 -1 -31153216 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 324 3 0 118307339 4 1 58547808 inter_chr NaN 6 0 0 0 26_samples:0 118307056 118307309 254 62 58547802 58548021 220 57 IGSF11 IGR: 312Kb before IGSF11(-) IGFBP7 IGR: 651Kb before IGFBP7(-) - 0 0 0 0 3 3 3 0 1.097463e-01 -9.431406e-02 1 6 1 6 1 118307309 58547802 1 118307339 30 58547808 6 13 9.764131e-01 0 0 78 0 22 1 118307218 -91 58547444 -358 6 8.470684e-01 0 7 79 0 6 1 3.666667e+00 LUSC-21-1082 326 3 1 47382930 12 1 92250568 inter_chr NaN 6 0 0 0 26_samples:0 47382958 47383134 177 37 92250580 92250808 229 50 KLHL18 Intron of KLHL18(+): 792bp after exon 8 BTG1 IGR: 283Kb before BTG1(-) - 0 0 2.000000e-02 0 2 3 3 0 -9.105553e-01 -3.799985e-01 1 6 1 6 1 47382958 92250580 1 47382930 -28 92250568 -12 3 9.831914e-01 1 4 81 0 6 1 -1 -47382959 -1 -92250581 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 352 8 1 540512 8 1 120759959 long_range 120219452 6 0 0 0 26_samples:0 540511 540787 277 82 120759963 120760230 268 70 C8orf42 IGR: 45Kb after C8orf42(-) TAF2 Intron of TAF2(-): 789bp before exon 23 - 0 0 1.000000e-02 0 3 1 4 3 9.259875e-01 4.362428e-01 1 6 1 6 1 540511 120759963 1 540512 1 120759959 -4 5 9.940599e-01 1 4 70 0 8 1 -1 -540512 -1 -120759964 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 382 12 0 104531174 19 1 11253379 inter_chr NaN 6 0 0 0 26_samples:0 104530968 104531174 207 43 11253379 11253597 219 51 NFYB 5'-UTR of NFYB(-): 2Kb before coding start SPC24 IGR: 4Kb before SPC24(-) - 0 0 0 0 3 1 1 1 -6.656829e-01 -3.391864e-01 1 6 1 6 1 104531174 11253379 1 104531201 27 11253343 -36 1 9.784948e-01 0 0 76 0 14 1 -1 -104531175 -1 -11253380 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-21-1082 383 14 0 99259128 14 1 99260406 deletion 1342 6 0 0 0 26_samples:0 99258808 99259080 273 68 99260422 99260664 243 48 C14orf177 IGR: 81Kb before C14orf177(+) C14orf177 IGR: 82Kb before C14orf177(+) - 0 0 0 0 1 2 1 1 3.546186e-01 -4.616226e-01 1 6 1 6 1 99259080 99260422 1 99259128 48 99260406 -16 9 1 0 1 75 0 12 1 -1 -99259081 -1 -99260423 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 384 15 1 58724677 15 0 58743341 tandem_dup 18658 6 0 0 0 26_samples:0 58724693 58724995 303 75 58743102 58743351 250 55 LIPC Intron of LIPC(+): 374bp after exon 1 LIPC Intron of LIPC(+): 19Kb after exon 1 Duplication within intron 0 0 0 0 2 1 1 4 6.403031e-01 -1.759382e-01 1 6 1 6 1 58724693 58743351 1 58724677 -16 58743341 -10 2 1 1 4 72 0 9 1 -1 -58724694 -1 -58743352 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 385 16 0 19890699 16 0 20223613 inversion 332914 6 0 0 0 26_samples:0 19890476 19890699 224 41 20223469 20223613 145 27 GPRC5B 5'-UTR of GPRC5B(-): 7Kb before coding start GP2 IGR: 98Kb before GP2(-) - 0 0 0 0 2 1 1 1 -7.473071e-01 -1.318676e+00 1 6 1 6 1 19890699 20223613 1 -1 -19890700 -1 -20223614 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -19890700 -1 -20223614 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-21-1082 386 16 1 51088566 16 0 51103631 tandem_dup 15065 6 0 0 0 26_samples:0 51088566 51088836 271 59 51103319 51103631 313 77 SALL1 IGR: 81Kb before SALL1(-) SALL1 IGR: 66Kb before SALL1(-) - 0 0 0 0 2 1 3 4 -1.268994e-02 7.219272e-01 1 6 1 6 1 51088566 51103631 1 51088215 -351 51103781 150 3 8.209508e-01 1 1 102 4 TGGG 8 1 51088209 -357 51103928 297 2 8.706291e-01 1 14 95 0 5 0 1.600000e+00 LUSC-21-1082 391 17 1 19600923 17 0 19710500 tandem_dup 109551 6 0 0 0 26_samples:0 19600922 19601187 266 93 19710246 19710473 228 53 SLC47A2 Intron of SLC47A2(-): 5Kb after exon 13 ULK2 Intron of ULK2(-): 2Kb before exon 15 Protein fusion: out of frame (SLC47A2-ULK2) 4.000000e-02 0 0 0 4 1 3 1 1.374920e+00 -2.575623e-01 9.499376e-01 5.699626e+00 1 5.699626e+00 1 19600922 19710473 1 19600923 1 19710500 27 7 9.948174e-01 1 3 65 0 13 1 -1 -19600923 -1 -19710474 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 355 8 0 145793185 23 0 141694132 inter_chr NaN 6 0 0 0 26_samples:0 145793053 145793185 133 11 141693991 141694132 142 15 ARHGAP39 Intron of ARHGAP39(-): 12Kb before exon 5 MAGEC2 IGR: 404Kb before MAGEC2(-) - 2.000000e-02 4.000000e-02 9.000000e-02 0 6 3 2 1 -1.971669e+00 -1.808421e+00 8.888889e-01 5.333333e+00 1 5.333333e+00 1 145793185 141694132 1 145793100 -85 141694304 172 1 7.976960e-01 0 0 122 2 TC 10 1 -1 -145793186 -1 -141694133 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-21-1082 526 4 0 62635946 4 1 62679461 deletion 43515 5 0 0 0 26_samples:0 62635788 62635946 159 23 62679461 62679661 201 46 LPHN3 Intron of LPHN3(+): 37Kb after exon 5 LPHN3 Intron of LPHN3(+): 66bp before exon 6 Deletion within intron 0 0 0 0 1 0 2 1 -1.372190e+00 -4.833598e-01 1 5 1 5 1 62635946 62679461 1 62636052 106 62679465 4 1 9.715684e-01 0 4 70 0 3 1 -1 -62635947 -1 -62679462 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-21-1082 588 9 1 103617684 12 0 52909030 inter_chr NaN 5 0 0 0 26_samples:0 103617684 103617828 145 21 52908916 52909030 115 15 LPPR1 IGR: 173Kb before LPPR1(+) KRT5 Intron of KRT5(-): 6bp before exon 9 - 0 0 0 0 2 2 4 1 -1.449480e+00 -1.681349e+00 1 5 1 5 1 103617684 52909030 1 -1 -103617685 -1 -52909031 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -103617685 -1 -52909031 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-21-1082 589 9 1 103617685 12 0 52910543 inter_chr NaN 5 0 0 0 26_samples:0 103617831 103617982 152 19 52910434 52910546 113 8 LPPR1 IGR: 173Kb before LPPR1(+) KRT5 Exon 7 of KRT5(-) - 0 0 0 2.000000e-02 2 0 1 0 -1.526769e+00 -1.951862e+00 1 5 1 5 1 103617831 52910546 1 103617685 -146 52910543 -3 7 9.889948e-01 1 0 69 0 15 1 -1 -103617832 -1 -52910547 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 633 16 1 8453024 16 0 15633359 long_range 7180290 5 0 0 0 26_samples:0 8453050 8453250 201 45 15633060 15633340 281 72 TMEM114 IGR: 166Kb before TMEM114(-) C16orf45 Intron of C16orf45(+): 24Kb after exon 2 - 0 0 0 2.000000e-02 2 1 1 1 -5.220046e-01 5.214050e-01 1 5 1 5 1 8453050 15633340 1 8453024 -26 15633359 19 2 9.433311e-01 1 1 68 40 AAAAATATGTCCACATATTTATATAGACATATAGACATAT 7 1 8452984 -66 15633692 352 1 7.895563e-01 1 1 70 0 5 1 1.400000e+00 LUSC-21-1082 635 16 0 74803980 16 1 87606142 long_range 12802226 5 0 0 0 26_samples:0 74803802 74803980 179 34 87606206 87606409 204 48 FA2H Intron of FA2H(-): 4Kb after exon 1 JPH3 IGR: 30Kb before JPH3(+) - 0 0 0 0 1 1 1 3 -9.470974e-01 -4.060702e-01 1 5 1 5 1 74803980 87606206 1 74803980 0 87606142 -64 2 9.552022e-01 0 0 80 26 AAAAAATGGTGGGACAGCCATTCAAG 10 1 -1 -74803981 -1 -87606207 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 636 16 1 84479528 16 0 87612607 long_range 3133079 5 0 0 0 26_samples:0 84479528 84479678 151 20 87612455 87612607 153 21 ATP2C2 Intron of ATP2C2(+): 407bp before exon 16 JPH3 IGR: 24Kb before JPH3(+) - 0 0 0 0 1 2 2 3 -1.488125e+00 -1.449480e+00 1 5 1 5 1 84479528 87612607 1 -1 -84479529 -1 -87612608 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -84479529 -1 -87612608 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-21-1082 651 17 1 56887362 17 0 78178735 long_range 21291277 5 0 0 0 26_samples:0 56887444 56887614 171 29 78178544 78178721 178 43 PPM1E Intron of PPM1E(+): 54Kb after exon 1 CARD14 Intron of CARD14(+): 113bp before exon 18 Protein fusion: out of frame (CARD14-PPM1E) 2.000000e-02 0 0 0 4 2 1 3 -1.140321e+00 -5.992942e-01 1 5 1 5 1 56887444 78178721 1 56887362 -82 78178735 14 11 1 1 0 65 0 19 1 56887090 -354 78178531 -190 1 7.743512e-01 1 4 70 0 7 1 2.714286e+00 LUSC-21-1082 655 19 1 53420608 19 0 53428142 tandem_dup 7391 5 0 0 0 26_samples:0 53420736 53421015 280 80 53427964 53428127 164 34 ZNF321 IGR: 10Kb before ZNF321(-) ZNF321 IGR: 2Kb before ZNF321(-) - 0 5.000000e-02 2.000000e-02 0 0 1 2 1 8.305633e-01 -9.470974e-01 1 5 1 5 1 53420736 53428127 1 53420608 -128 53428142 15 2 9.061479e-01 1 1 103 0 11 1 -1 -53420737 -1 -53428128 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 524 3 0 164078198 8 0 135082650 inter_chr NaN 5 0 0 0 26_samples:0 164077846 164078170 325 87 135082458 135082640 183 56 SI IGR: 619Kb before SI(-) ZFAT IGR: 407Kb before ZFAT(-) - 1.000000e-02 2.000000e-02 0 0 4 2 2 1 1.101077e+00 -9.691180e-02 9.989684e-01 4.994842e+00 1 4.994842e+00 1 164078170 135082640 1 164078198 28 135082650 10 6 8.088522e-01 0 0 68 0 7 1 -1 -164078171 -1 -135082641 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 552 6 0 63414162 8 0 135078478 inter_chr NaN 5 0 0 0 26_samples:0 63413881 63414162 282 80 135078239 135078478 240 64 KHDRBS2 IGR: 418Kb after KHDRBS2(-) ZFAT IGR: 412Kb before ZFAT(-) - 0 0 0 0 4 1 5 0 8.305633e-01 2.122466e-01 9.846154e-01 4.923077e+00 1 4.923077e+00 1 63414162 135078478 1 63414156 -6 135078535 57 1 9.900676e-01 0 0 76 0 6 1 -1 -63414163 -1 -135078479 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-21-1082 639 16 0 8218115 16 1 12081726 long_range 3863611 5 0 0 0 26_samples:0 8217822 8218115 294 81 12081726 12081922 197 44 TMEM114 IGR: 401Kb before TMEM114(-) RUNDC2A Intron of RUNDC2A(+): 11Kb after exon 1 - 0 0 1.000000e-02 0 2 1 4 5 8.692081e-01 -5.606494e-01 9.846154e-01 4.923077e+00 1 4.923077e+00 1 8218115 12081726 1 8218154 39 12081672 -54 1 9.646890e-01 0 2 66 8 CGCCACAG 7 1 -1 -8218116 -1 -12081727 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-21-1082 539 6 0 122824295 6 1 123544857 deletion 720618 5 0 0 0 26_samples:0 122824079 122824232 154 21 123544850 123545073 224 49 PKIB 5'-UTR of PKIB(+): 215Kb before coding start TRDN Intron of TRDN(-): 388bp after exon 39 Antisense fusion 0 0 4.000000e-02 0 5 3 5 0 -1.449480e+00 -3.674254e-01 9.694675e-01 4.847337e+00 1 4.847337e+00 1 122824232 123544850 1 122824295 63 123544857 7 2 1 0 0 72 0 2 1 -1 -122824233 -1 -123544851 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 630 14 1 26471923 19 1 11000947 inter_chr NaN 5 0 0 0 26_samples:0 26471923 26471971 49 0 11000947 11001142 196 37 NOVA1 IGR: 443Kb before NOVA1(-) CARM1 Intron of CARM1(+): 15Kb before exon 2 - 2.000000e-02 0 4.000000e-02 9.000000e-02 3 2 5 5 -2.261020e+00 -8.311630e-01 9.694675e-01 4.847337e+00 1 4.847337e+00 1 26471923 11000947 1 26471947 24 11000936 -11 1 9.159234e-01 1 0 108 0 15 1 -1 -26471924 -1 -11000948 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-21-1082 660 20 0 25634736 20 0 26101714 inversion 466872 5 0 0 0 26_samples:0 25634578 25634733 156 21 26101455 26101605 151 20 ZNF337 IGR: 20Kb before ZNF337(-) C20orf191 IGR: 7Kb after C20orf191(-) - 1.000000e-02 4.000000e-02 2.400000e-01 2.200000e-01 4 1 6 1 -1.449480e+00 -1.488125e+00 8.888889e-01 4.444444e+00 1 4.444444e+00 1 25634733 26101605 1 25634736 3 26101714 109 3 9.677267e-01 0 0 75 0 12 1 -1 -25634734 -1 -26101606 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 661 20 0 8666215 20 1 8768489 deletion 102366 5 0 0 0 26_samples:0 8665979 8666145 167 33 8768511 8768692 182 29 PLCB1 Intron of PLCB1(+): 420bp after exon 10 PLCB1 Intron of PLCB1(+): 585bp before exon 28 Deletion of 17 exons: out of frame 0 2.000000e-02 0 0 6 1 2 0 -9.857422e-01 -1.140321e+00 8.888889e-01 4.444444e+00 1 4.444444e+00 1 8666145 8768511 1 8666215 70 8768489 -22 3 8.494382e-01 0 3 70 0 7 1 -1 -8666146 -1 -8768512 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 954 6 0 36351068 6 1 36862006 deletion 511004 4 0 0 0 26_samples:0 36350818 36351020 203 47 36862024 36862219 196 64 ETV7 Intron of ETV7(-): 2Kb after exon 2 C6orf89 Intron of C6orf89(+): 5Kb before exon 2 - 0 0 0 0 2 1 3 1 -3.597874e-01 2.299398e-01 1 4 1 4 1 36351020 36862024 1 36351068 48 36862006 -18 2 9.892420e-01 0 2 79 0 7 1 36351071 51 36861673 -351 1 8.828345e-01 0 1 75 1 G 3 1 2.333333e+00 LUSC-21-1082 1061 7 1 98611511 7 0 98615689 tandem_dup 4145 4 0 0 0 26_samples:0 98611507 98611769 263 67 98615399 98615652 254 67 TRRAP IGR: 643bp after TRRAP(+) TRRAP IGR: 5Kb after TRRAP(+) - 0 0 5.000000e-02 1.700000e-01 1 1 3 2 3.340093e-01 3.340093e-01 1 4 1 4 1 98611507 98615652 1 98611511 4 98615689 37 4 9.988859e-01 1 1 76 0 8 1 -1 -98611508 -1 -98615653 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 1110 8 0 126481081 8 1 126531705 deletion 50686 4 0 0 0 26_samples:0 126480828 126481037 210 54 126531723 126531922 200 59 TRIB1 IGR: 38Kb before TRIB1(+) TRIB1 IGR: 89Kb before TRIB1(+) - 0 0 0 0 1 0 1 0 -1.169586e-01 5.649061e-02 1 4 1 4 1 126481037 126531723 1 126481081 44 126531705 -18 2 1 0 0 80 0 14 1 -1 -126481038 -1 -126531724 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 1120 9 0 34421988 19 1 10620860 inter_chr NaN 4 0 0 0 26_samples:0 34421820 34421951 132 43 10620956 10621113 158 53 C9orf25 Intron of C9orf25(-): 16Kb before exon 2 S1PR5 IGR: 2Kb before S1PR5(-) - 0 0 0 0 2 1 2 2 -4.985467e-01 -1.516484e-01 1 4 1 4 1 34421951 10620956 1 34421988 37 10620860 -96 4 9.340098e-01 0 0 73 0 10 1 -1 -34421952 -1 -10620957 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 1214 11 0 78253388 11 1 78254415 deletion 1038 4 0 0 0 26_samples:0 78253119 78253378 260 70 78254416 78254701 286 79 NARS2 Intron of NARS2(-): 13Kb before exon 6 NARS2 Intron of NARS2(-): 14Kb before exon 6 Deletion within intron 0 0 0 0 1 2 1 1 4.380788e-01 7.502873e-01 1 4 1 4 1 78253378 78254416 1 78253388 10 78254415 -1 4 9.365905e-01 0 4 80 0 6 1 78253736 358 78254137 -279 2 8.524225e-01 0 7 87 0 8 1 7.500000e-01 LUSC-21-1082 1244 16 1 12181337 16 0 86009495 long_range 73828042 4 0 0 0 26_samples:0 12181439 12181618 180 38 86009313 86009481 169 46 SNX29 Intron of SNX29(+): 9Kb after exon 4 IRF8 IGR: 53Kb after IRF8(+) - 0 0 0 0 3 2 1 4 -6.719959e-01 -3.944772e-01 1 4 1 4 1 12181439 86009481 1 12181337 -102 86009495 14 4 9.346846e-01 1 0 72 0 9 1 12181123 -316 86009832 351 1 8.204296e-01 1 3 88 12 CGCAGTGGCTCA 10 1 9.000000e-01 LUSC-21-1082 1313 20 0 17473565 20 1 17532179 deletion 58691 4 0 0 0 26_samples:0 17473332 17473543 212 45 17532234 17532398 165 41 BFSP1 IGR: 1Kb before BFSP1(-) BFSP1 Intron of BFSP1(-): 7Kb after exon 1 - 0 0 0 4.000000e-02 1 0 4 3 -4.291671e-01 -5.679264e-01 1 4 1 4 1 17473543 17532234 1 17473565 22 17532179 -55 2 1 0 5 77 0 9 1 -1 -17473544 -1 -17532235 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-21-1082 1315 20 0 8358204 20 1 29521684 long_range 21163580 4 0 0 0 26_samples:0 8357994 8358117 124 24 29521697 29521881 185 38 PLCB1 Intron of PLCB1(+): 6Kb after exon 3 FRG1B IGR: 90Kb before FRG1B(+) - 0 0 3.000000e-02 7.000000e-02 2 1 4 2 -1.157654e+00 -6.719959e-01 1 4 1 4 1 8358117 29521697 1 8358204 87 29521684 -13 2 9.583125e-01 0 0 67 21 ATACATATACAAATGGGGAGC 8 1 -1 -8358118 -1 -29521698 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 2 1 1 55431821 1 1 71357116 long_range 15925294 106 0 0 0 26_samples:0 55431818 55432259 442 72 71357112 71357476 365 63 TMEM61 IGR: 15Kb before TMEM61(+) PTGER3 Intron of PTGER3(-): 39Kb before exon 3 - 0 0 0 0 4 0 6 2 8.974202e-01 1.863549e-01 9.903217e-01 1.049741e+02 1 1.049741e+02 1 55431818 71357112 1 55431821 3 71357116 4 20 9.706905e-01 1 1 69 0 138 1 -1 -55431819 -1 -71357113 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 4 19 0 49684074 19 1 49686395 deletion 2309 79 0 0 0 26_samples:0 49683760 49684082 323 57 49686391 49686721 331 61 TRPM4 Intron of TRPM4(+): 524bp before exon 10 TRPM4 Exon 12 of TRPM4(+) Deletion within transcript: mid-exon 0 0 0 2.000000e-02 1 1 1 1 -2.876886e-01 2.834040e-02 1 79 1 79 1 49684082 49686391 1 49684074 -8 49686395 4 20 9.948187e-01 0 2 75 0 69 1 -1 -49684083 -1 -49686392 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 5 1 0 56974795 8 0 96281427 inter_chr NaN 71 0 0 0 26_samples:0 56974472 56974770 299 51 96281207 96281433 227 44 PPAP2B Intron of PPAP2B(-): 3Kb after exon 5 C8orf37 5'-UTR of C8orf37(-): 16bp before coding start - 0 0 0 0 3 0 2 0 -7.617322e-01 -1.314783e+00 1 71 1 71 1 56974770 96281433 1 56974795 25 96281427 -6 20 9.876677e-01 0 1 70 0 65 1 -1 -56974771 -1 -96281434 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 6 8 1 96281198 10 0 62356001 inter_chr NaN 59 0 0 0 26_samples:0 96281193 96281426 234 40 62355678 62355988 311 48 C8orf37 Intron of C8orf37(-): 70bp after exon 1 CDK1 IGR: 182Kb before CDK1(+) - 0 0 0 0 2 0 3 1 -1.630812e+00 -9.987539e-01 1 59 1 59 1 96281193 62355988 1 96281198 5 62356001 13 20 9.934788e-01 1 3 68 0 31 1 -1 -96281194 -1 -62355989 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 13 2 0 222236368 5 0 1319574 inter_chr NaN 45 0 0 0 26_samples:0 222236062 222236360 299 54 1319279 1319579 301 55 EPHA4 IGR: 46Kb before EPHA4(-) CLPTM1L Intron of CLPTM1L(-): 1Kb before exon 17 - 0 0 1.000000e-02 0 4 1 3 2 -5.247104e-01 -4.457031e-01 1 45 1 45 1 222236360 1319579 1 222236368 8 1319574 -5 20 9.655306e-01 0 4 84 0 75 1 -1 -222236361 -1 -1319580 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 16 10 0 115313910 15 1 95811324 inter_chr NaN 43 0 0 0 26_samples:0 115313475 115313917 443 69 95811322 95811621 300 61 HABP2 Intron of HABP2(+): 968bp after exon 1 LOC145820 IGR: 165Kb before LOC145820(+) - 0 0 8.000000e-02 7.000000e-02 3 1 5 0 6.603985e-01 2.834040e-02 9.964137e-01 4.284579e+01 1 4.284579e+01 1 115313917 95811322 1 115313910 -7 95811324 2 20 9.959804e-01 0 3 80 0 36 1 -1 -115313918 -1 -95811323 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 24 4 0 171010953 8 0 139471032 inter_chr NaN 39 0 0 0 26_samples:0 171010783 171010957 175 28 139470677 139471030 354 53 AADAT 5'-UTR of AADAT(-): 116bp before coding start FAM135B 5'-UTR of FAM135B(-): 91Kb before coding start - 0 0 0 0 2 0 2 0 -2.578899e+00 -6.037176e-01 1 39 1 39 1 171010957 139471030 1 171010953 -4 139471032 2 20 9.848897e-01 0 3 68 0 69 1 -1 -171010958 -1 -139471031 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 26 2 1 47224012 2 0 47229343 tandem_dup 5333 38 0 0 0 26_samples:0 47224011 47224289 279 57 47229020 47229344 325 62 TTC7A Intron of TTC7A(+): 2Kb after exon 8 TTC7A Intron of TTC7A(+): 4Kb before exon 9 Duplication within intron 1.000000e-02 0 1.000000e-02 0 3 2 2 1 -2.876886e-01 1.073477e-01 1 38 1 38 1 47224011 47229344 1 47224012 1 47229343 -1 20 9.657087e-01 1 3 71 0 57 1 -1 -47224012 -1 -47229345 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 29 9 0 82370395 9 1 82372100 deletion 1694 36 0 0 0 26_samples:0 82370082 82370401 320 59 82372095 82372398 304 64 TLE4 IGR: 29Kb after TLE4(+) TLE4 IGR: 30Kb after TLE4(+) - 5.000000e-02 2.000000e-02 0 0 1 2 2 3 -1.296741e-01 2.653622e-01 1 36 1 36 1 82370401 82372095 1 82370395 -6 82372100 5 20 9.872678e-01 0 2 81 0 43 1 -1 -82370402 -1 -82372096 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 19 8 0 141542980 8 0 142599764 long_range 1056790 42 0 0 0 26_samples:0 141542543 141542984 442 81 142599446 142599774 329 62 EIF2C2 Intron of EIF2C2(-): 270bp before exon 18 FLJ43860 IGR: 156Kb before FLJ43860(-) - 2.000000e-02 5.000000e-02 0 0 3 0 4 1 1.608486e+00 1.073477e-01 8.161303e-01 3.427747e+01 1 3.427747e+01 1 141542984 142599774 1 141542980 -4 142599764 -10 20 9.869813e-01 0 0 69 0 55 1 -1 -141542985 -1 -142599775 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 28 1 0 178593538 1 1 178596694 deletion 3158 36 0 0 0 26_samples:0 178593232 178593542 311 62 178596700 178597043 344 68 C1orf220 IGR: 82Kb before C1orf220(+) C1orf220 IGR: 85Kb before C1orf220(+) - 2.000000e-02 5.000000e-02 3.000000e-02 3.000000e-02 2 1 6 1 1.073477e-01 5.813912e-01 9.386556e-01 3.379160e+01 1 3.379160e+01 1 178593542 178596700 1 178593538 -4 178596694 -6 20 9.975256e-01 0 2 74 0 35 1 -1 -178593543 -1 -178596701 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 32 1 0 53466530 1 1 53626199 deletion 159673 33 0 0 0 26_samples:0 53466109 53466522 414 68 53626195 53626501 307 58 SCP2 Intron of SCP2(+): 13Kb after exon 11 CPT2 IGR: 36Kb before CPT2(+) - 1.000000e-02 3.000000e-02 0 0 3 1 2 1 5.813912e-01 -2.086814e-01 1 33 1 33 1 53466522 53626195 1 53466530 8 53626199 4 20 9.908628e-01 0 0 67 0 57 1 53466640 118 53625994 -201 3 8.602254e-01 0 1 71 35 GTGTTTGATTAGGTCACCTTCTCCATGATTCCTTC 5 1 1.140000e+01 LUSC-22-1016 34 3 1 124846382 20 0 52600218 inter_chr NaN 33 0 0 0 26_samples:0 124846391 124846677 287 57 52599892 52600224 333 59 SLC12A8 Intron of SLC12A8(-): 7Kb before exon 7 BCAS1 Intron of BCAS1(-): 2Kb after exon 7 Protein fusion: out of frame (SLC12A8-BCAS1) 0 0 0 0 3 0 1 0 -2.876886e-01 -1.296741e-01 1 33 1 33 1 124846391 52600224 1 124846382 -9 52600218 -6 10 9.989259e-01 1 2 71 0 17 1 -1 -124846392 -1 -52600225 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 38 19 1 32098504 19 1 32103538 inversion 5039 33 0 0 0 26_samples:0 32098499 32098834 336 68 32103538 32103848 311 55 TSHZ3 IGR: 333Kb before TSHZ3(-) TSHZ3 IGR: 338Kb before TSHZ3(-) - 0 0 0 0 4 1 2 1 5.813912e-01 -4.457031e-01 1 33 1 33 1 32098499 32103538 1 32098504 5 32103538 0 20 9.712958e-01 1 1 61 0 34 1 -1 -32098500 -1 -32103539 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 39 1 1 55414894 1 0 55431491 tandem_dup 16599 32 0 0 0 26_samples:0 55414900 55415223 324 59 55431208 55431499 292 49 TMEM61 IGR: 32Kb before TMEM61(+) TMEM61 IGR: 15Kb before TMEM61(+) - 0 0 3.000000e-02 2.000000e-02 3 0 2 2 -1.296741e-01 -9.197467e-01 1 32 1 32 1 55414900 55431499 1 55414894 -6 55431491 -8 20 9.927664e-01 1 3 77 0 41 1 -1 -55414901 -1 -55431500 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 41 8 1 42525291 8 1 42533780 inversion 8493 31 0 0 0 26_samples:0 42525288 42525580 293 49 42533781 42534094 314 57 CHRNB3 IGR: 27Kb before CHRNB3(+) CHRNB3 IGR: 19Kb before CHRNB3(+) - 3.000000e-02 0 0 0 1 1 3 2 -9.197467e-01 -2.876886e-01 1 31 1 31 1 42525288 42533781 1 42525291 3 42533780 -1 20 9.975085e-01 1 2 65 0 26 1 -1 -42525289 -1 -42533782 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 21 11 0 102040469 11 0 102161874 inversion 121406 40 0 0 0 26_samples:0 102040129 102040474 346 59 102161566 102161880 315 55 YAP1 Intron of YAP1(+): 7Kb after exon 3 BIRC3 IGR: 26Kb before BIRC3(+) - 0 0 0 0 6 0 7 0 -1.296741e-01 -4.457031e-01 7.588160e-01 3.035264e+01 1 3.035264e+01 1 102040474 102161880 1 102040469 -5 102161874 -6 20 9.703765e-01 0 0 64 0 160 1 -1 -102040475 -1 -102161881 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 43 1 0 54758242 1 0 55419507 inversion 661274 29 0 0 0 26_samples:0 54757934 54758240 307 62 55419185 55419514 330 65 SSBP3 Intron of SSBP3(-): 11Kb before exon 5 TMEM61 IGR: 27Kb before TMEM61(+) - 0 0 0 0 2 1 4 1 1.221541e-01 3.345455e-01 1 29 1 29 1 54758240 55419514 1 54758242 2 55419507 -7 20 9.825323e-01 0 4 73 0 44 1 54758215 -25 55419715 201 1 8.021427e-01 0 0 76 43 TAATCTCCAGTGTGGTAAGTGTTGAGAGCGGAGGTTATTTGTT 7 1 6.285714e+00 LUSC-22-1016 44 8 1 142599061 8 0 142905659 tandem_dup 306606 29 0 0 0 26_samples:0 142599055 142599324 270 53 142905353 142905661 309 58 FLJ43860 IGR: 155Kb before FLJ43860(-) NCRNA00051 IGR: 374Kb before NCRNA00051(+) - 0 0 0 0 2 0 2 2 -5.150200e-01 -1.610344e-01 1 29 1 29 1 142599055 142905661 1 142599061 6 142905659 -2 20 9.966089e-01 1 0 71 0 43 1 -1 -142599056 -1 -142905662 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 46 4 1 171010780 8 1 139471074 inter_chr NaN 28 0 0 0 26_samples:0 171010779 171010954 176 21 139471157 139471438 282 44 AADAT Exon 1 of AADAT(-) FAM135B 5'-UTR of FAM135B(-): 91Kb before coding start Antisense fusion 0 0 0 0 2 0 2 0 -2.780528e+00 -1.152194e+00 1 28 1 28 1 171010779 139471157 1 171010780 1 139471074 -83 20 9.804527e-01 1 2 62 0 62 1 -1 -171010780 -1 -139471158 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 47 7 1 65967605 7 0 66011243 tandem_dup 43630 28 0 0 0 26_samples:0 65967611 65967948 338 69 66010911 66011241 331 58 LOC493754 IGR: 51Kb before LOC493754(-) LOC493754 IGR: 7Kb before LOC493754(-) - 0 0 4.000000e-02 0 2 0 2 1 6.177339e-01 -1.610344e-01 1 28 1 28 1 65967611 66011241 1 65967605 -6 66011243 2 17 9.956617e-01 1 1 79 0 30 1 -1 -65967612 -1 -66011242 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 14 1 0 52275015 8 1 140339694 inter_chr NaN 44 0 0 0 26_samples:0 52274709 52275020 312 66 140339683 140340003 321 67 NRD1 Exon 19 of NRD1(-) KCNK9 IGR: 285Kb before KCNK9(-) - 0 0 0 0 2 0 8 3 4.233767e-01 5.023839e-01 6.265282e-01 2.756724e+01 1 2.756724e+01 1 52275020 140339683 1 52275015 -5 140339694 11 20 9.993700e-01 0 3 70 0 45 1 52274879 -141 140339482 -201 1 7.622334e-01 0 0 78 16 TATGTGGAGATAGGGC 6 1 7.500000e+00 LUSC-22-1016 48 5 1 1852333 5 0 10421939 long_range 8569616 27 0 0 0 26_samples:0 1852327 1852605 279 56 10421653 10421943 291 57 IRX4 IGR: 25Kb before IRX4(-) MARCH6 Intron of MARCH6(+): 2Kb before exon 23 - 0 0 0 0 1 1 3 0 -3.026286e-01 -2.318315e-01 1 27 1 27 1 1852327 10421943 1 1852333 6 10421939 -4 14 9.595276e-01 1 0 70 19 ATTTAATTTAATTAAATGT 74 1 -1 -1852328 -1 -10421944 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 35 5 1 7407493 5 0 41793643 long_range 34386140 33 0 0 0 26_samples:0 7407507 7407833 327 67 41793227 41793647 421 81 ADCY2 Intron of ADCY2(+): 7Kb before exon 2 OXCT1 Intron of OXCT1(-): 458bp after exon 13 - 1.000000e-02 0 0 0 4 0 3 1 5.023839e-01 1.608486e+00 8.161303e-01 2.693230e+01 1 2.693230e+01 1 7407507 41793647 1 7407493 -14 41793643 -4 20 9.854743e-01 1 3 84 0 63 1 -1 -7407508 -1 -41793648 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 50 12 1 854871 12 1 877207 inversion 22341 27 0 0 0 26_samples:0 854863 855204 342 67 877204 877566 363 73 WNK1 IGR: 7Kb before WNK1(+) WNK1 Intron of WNK1(+): 14Kb after exon 1 - 5.000000e-02 0 1.000000e-02 0 4 1 5 0 4.761397e-01 9.009224e-01 9.932675e-01 2.681822e+01 1 2.681822e+01 1 854863 877204 1 854871 8 877207 3 20 9.853072e-01 1 5 71 0 27 1 -1 -854864 -1 -877205 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 45 22 0 50715247 22 1 50729067 deletion 13824 29 0 0 0 26_samples:0 50714936 50715241 306 58 50729065 50729405 341 81 PLXNB2 Intron of PLXNB2(-): 30bp after exon 34 PLXNB2 5'-UTR of PLXNB2(-): 52bp before coding start Deletion within transcript 0 0 0 0 1 0 1 0 -1.610344e-01 1.467299e+00 9.074051e-01 2.631475e+01 1 2.631475e+01 1 50715241 50729065 1 50715247 6 50729067 2 20 9.912200e-01 0 1 72 0 46 1 -1 -50715242 -1 -50729066 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 51 13 0 80628401 13 1 80629966 deletion 1584 26 0 0 0 26_samples:0 80628114 80628401 288 56 80629985 80630258 274 54 SPRY2 IGR: 282Kb before SPRY2(-) SPRY2 IGR: 280Kb before SPRY2(-) - 0 0 0 0 1 0 1 1 -3.026286e-01 -4.442229e-01 1 26 1 26 1 80628401 80629985 1 80628401 0 80629966 -19 12 9.537863e-01 0 0 59 2 CA 17 1 -1 -80628402 -1 -80629986 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 36 12 0 58239593 12 1 58333701 deletion 94103 33 0 0 0 26_samples:0 58239267 58239596 330 57 58333699 58333995 297 55 CTDSP2 Intron of CTDSP2(-): 559bp after exon 1 XRCC6BP1 Promoter of XRCC6BP1(+): 2Kb from tx start - 0 0 0 0 1 0 7 1 -2.876886e-01 -4.457031e-01 7.876194e-01 2.599144e+01 1 2.599144e+01 1 58239596 58333699 1 58239593 -3 58333701 2 20 9.536943e-01 0 1 72 0 31 1 -1 -58239597 -1 -58333700 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 52 1 0 31542736 1 1 31576199 deletion 33473 24 0 0 0 26_samples:0 31542404 31542741 338 78 31576214 31576495 282 59 PUM1 IGR: 4Kb after PUM1(-) PUM1 IGR: 38Kb after PUM1(-) - 1.000000e-02 0 0 0 3 1 2 0 1.254908e+00 -9.023727e-02 9.837064e-01 2.360895e+01 1 2.360895e+01 1 31542741 31576214 1 31542736 -5 31576199 -15 14 9.739435e-01 0 1 77 0 24 1 -1 -31542742 -1 -31576215 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 56 17 1 55286238 17 0 55307471 tandem_dup 21227 23 0 0 0 26_samples:0 55286245 55286504 260 40 55307200 55307472 273 47 MSI2 IGR: 48Kb before MSI2(+) MSI2 IGR: 26Kb before MSI2(+) - 0 0 0 0 3 2 2 1 -1.435383e+00 -9.398027e-01 1 23 1 23 1 55286245 55307472 1 55286238 -7 55307471 -1 11 9.869389e-01 1 4 76 0 15 1 -1 -55286246 -1 -55307473 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 55 1 1 69661832 1 1 102519011 long_range 32857175 23 0 0 0 26_samples:0 69661832 69662139 308 56 102519007 102519396 390 77 LRRC7 IGR: 564Kb before LRRC7(+) OLFM3 IGR: 56Kb after OLFM3(-) - 0 0 0 0 3 0 3 0 -3.026286e-01 1.184111e+00 9.937979e-01 2.285735e+01 1 2.285735e+01 1 69661832 102519007 1 69661832 0 102519011 4 20 9.960656e-01 1 3 80 0 28 1 -1 -69661833 -1 -102519008 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 57 1 0 78053735 1 1 78118791 deletion 65048 22 0 0 0 26_samples:0 78053427 78053737 311 63 78118785 78119106 322 70 ZZZ3 Intron of ZZZ3(-): 3Kb before exon 6 ZZZ3 5'-UTR of ZZZ3(-): 20Kb before coding start Deletion within transcript 0 0 0 0 3 1 3 1 1.929512e-01 6.885311e-01 1 22 1 22 1 78053737 78118785 1 78053735 -2 78118791 6 13 9.954667e-01 0 3 67 0 24 1 -1 -78053738 -1 -78118786 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 62 22 0 46381347 22 1 46648670 deletion 267338 22 0 0 0 26_samples:0 46381077 46381352 276 51 46648690 46649040 351 65 LOC730668 IGR: 21Kb before LOC730668(+) C22orf40 Promoter of C22orf40(-): 2Kb from tx start - 0 0 0 0 1 1 2 0 -6.566142e-01 3.345455e-01 1 22 1 22 1 46381352 46648690 1 46381347 -5 46648670 -20 20 9.921582e-01 0 3 73 0 26 1 -1 -46381353 -1 -46648691 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 59 2 1 220552539 2 1 222526258 long_range 1973721 22 0 0 0 26_samples:0 220552534 220552802 269 59 222526255 222526498 244 47 SLC4A3 IGR: 60Kb before SLC4A3(+) EPHA4 IGR: 244Kb before EPHA4(-) - 2.000000e-02 2.000000e-02 0 0 4 0 5 1 -9.023727e-02 -9.398027e-01 9.920043e-01 2.182409e+01 1 2.182409e+01 1 220552534 222526255 1 220552539 5 222526258 3 4 9.349403e-01 1 0 64 46 TTATCTTATATTTATTCTGCTTTGTGTTGTCTGAGCTTCTAGTATG 72 1 -1 -220552535 -1 -222526256 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 63 7 1 70474146 7 0 70510784 tandem_dup 36638 21 0 0 0 26_samples:0 70474141 70474427 287 46 70510504 70510779 276 49 WBSCR17 IGR: 124Kb before WBSCR17(+) WBSCR17 IGR: 87Kb before WBSCR17(+) - 0 0 2.000000e-02 0 2 1 2 2 -1.010600e+00 -7.982085e-01 1 21 1 21 1 70474141 70510779 1 70474146 5 70510784 5 15 9.920762e-01 1 4 82 0 25 1 -1 -70474142 -1 -70510780 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 64 7 0 93973465 7 1 93975339 deletion 1892 21 0 0 0 26_samples:0 93973169 93973457 289 58 93975349 93975717 369 65 COL1A2 IGR: 50Kb before COL1A2(+) COL1A2 IGR: 49Kb before COL1A2(+) - 0 0 0 0 3 1 3 0 -1.610344e-01 3.345455e-01 1 21 1 21 1 93973457 93975349 1 93973465 8 93975339 -10 18 9.870139e-01 0 3 64 0 19 1 -1 -93973458 -1 -93975350 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 68 6 0 16463186 6 1 16504891 deletion 41702 20 0 0 0 26_samples:0 16462888 16463184 297 56 16504886 16505205 320 66 ATXN1 5'-UTR of ATXN1(-): 135Kb before coding start ATXN1 5'-UTR of ATXN1(-): 176Kb before coding start Deletion within transcript 2.000000e-02 0 0 0 3 1 3 1 -3.026286e-01 4.053426e-01 1 20 1 20 1 16463184 16504886 1 16463186 2 16504891 5 16 9.927243e-01 0 3 72 0 24 1 -1 -16463185 -1 -16504887 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 70 10 1 77108293 10 0 77169131 tandem_dup 60836 20 0 0 0 26_samples:0 77108289 77108587 299 52 77168889 77169125 237 42 ZNF503 IGR: 49Kb before ZNF503(-) NCRNA00245 IGR: 386bp after NCRNA00245(+) - 6.000000e-02 8.000000e-02 0 0 5 2 4 0 -5.858171e-01 -1.293788e+00 9.914585e-01 1.982917e+01 1 1.982917e+01 1 77108289 77169125 1 77108293 4 77169131 6 18 9.548107e-01 1 0 67 0 42 1 -1 -77108290 -1 -77169126 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 40 12 0 34527575 12 1 34529982 deletion 2370 32 0 0 0 26_samples:0 34527206 34527599 394 84 34529969 34530332 364 77 ALG10 IGR: 352Kb before ALG10(+) ALG10 IGR: 355Kb before ALG10(+) - 0 0 0 2.000000e-02 1 0 0 0 1.845507e+00 1.292457e+00 6.080610e-01 1.945795e+01 1 1.945795e+01 1 34527599 34529969 1 34527575 -24 34529982 13 9 9.734040e-01 0 9 121 0 35 1 34527550 -49 34529762 -207 2 9.024450e-01 0 16 113 0 14 1 2.500000e+00 LUSC-22-1016 15 1 0 51641825 1 0 71293467 long_range 19651634 43 0 0 0 26_samples:0 51641534 51641831 298 67 71293146 71293465 320 62 RNF11 IGR: 60Kb before RNF11(+) PTGER3 IGR: 25Kb before PTGER3(-) - 0 0 3.000000e-02 0 9 0 5 3 5.023839e-01 1.073477e-01 4.437882e-01 1.908289e+01 1 1.908289e+01 1 51641831 71293465 1 51641825 -6 71293467 2 20 9.536395e-01 0 1 67 0 75 1 -1 -51641832 -1 -71293466 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 61 8 0 128191140 8 1 143493000 long_range 15301865 22 0 0 0 26_samples:0 128190831 128191134 304 65 143492999 143493352 354 82 POU5F1B IGR: 237Kb before POU5F1B(+) BAI1 IGR: 52Kb before BAI1(+) - 0 0 0 0 3 2 1 1 3.345455e-01 1.538097e+00 8.651981e-01 1.903436e+01 1 1.903436e+01 1 128191134 143492999 1 128191140 6 143493000 1 17 9.853335e-01 0 3 69 0 29 1 -1 -128191135 -1 -143493000 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 8 1 1 52965373 1 1 53513099 inversion 547729 56 0 0 0 26_samples:0 52965369 52965627 259 47 53513098 53513430 333 59 ZCCHC11 Intron of ZCCHC11(-): 3Kb before exon 5 SCP2 Intron of SCP2(+): 432bp before exon 15 Protein fusion: out of frame (ZCCHC11-SCP2) 1.000000e-02 0 0 0 4 2 10 3 -1.077761e+00 -1.296741e-01 3.397010e-01 1.902326e+01 1 1.902326e+01 1 52965369 53513098 1 52965373 4 53513099 1 20 9.904795e-01 1 0 58 0 73 1 -1 -52965370 -1 -53513099 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 72 1 0 939753 1 1 1330334 deletion 390593 19 0 0 0 26_samples:0 939438 939744 307 51 1330337 1330638 302 57 HES4 IGR: 5Kb before HES4(-) CCNL2 Intron of CCNL2(-): 437bp after exon 4 - 0 0 1.000000e-02 0 2 0 3 2 -5.801662e-01 -1.922093e-01 1 19 1 19 1 939744 1330337 1 939753 9 1330334 -3 11 9.805046e-01 0 4 73 0 31 1 -1 -939745 -1 -1330338 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 74 6 0 157885959 6 1 158153234 deletion 267275 19 0 0 0 26_samples:0 157885643 157885959 317 58 158153234 158153559 326 63 ZDHHC14 Intron of ZDHHC14(+): 78Kb before exon 2 ZDHHC14 IGR: 58Kb after ZDHHC14(+) - 0 0 0 0 2 0 3 1 -1.275498e-01 1.957475e-01 1 19 1 19 1 157885959 158153234 1 157885959 0 158153234 0 16 9.845163e-01 0 3 74 0 26 1 -1 -157885960 -1 -158153235 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 67 5 0 53382268 5 1 53523631 deletion 141374 20 0 0 0 26_samples:0 53381900 53382264 365 72 53523638 53523942 305 64 ARL15 Intron of ARL15(-): 27Kb after exon 4 ARL15 Intron of ARL15(-): 56Kb before exon 2 Deletion of 3 exons: in frame 1.000000e-02 3.000000e-02 0 0 6 1 5 1 8.301253e-01 2.637483e-01 9.106672e-01 1.821334e+01 1 1.821334e+01 1 53382264 53523638 1 53382268 4 53523631 -7 10 9.986836e-01 0 3 69 0 23 1 -1 -53382265 -1 -53523639 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 1 11 0 102260604 11 0 102282790 inversion 22186 126 0 0 0 26_samples:0 102260198 102260608 411 61 102282484 102282794 311 57 TMEM123 IGR: 6Kb before TMEM123(-) TMEM123 Intron of TMEM123(-): 10Kb before exon 3 - 0 0 0 0 14 3 8 1 2.834040e-02 -2.876886e-01 1.440853e-01 1.815474e+01 1 1.815474e+01 1 102260608 102282794 1 102260604 -4 102282790 -4 20 9.557288e-01 0 1 70 0 184 1 -1 -102260609 -1 -102282795 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 79 5 0 9531156 5 0 10200350 inversion 669225 18 0 0 0 26_samples:0 9530856 9531128 273 57 10200081 10200353 273 66 SEMA5A 5'-UTR of SEMA5A(-): 151Kb before coding start FAM173B IGR: 26Kb before FAM173B(-) - 0 0 0 0 3 0 3 0 -1.922093e-01 3.897260e-01 1 18 1 18 1 9531128 10200353 1 9531156 28 10200350 -3 9 9.545897e-01 0 0 71 3 TTT 20 1 -1 -9531129 -1 -10200354 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 81 5 1 53455855 5 1 53471914 inversion 16063 18 0 0 0 26_samples:0 53455854 53456117 264 54 53471917 53472239 323 67 ARL15 Intron of ARL15(-): 5Kb before exon 3 ARL15 Intron of ARL15(-): 4Kb before exon 2 Antisense fusion 0 0 0 0 3 0 4 0 -3.861878e-01 4.543854e-01 1 18 1 18 1 53455854 53471917 1 53455855 1 53471914 -3 10 9.529677e-01 1 0 64 0 21 1 -1 -53455855 -1 -53471918 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 83 8 1 141626726 8 1 141628775 inversion 2049 18 0 0 0 26_samples:0 141626727 141627000 274 48 141628776 141629026 251 45 EIF2C2 Intron of EIF2C2(-): 19Kb after exon 1 EIF2C2 Intron of EIF2C2(-): 17Kb after exon 1 Antisense fusion 0 0 1.000000e-02 2.000000e-02 1 0 2 1 -7.741446e-01 -9.681231e-01 1 18 1 18 1 141626727 141628776 1 141626726 -1 141628775 -1 12 9.788210e-01 1 2 68 0 21 1 -1 -141626728 -1 -141628777 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 85 15 0 55560355 15 1 55658685 deletion 98339 18 0 0 0 26_samples:0 55560065 55560350 286 55 55658689 55658956 268 49 RAB27A 5'-UTR of RAB27A(-): 33Kb before coding start CCPG1 Intron of CCPG1(-): 1Kb before exon 7 Transcript fusion (CCPG1-RAB27A) 0 0 5.000000e-02 2.000000e-02 2 0 3 1 -3.215283e-01 -7.094851e-01 1 18 1 18 1 55560350 55658689 1 55560355 5 55658685 -4 13 9.957846e-01 0 2 73 0 21 1 -1 -55560351 -1 -55658690 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 84 11 0 55330362 11 0 80353273 long_range 25022876 18 0 0 0 26_samples:0 55330113 55330367 255 47 80352982 80353243 262 49 OR4C15 IGR: 7Kb after OR4C15(+) MIR708 IGR: 1Mb before MIR708(-) - 0 0 3.000000e-02 0 5 2 3 1 -8.388041e-01 -7.094851e-01 9.846154e-01 1.772308e+01 1 1.772308e+01 1 55330367 80353243 1 55330362 -5 80353273 30 7 9.952141e-01 0 3 73 0 14 1 -1 -55330368 -1 -80353244 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 86 16 0 3859338 16 1 3987056 deletion 127736 18 0 0 0 26_samples:0 3859060 3859324 265 53 3987060 3987352 293 61 CREBBP Intron of CREBBP(-): 1Kb after exon 3 ADCY9 IGR: 26Kb before ADCY9(-) - 3.000000e-02 4.000000e-02 2.000000e-02 0 3 2 5 1 -4.508472e-01 6.642858e-02 9.846154e-01 1.772308e+01 1 1.772308e+01 1 3859324 3987060 1 3859338 14 3987056 -4 18 9.980578e-01 0 3 89 0 29 1 3859266 -58 3986857 -203 1 8.202312e-01 0 2 112 0 9 1 3.222222e+00 LUSC-22-1016 75 8 1 90677554 8 0 90685307 tandem_dup 7749 19 0 0 0 26_samples:0 90677551 90677859 309 77 90685000 90685300 301 63 RIPK2 IGR: 92Kb before RIPK2(+) RIPK2 IGR: 85Kb before RIPK2(+) - 0 0 0 0 6 2 2 2 1.100980e+00 1.957475e-01 8.879745e-01 1.687152e+01 1 1.687152e+01 1 90677551 90685300 1 90677554 3 90685307 7 2 8.587118e-01 1 1 70 1 T 17 1 -1 -90677552 -1 -90685301 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 90 11 1 55329383 23 0 3046846 inter_chr NaN 17 0 0 0 26_samples:0 55329382 55329667 286 53 3046530 3046832 303 67 OR4C15 IGR: 8Kb before OR4C15(+) ARSF IGR: 62Kb before ARSF(+) - 0 0 8.000000e-02 1.700000e-01 4 1 5 1 -4.508472e-01 4.543854e-01 9.846154e-01 1.673846e+01 1 1.673846e+01 1 55329382 3046832 1 55329383 1 3046846 14 13 9.828641e-01 1 2 69 0 19 1 -1 -55329383 -1 -3046833 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 94 2 0 69904002 2 1 70469731 deletion 565750 16 0 0 0 26_samples:0 69903704 69903997 294 65 70469747 70470015 269 59 AAK1 IGR: 33Kb after AAK1(-) TIA1 Intron of TIA1(-): 6Kb after exon 1 - 3.000000e-02 7.000000e-02 1.000000e-02 0 4 1 4 0 3.250665e-01 -6.289037e-02 1 16 1 16 1 69903997 70469747 1 69904002 5 70469731 -16 19 9.933723e-01 0 2 57 0 31 1 -1 -69903998 -1 -70469748 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 95 7 0 32270931 7 1 32398509 deletion 127572 16 0 0 0 26_samples:0 32270625 32270935 311 66 32398507 32398797 291 62 LSM5 IGR: 254Kb before LSM5(-) LSM5 IGR: 126Kb before LSM5(-) - 0 0 0 0 4 2 4 2 3.897260e-01 1.310881e-01 1 16 1 16 1 32270935 32398507 1 32270931 -4 32398509 2 10 9.631343e-01 0 0 70 1 T 13 1 -1 -32270936 -1 -32398508 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 98 9 0 109737003 9 1 116669826 long_range 6932832 16 0 0 0 26_samples:0 109736678 109736988 311 68 116669820 116670083 264 60 ZNF462 Intron of ZNF462(+): 434bp after exon 9 ZNF618 Intron of ZNF618(+): 31Kb after exon 1 Protein fusion: out of frame (ZNF462-ZNF618) 0 0 0 0 1 0 2 0 5.190449e-01 1.769106e-03 1 16 1 16 1 109736988 116669820 1 109737003 15 116669826 6 11 8.792489e-01 0 1 66 0 23 1 -1 -109736989 -1 -116669821 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 99 12 0 2521029 12 0 10308362 long_range 7787338 16 0 0 0 26_samples:0 2520764 2521015 252 45 10308087 10308353 267 57 CACNA1C Intron of CACNA1C(+): 37Kb before exon 4 OLR1 IGR: 3Kb before OLR1(-) - 0 0 1.000000e-02 0 2 0 3 2 -9.681231e-01 -1.922093e-01 1 16 1 16 1 2521015 10308353 1 2521029 14 10308362 9 16 9.707202e-01 0 1 69 0 31 1 -1 -2521016 -1 -10308354 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 100 12 0 10143766 12 1 10151973 deletion 8215 16 0 0 0 26_samples:0 10143487 10143774 288 67 10151989 10152282 294 56 CLEC1B IGR: 2Kb before CLEC1B(-) CLEC1B Promoter of CLEC1B(-): 90bp from tx start - 0 4.000000e-02 0 0 2 2 3 3 4.543854e-01 -2.568688e-01 1 16 1 16 1 10143774 10151989 1 10143766 -8 10151973 -16 15 1 0 5 74 0 25 1 -1 -10143775 -1 -10151990 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 101 14 0 68810458 14 1 68812314 deletion 1855 16 0 0 0 26_samples:0 68810166 68810458 293 55 68812313 68812584 272 54 RAD51L1 Intron of RAD51L1(+): 52Kb after exon 8 RAD51L1 Intron of RAD51L1(+): 54Kb after exon 8 Deletion within intron 0 0 1.000000e-02 0 2 1 2 3 -3.215283e-01 -3.861878e-01 1 16 1 16 1 68810458 68812313 1 68810458 0 68812314 1 5 9.899815e-01 0 4 85 0 19 1 -1 -68810459 -1 -68812314 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 102 18 0 18810758 18 1 18937260 deletion 126529 16 0 0 0 26_samples:0 18810442 18810728 287 61 18937257 18937530 274 61 GREB1L IGR: 11Kb before GREB1L(+) GREB1L 5'-UTR of GREB1L(+): 26Kb before coding start - 0 0 1.000000e-02 5.000000e-02 4 1 5 4 6.642858e-02 6.642858e-02 9.846154e-01 1.575385e+01 1 1.575385e+01 1 18810728 18937257 1 18810758 30 18937260 3 13 9.909367e-01 0 3 81 0 25 1 18810929 201 18937056 -201 1 7.708501e-01 0 0 76 52 GGTTTACTGTGCCTTTTTTTTTTTTTTTTGAGATGGAGTCTTGCTCTGTCGC 29 1 8.620690e-01 LUSC-22-1016 103 5 0 51150370 7 1 19447089 inter_chr NaN 15 0 0 0 26_samples:0 51150067 51150376 310 75 19447099 19447363 265 66 ISL1 IGR: 471Kb before ISL1(+) FERD3L IGR: 263Kb before FERD3L(-) - 0 0 0 0 3 2 3 2 9.716613e-01 3.897260e-01 1 15 1 15 1 51150376 19447099 1 51150370 -6 19447089 -10 8 9.851703e-01 0 3 74 0 9 1 -1 -51150377 -1 -19447100 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 104 6 0 163307452 6 1 163519217 deletion 211767 15 0 0 0 26_samples:0 163307215 163307456 242 40 163519223 163519533 311 57 PACRG Intron of PACRG(+): 72Kb after exon 3 PACRG Intron of PACRG(+): 9Kb after exon 5 Deletion of 2 exons: out of frame 1.000000e-02 0 0 0 2 1 2 1 -1.291420e+00 -1.922093e-01 1 15 1 15 1 163307456 163519223 1 163307452 -4 163519217 -6 8 9.899340e-01 0 3 65 0 17 1 -1 -163307457 -1 -163519224 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 107 10 0 60951756 10 1 61314819 deletion 363121 15 0 0 0 26_samples:0 60951493 60951740 248 53 61314861 61315110 250 48 PHYHIPL Intron of PHYHIPL(+): 14Kb after exon 1 SLC16A9 IGR: 96Kb before SLC16A9(-) - 0 0 0 0 4 1 4 0 -4.508472e-01 -7.741446e-01 1 15 1 15 1 60951740 61314861 1 60951756 16 61314819 -42 9 9.486619e-01 0 2 74 0 15 1 -1 -60951741 -1 -61314862 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 109 16 0 66983484 16 1 66984558 deletion 1078 15 0 0 0 26_samples:0 66983197 66983475 279 53 66984553 66984804 252 51 CES2 IGR: 4Kb after CES2(+) CES2 IGR: 6Kb after CES2(+) - 0 2.000000e-02 0 0 1 1 3 2 -4.508472e-01 -5.801662e-01 1 15 1 15 1 66983475 66984553 1 66983484 9 66984558 5 17 9.993726e-01 0 3 71 0 25 1 -1 -66983476 -1 -66984554 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 106 9 1 33873633 9 1 33887786 inversion 14155 15 0 0 0 26_samples:0 33873629 33873883 255 56 33887784 33888084 301 68 UBE2R2 Intron of UBE2R2(+): 13Kb before exon 2 UBE2R2 Intron of UBE2R2(+): 819bp after exon 2 - 0 0 3.000000e-02 2.000000e-02 3 1 5 1 -2.568688e-01 5.190449e-01 9.846154e-01 1.476923e+01 1 1.476923e+01 1 33873629 33887784 1 33873633 4 33887786 2 12 9.886066e-01 1 0 74 0 19 1 -1 -33873630 -1 -33887785 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 108 12 1 1114019 12 0 1160309 tandem_dup 46291 15 0 0 0 26_samples:0 1114014 1114321 308 65 1159992 1160305 314 74 ERC1 5'-UTR of ERC1(+): 23Kb before coding start ERC1 Intron of ERC1(+): 23Kb after exon 2 Duplication within transcript 2.000000e-02 3.000000e-02 1.000000e-02 8.000000e-02 5 1 4 1 3.250665e-01 9.070018e-01 9.846154e-01 1.476923e+01 1 1.476923e+01 1 1114014 1160305 1 1114019 5 1160309 4 12 9.971432e-01 1 3 67 0 19 1 -1 -1114015 -1 -1160306 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 30 1 0 51845032 1 1 53466553 long_range 1621520 34 0 0 0 26_samples:0 51844679 51845029 351 66 53466549 53466780 232 37 EPS15 Intron of EPS15(-): 13Kb before exon 22 SCP2 Intron of SCP2(+): 13Kb after exon 11 - 1.000000e-02 3.000000e-02 0 0 9 3 5 1 4.233767e-01 -1.867834e+00 4.186623e-01 1.423452e+01 1 1.423452e+01 1 51845029 53466549 1 51845032 3 53466553 4 20 9.700130e-01 0 1 70 0 139 1 -1 -51845030 -1 -53466550 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 93 1 0 214697008 1 0 214799143 inversion 102143 16 0 0 0 26_samples:0 214696693 214697004 312 71 214798844 214799147 304 60 PTPN14 5'-UTR of PTPN14(-): 59Kb before coding start CENPF Intron of CENPF(+): 3Kb before exon 8 Transcript fusion (CENPF-PTPN14) 1.000000e-02 0 1.000000e-02 0 3 0 6 2 7.130234e-01 1.769106e-03 8.888889e-01 1.422222e+01 1 1.422222e+01 1 214697004 214799147 1 214697008 4 214799143 -4 7 9.913771e-01 0 0 67 0 20 1 -1 -214697005 -1 -214799148 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 114 3 0 58507580 4 1 71404978 inter_chr NaN 14 0 0 0 26_samples:0 58507290 58507536 247 41 71404978 71405198 221 35 ACOX2 Intron of ACOX2(-): 687bp after exon 12 AMTN IGR: 7Kb after AMTN(+) - 0 0 0 0 2 1 3 1 -1.134840e+00 -1.499197e+00 1 14 1 14 1 58507536 71404978 1 58507580 44 71404978 0 4 8.938626e-01 0 0 61 27 TGTGCCCAGTGGGCATGGGGTCCCAGG 17 1 -1 -58507537 -1 -71404979 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 116 6 0 163853341 6 1 163860414 deletion 7085 14 0 0 0 26_samples:0 163853059 163853340 282 59 163860425 163860695 271 62 QKI Intron of QKI(+): 17Kb after exon 1 QKI Intron of QKI(+): 16Kb before exon 2 Deletion within intron 0 0 6.000000e-02 5.000000e-02 2 1 3 2 -4.176927e-02 1.404092e-01 1 14 1 14 1 163853340 163860425 1 163853341 1 163860414 -11 7 9.404653e-01 0 1 59 3 AAA 16 1 -1 -163853341 -1 -163860426 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 121 10 0 65350008 10 1 65472977 deletion 122983 14 0 0 0 26_samples:0 65349698 65350007 310 65 65472990 65473266 277 61 REEP3 Intron of REEP3(+): 5Kb before exon 3 REEP3 IGR: 192Kb before REEP3(+) - 3.000000e-02 2.000000e-02 0 0 4 3 2 0 3.225877e-01 7.968304e-02 1 14 1 14 1 65350007 65472990 1 65350008 1 65472977 -13 9 9.977756e-01 0 1 72 0 17 1 -1 -65350008 -1 -65472991 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 122 10 0 133729682 10 1 134036480 deletion 306797 14 0 0 0 26_samples:0 133729428 133729690 263 60 134036487 134036783 297 61 PPP2R2D IGR: 18Kb before PPP2R2D(+) STK32C Exon 9 of STK32C(-) - 0 0 0 0 3 0 1 0 1.895688e-02 7.968304e-02 1 14 1 14 1 133729690 134036487 1 133729682 -8 134036480 -7 4 8.788013e-01 0 1 68 0 12 1 -1 -133729691 -1 -134036488 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 123 11 0 3980893 11 1 4049283 deletion 68412 14 0 0 0 26_samples:0 3980608 3980880 273 56 4049292 4049555 264 60 STIM1 Intron of STIM1(+): 8Kb before exon 2 STIM1 Intron of STIM1(+): 4Kb after exon 3 Deletion of 2 exons: in frame 0 0 4.000000e-02 2.000000e-02 2 1 3 1 -2.239477e-01 1.895688e-02 1 14 1 14 1 3980880 4049292 1 3980893 13 4049283 -9 16 9.202453e-01 0 0 75 1 A 30 1 -1 -3980881 -1 -4049293 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 110 1 0 109152593 1 1 109624467 deletion 471897 14 0 0 0 26_samples:0 109152300 109152584 285 63 109624481 109624748 268 62 FAM102B Intron of FAM102B(+): 2Kb before exon 4 TAF13 IGR: 6Kb after TAF13(-) - 1.000000e-02 0 2.000000e-02 2.000000e-02 5 1 4 1 2.011353e-01 1.404092e-01 9.846154e-01 1.378462e+01 1 1.378462e+01 1 109152584 109624481 1 109152593 9 109624467 -14 14 9.943578e-01 0 4 73 0 31 1 -1 -109152585 -1 -109624482 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 118 6 1 89957663 15 0 29511358 inter_chr NaN 14 0 0 0 26_samples:0 89957657 89957964 308 65 29511093 29511362 270 57 GABRR2 IGR: 10Kb before GABRR2(-) FAM189A1 Intron of FAM189A1(-): 23Kb before exon 4 - 0 0 4.000000e-02 0 4 1 5 2 3.225877e-01 -1.632216e-01 9.846154e-01 1.378462e+01 1 1.378462e+01 1 89957657 29511362 1 89957663 6 29511358 -4 11 9.956707e-01 1 2 76 0 21 1 -1 -89957658 -1 -29511363 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 120 8 0 90902954 8 1 90966701 deletion 63783 14 0 0 0 26_samples:0 90902653 90902950 298 62 90966733 90966991 259 51 OSGIN2 IGR: 11Kb before OSGIN2(+) NBN Intron of NBN(-): 778bp after exon 10 - 1.000000e-02 2.000000e-02 0 0 4 4 5 2 1.404092e-01 -5.275785e-01 9.846154e-01 1.378462e+01 1 1.378462e+01 1 90902950 90966733 1 90902954 4 90966701 -32 15 9.809988e-01 0 1 78 0 28 1 90903154 204 90966734 1 1 7.902219e-01 0 4 68 0 3 1 9.333333e+00 LUSC-22-1016 125 17 0 70517949 17 1 70567097 deletion 49148 14 0 0 0 26_samples:0 70517659 70517949 291 62 70567097 70567425 329 77 SLC39A11 IGR: 124Kb before SLC39A11(-) SLC39A11 IGR: 75Kb before SLC39A11(-) - 2.000000e-02 3.000000e-02 6.000000e-02 5.000000e-02 2 2 5 1 1.404092e-01 1.051302e+00 9.844825e-01 1.378275e+01 1 1.378275e+01 1 70517949 70567097 1 70517903 -46 70567086 -11 1 7.609155e-01 0 0 126 1 T 26 1 -1 -70517950 -1 -70567098 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-22-1016 105 9 1 134217037 9 0 134394751 tandem_dup 177716 15 0 0 0 26_samples:0 134217040 134217340 301 65 134394436 134394756 321 64 PPAPDC3 IGR: 52Kb before PPAPDC3(+) POMT1 Intron of POMT1(+): 20bp before exon 16 - 6.000000e-02 1.800000e-01 0 0 6 4 3 1 3.250665e-01 2.604070e-01 8.888889e-01 1.333333e+01 1 1.333333e+01 1 134217040 134394756 1 134217037 -3 134394751 -5 10 9.939671e-01 1 1 78 0 18 1 -1 -134217041 -1 -134394757 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 132 6 0 163859832 6 1 163865977 deletion 6150 13 0 0 0 26_samples:0 163859536 163859827 292 64 163865977 163866262 286 62 QKI Intron of QKI(+): 16Kb before exon 2 QKI Intron of QKI(+): 10Kb before exon 2 Deletion within intron 0 7.000000e-02 0 0 3 0 3 1 2.618615e-01 1.404092e-01 1 13 1 13 1 163859827 163865977 1 163859832 5 163865977 0 2 9.930174e-01 0 3 68 0 4 1 -1 -163859828 -1 -163865978 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 133 7 0 111393498 7 0 111597891 inversion 204413 13 0 0 0 26_samples:0 111393235 111393475 241 55 111597633 111597888 256 53 DOCK4 Intron of DOCK4(-): 2Kb after exon 41 DOCK4 Intron of DOCK4(-): 12Kb before exon 9 - 0 0 0 0 4 2 3 1 -2.846739e-01 -4.061262e-01 1 13 1 13 1 111393475 111597888 1 111393498 23 111597891 3 12 9.974711e-01 0 2 65 0 13 1 -1 -111393476 -1 -111597889 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 136 8 0 115524089 14 0 104041919 inter_chr NaN 13 0 0 0 26_samples:0 115523846 115524098 253 54 104041593 104041919 327 63 TRPS1 IGR: 897Kb before TRPS1(-) C14orf153 Intron of C14orf153(+): 1Kb after exon 3 - 0 0 0 0 4 1 3 0 -3.454000e-01 2.011353e-01 1 13 1 13 1 115524098 104041919 1 115524089 -9 104041919 0 10 9.956997e-01 0 2 69 0 22 1 -1 -115524099 -1 -104041920 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 137 10 0 10708517 10 1 10718329 deletion 9832 13 0 0 0 26_samples:0 10708263 10708507 245 48 10718339 10718615 277 60 SFTA1P IGR: 118Kb before SFTA1P(-) SFTA1P IGR: 108Kb before SFTA1P(-) - 0 0 3.000000e-02 0 2 1 3 1 -7.097570e-01 1.895688e-02 1 13 1 13 1 10708507 10718339 1 10708517 10 10718329 -10 11 9.992428e-01 0 2 68 0 15 1 -1 -10708508 -1 -10718340 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 141 16 0 8960038 16 1 9034509 deletion 74548 13 0 0 0 26_samples:0 8959774 8959991 218 36 9034539 9034770 232 46 CARHSP1 5'-UTR of CARHSP1(-): 7Kb before coding start USP7 Intron of USP7(-): 10Kb before exon 2 Transcript fusion (USP7-CARHSP1) 2.000000e-02 3.000000e-02 0 0 3 0 2 0 -1.438471e+00 -8.312093e-01 1 13 1 13 1 8959991 9034539 1 8960038 47 9034509 -30 9 9.977267e-01 0 5 73 0 19 1 -1 -8959992 -1 -9034540 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 142 18 0 47680590 18 1 48377222 deletion 696632 13 0 0 0 26_samples:0 47680258 47680586 329 66 48377218 48377514 297 63 MYO5B Intron of MYO5B(-): 41Kb after exon 1 ME2 IGR: 28Kb before ME2(+) - 0 0 0 0 3 0 4 1 3.833138e-01 2.011353e-01 1 13 1 13 1 47680586 48377218 1 47680590 4 48377222 4 11 9.621877e-01 0 1 74 0 14 1 -1 -47680587 -1 -48377219 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 138 10 1 115508173 15 0 95811314 inter_chr NaN 13 0 0 0 26_samples:0 115508171 115508507 337 78 95811038 95811318 281 61 C10orf81 IGR: 3Kb before C10orf81(+) LOC145820 IGR: 165Kb before LOC145820(+) - 0 0 0 0 2 1 3 2 1.112028e+00 7.968304e-02 9.985960e-01 1.298175e+01 1 1.298175e+01 1 115508171 95811318 1 115508173 2 95811314 -4 7 9.926572e-01 1 2 73 0 11 1 -1 -115508172 -1 -95811319 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 134 7 0 104721671 7 1 104843902 deletion 122248 13 0 0 0 26_samples:0 104721424 104721674 251 41 104843922 104844244 323 61 MLL5 Intron of MLL5(+): 461bp before exon 12 SRPK2 Intron of SRPK2(-): 153bp after exon 2 Antisense fusion 7.000000e-02 0 0 0 5 2 3 1 -1.134840e+00 7.968304e-02 9.846154e-01 1.280000e+01 1 1.280000e+01 1 104721674 104843922 1 104721671 -3 104843902 -20 13 9.972771e-01 0 1 69 0 19 1 104721707 33 104843789 -133 1 8.711400e-01 0 3 67 0 1 1 19 LUSC-22-1016 139 15 1 74425113 15 1 99127327 long_range 24702228 13 0 0 0 26_samples:0 74425124 74425369 246 59 99127352 99127589 238 39 ISLR2 Exon 3 of ISLR2(+) IGF1R IGR: 65Kb before IGF1R(+) - 0 0 0 0 2 0 5 1 -4.176927e-02 -1.256292e+00 9.846154e-01 1.280000e+01 1 1.280000e+01 1 74425124 99127352 1 74425113 -11 99127327 -25 14 9.871636e-01 1 2 70 0 19 1 -1 -74425125 -1 -99127353 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 127 1 0 214705964 1 1 214713733 deletion 7773 13 0 0 0 26_samples:0 214705589 214705956 368 82 214713729 214714021 293 60 PTPN14 5'-UTR of PTPN14(-): 68Kb before coding start PTPN14 5'-UTR of PTPN14(-): 76Kb before coding start Deletion within transcript 1.000000e-02 0 0 0 1 1 1 2 1.354932e+00 1.895688e-02 9.572004e-01 1.244361e+01 1 1.244361e+01 1 214705956 214713729 1 214705964 8 214713733 4 19 9.858678e-01 0 0 78 0 26 1 -1 -214705957 -1 -214713730 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 143 1 0 98291991 1 1 98391104 deletion 99138 12 0 0 0 26_samples:0 98291681 98291973 293 62 98391111 98391388 278 56 DPYD Intron of DPYD(-): 2Kb after exon 3 DPYD IGR: 4Kb after DPYD(-) - 0 0 0 0 3 2 4 2 1.404092e-01 -2.239477e-01 1 12 1 12 1 98291973 98391111 1 98291991 18 98391104 -7 8 9.984246e-01 0 2 78 0 10 1 -1 -98291974 -1 -98391112 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 155 5 1 27410426 5 0 32524503 long_range 5114054 12 0 0 0 26_samples:0 27410422 27410700 279 55 32524281 32524476 196 36 CDH9 IGR: 372Kb after CDH9(-) SUB1 IGR: 61Kb before SUB1(+) - 0 0 0 0 4 2 2 0 -2.846739e-01 -1.438471e+00 1 12 1 12 1 27410422 32524476 1 27410426 4 32524503 27 5 9.648425e-01 1 1 65 0 10 1 -1 -27410423 -1 -32524477 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 157 6 0 84070008 6 0 89946601 long_range 5876578 12 0 0 0 26_samples:0 84069753 84070013 261 58 89946327 89946591 265 48 ME1 Intron of ME1(-): 8Kb before exon 4 GABRR2 IGR: 21Kb before GABRR2(-) - 3.000000e-02 4.000000e-02 1.000000e-02 2.000000e-02 2 1 2 2 -1.024954e-01 -7.097570e-01 1 12 1 12 1 84070013 89946591 1 84070008 -5 89946601 10 16 9.655217e-01 0 2 60 0 30 1 -1 -84070014 -1 -89946592 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 162 15 0 94002079 15 0 99126418 long_range 5124352 12 0 0 0 26_samples:0 94001791 94002070 280 67 99126146 99126422 277 63 RGMA IGR: 415Kb before RGMA(-) IGF1R IGR: 66Kb before IGF1R(+) - 0 0 0 0 1 1 4 0 4.440400e-01 2.011353e-01 1 12 1 12 1 94002070 99126422 1 94002079 9 99126418 -4 11 9.677262e-01 0 4 66 0 15 1 -1 -94002071 -1 -99126423 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 163 22 0 41254737 22 1 41489667 deletion 234932 12 0 0 0 26_samples:0 41254440 41254737 298 65 41489669 41489924 256 58 XPNPEP3 Intron of XPNPEP3(+): 1Kb after exon 1 EP300 Intron of EP300(+): 567bp after exon 1 Protein fusion: in frame (XPNPEP3-EP300) 3.000000e-02 3.000000e-02 0 0 3 3 4 1 3.225877e-01 -1.024954e-01 1 12 1 12 1 41254737 41489669 1 41254737 0 41489667 -2 3 9.931722e-01 0 1 64 0 7 1 -1 -41254738 -1 -41489670 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 9 1 1 51847745 4 0 158357614 inter_chr NaN 53 0 0 0 26_samples:0 51847807 51848052 246 40 158357442 158357616 175 26 EPS15 Intron of EPS15(-): 12Kb after exon 21 LOC340017 IGR: 136Kb before LOC340017(+) - 0 0 0 0 9 2 9 1 -1.630812e+00 -2.736914e+00 2.246465e-01 1.190627e+01 1 1.190627e+01 1 51847807 158357616 1 51847745 -62 158357614 -2 20 9.107168e-01 1 1 68 0 61 1 -1 -51847808 -1 -158357617 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 149 2 0 183859148 2 1 183878459 deletion 19339 12 0 0 0 26_samples:0 183858904 183859135 232 54 183878474 183878755 282 56 NCKAP1 Intron of NCKAP1(-): 432bp after exon 8 NCKAP1 Intron of NCKAP1(-): 10Kb after exon 2 Deletion of 6 exons: out of frame 0 0 0 0 4 1 5 3 -3.454000e-01 -2.239477e-01 9.846154e-01 1.181538e+01 1 1.181538e+01 1 183859135 183878474 1 183859148 13 183878459 -15 18 9.984409e-01 0 5 73 0 31 1 -1 -183859136 -1 -183878475 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 152 2 0 218822196 21 1 48003899 inter_chr NaN 12 0 0 0 26_samples:0 218821916 218822147 232 45 48003894 48004154 261 64 TNS1 IGR: 13Kb after TNS1(-) S100B IGR: 15Kb before S100B(-) - 0 0 0 0 2 0 5 1 -8.919354e-01 2.618615e-01 9.846154e-01 1.181538e+01 1 1.181538e+01 1 218822147 48003894 1 218822196 49 48003899 5 10 9.823001e-01 0 5 76 0 16 1 218822350 203 48003815 -79 1 7.774269e-01 0 2 65 0 4 1 4 LUSC-22-1016 159 12 0 54896030 12 0 54987152 inversion 91061 12 0 0 0 26_samples:0 54895772 54896039 268 58 54986820 54987100 281 66 NCKAP1L Intron of NCKAP1L(+): 2Kb after exon 3 PPP1R1A IGR: 5Kb after PPP1R1A(-) - 0 0 0 0 5 1 2 0 -1.024954e-01 3.833138e-01 9.846154e-01 1.181538e+01 1 1.181538e+01 1 54896039 54987100 1 54896030 -9 54987152 52 17 9.922141e-01 0 0 71 0 22 1 -1 -54896040 -1 -54987101 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 160 12 0 104631669 12 1 104690564 deletion 58885 12 0 0 0 26_samples:0 104631379 104631674 296 52 104690559 104690839 281 51 TXNRD1 Intron of TXNRD1(+): 14Kb before exon 2 TXNRD1 Intron of TXNRD1(+): 8Kb after exon 4 Deletion of 3 exons: out of frame 1.000000e-02 2.000000e-02 1.000000e-02 2.000000e-02 4 2 5 3 -4.668524e-01 -5.275785e-01 9.846154e-01 1.181538e+01 1 1.181538e+01 1 104631674 104690559 1 104631669 -5 104690564 5 8 9.984246e-01 0 2 71 0 18 1 104631608 -66 104690357 -202 1 8.826501e-01 0 1 78 2 TT 4 1 4.500000e+00 LUSC-22-1016 161 12 1 98777296 16 0 66984540 inter_chr NaN 12 0 0 0 26_samples:0 98777303 98777437 135 14 66984260 66984465 206 27 LOC100128191 IGR: 129Kb before LOC100128191(-) CES2 IGR: 5Kb after CES2(+) - 0 0 1.000000e-02 3.000000e-02 3 0 5 1 -2.774446e+00 -1.985006e+00 9.846154e-01 1.181538e+01 1 1.181538e+01 1 98777303 66984465 1 98777296 -7 66984540 75 14 9.732509e-01 1 4 65 0 23 1 -1 -98777304 -1 -66984466 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 77 1 0 222533719 1 1 222540146 deletion 6434 18 0 0 0 26_samples:0 222533304 222533706 403 82 222540140 222540458 319 66 HHIPL2 IGR: 162Kb before HHIPL2(-) HHIPL2 IGR: 155Kb before HHIPL2(-) - 1.000000e-02 3.000000e-02 0 0 7 3 2 0 1.424278e+00 3.897260e-01 6.533938e-01 1.176109e+01 1 1.176109e+01 1 222533706 222540140 1 222533719 13 222540146 6 10 9.959667e-01 0 3 73 0 19 1 -1 -222533707 -1 -222540141 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 119 8 0 48490969 8 1 48588301 deletion 97348 14 0 0 0 26_samples:0 48490672 48490966 295 65 48588314 48588608 295 83 KIAA0146 Intron of KIAA0146(+): 17Kb before exon 9 KIAA0146 Intron of KIAA0146(+): 2Kb after exon 11 Deletion of 3 exons: in frame 1.000000e-02 5.000000e-02 0 2.000000e-02 6 2 5 1 3.225877e-01 1.415658e+00 8.165723e-01 1.143201e+01 1 1.143201e+01 1 48490966 48588314 1 48490969 3 48588301 -13 4 9.870303e-01 0 9 125 0 31 1 -1 -48490967 -1 -48588315 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 78 1 0 56178667 10 1 62474253 inter_chr NaN 18 0 0 0 26_samples:0 56178385 56178679 295 58 62474257 62474520 264 49 USP24 IGR: 498Kb after USP24(-) CDK1 IGR: 64Kb before CDK1(+) - 0 0 0 0 6 1 7 3 -1.275498e-01 -7.094851e-01 6.251526e-01 1.125275e+01 1 1.125275e+01 1 56178679 62474257 1 56178667 -12 62474253 -4 10 9.078298e-01 0 2 73 0 24 1 -1 -56178680 -1 -62474258 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 164 1 1 51902585 1 1 55431514 long_range 3528955 11 0 0 0 26_samples:0 51902593 51902832 240 42 55431548 55431829 282 73 EPS15 Intron of EPS15(-): 3Kb after exon 12 TMEM61 IGR: 15Kb before TMEM61(+) - 1.000000e-02 0 0 0 4 1 3 0 -9.885805e-01 7.707958e-01 1 11 1 11 1 51902593 55431548 1 51902585 -8 55431514 -34 6 9.291808e-01 1 3 66 0 16 1 -1 -51902594 -1 -55431549 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 167 1 1 173816992 5 1 10301291 inter_chr NaN 11 0 0 0 26_samples:0 173817031 173817295 265 50 10301300 10301545 246 48 DARS2 Intron of DARS2(+): 2Kb before exon 13 CMBL 5'-UTR of CMBL(-): 10Kb before coding start Transcript fusion (CMBL-DARS2) 3.000000e-02 2.000000e-02 0 0 4 1 3 0 -5.345479e-01 -6.480561e-01 1 11 1 11 1 173817031 10301300 1 173816992 -39 10301291 -9 8 8.408578e-01 1 0 68 0 9 1 -1 -173817032 -1 -10301301 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 172 4 0 2565521 4 1 2572939 deletion 7420 11 0 0 0 26_samples:0 2565225 2565516 292 60 2572936 2573253 318 70 FAM193A IGR: 62Kb before FAM193A(+) FAM193A IGR: 54Kb before FAM193A(+) - 0 0 0 0 1 1 2 1 3.299283e-02 6.005336e-01 1 11 1 11 1 2565516 2572936 1 2565521 5 2572939 3 8 9.957983e-01 0 5 75 0 14 1 -1 -2565517 -1 -2572937 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 173 4 0 103458402 4 1 103658104 deletion 199748 11 0 0 0 26_samples:0 103458136 103458396 261 60 103658144 103658396 253 55 NFKB1 Intron of NFKB1(+): 619bp before exon 5 MANBA Intron of MANBA(-): 10Kb before exon 2 Antisense fusion 0 0 0 0 4 2 2 1 3.299283e-02 -2.507775e-01 1 11 1 11 1 103458396 103658144 1 103458402 6 103658104 -40 6 1 0 3 66 0 9 1 -1 -103458397 -1 -103658145 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 174 5 0 112340171 5 1 112511718 deletion 171562 11 0 0 0 26_samples:0 112339884 112340175 292 66 112511737 112511991 255 52 DCP2 Intron of DCP2(+): 401bp after exon 8 MCC Intron of MCC(-): 25Kb before exon 2 Antisense fusion 0 0 0 0 1 1 3 2 3.735173e-01 -4.210398e-01 1 11 1 11 1 112340175 112511737 1 112340171 -4 112511718 -19 5 9.917849e-01 0 2 64 0 9 1 112340313 138 112511536 -201 1 8.127073e-01 0 1 70 24 TTTTCAACATGTGGGTCATGATCC 6 1 1.500000e+00 LUSC-22-1016 175 6 1 71537362 6 1 89247476 long_range 17710142 11 0 0 0 26_samples:0 71537362 71537631 270 44 89247504 89247790 287 55 SMAP1 Intron of SMAP1(+): 9Kb before exon 6 RNGTT IGR: 72Kb before RNGTT(-) - 0 0 0 0 1 1 3 2 -8.750724e-01 -2.507775e-01 1 11 1 11 1 71537362 89247504 1 71537362 0 89247476 -28 2 9.618532e-01 1 0 68 0 6 1 -1 -71537363 -1 -89247505 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 181 14 0 95539164 14 1 95617137 deletion 77985 11 0 0 0 26_samples:0 95538879 95539164 286 65 95617149 95617459 311 68 DICER1 IGR: 13Kb before DICER1(-) DICER1 5'-UTR of DICER1(-): 17Kb before coding start - 0 0 1.000000e-02 3.000000e-02 2 1 3 1 3.167632e-01 4.870254e-01 1 11 1 11 1 95539164 95617149 1 95539164 0 95617137 -12 6 9.643669e-01 0 0 69 7 GACAACT 14 1 -1 -95539165 -1 -95617150 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 178 8 0 52270926 8 1 52282855 deletion 11922 11 0 0 0 26_samples:0 52270593 52270931 339 80 52282853 52283160 308 69 PXDNL Intron of PXDNL(-): 12Kb before exon 20 PXDNL Intron of PXDNL(-): 2Kb after exon 19 Deletion within intron 0 0 0 0 2 1 3 0 1.168074e+00 5.437795e-01 9.952745e-01 1.094802e+01 1 1.094802e+01 1 52270931 52282853 1 52270926 -5 52282855 2 3 9.812700e-01 0 2 74 0 15 1 52271075 144 52282648 -205 1 7.731238e-01 0 4 67 0 2 1 7.500000e+00 LUSC-22-1016 165 1 0 61695516 1 1 61770230 deletion 74745 11 0 0 0 26_samples:0 61695143 61695495 353 77 61770240 61770484 245 47 NFIA Intron of NFIA(+): 48Kb before exon 3 NFIA Intron of NFIA(+): 27Kb after exon 3 Deletion of 1 exon: in frame 0 0 0 0 5 1 2 1 9.978121e-01 -7.048101e-01 9.846154e-01 1.083077e+01 1 1.083077e+01 1 61695495 61770240 1 61695516 21 61770230 -10 7 9.748288e-01 0 1 80 0 14 1 -1 -61695496 -1 -61770241 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 184 19 0 46507525 19 1 46880797 deletion 373317 11 0 0 0 26_samples:0 46507255 46507480 226 43 46880797 46881030 234 44 CCDC61 Intron of CCDC61(+): 721bp after exon 4 PPP5C Intron of PPP5C(+): 966bp after exon 4 Protein fusion: in frame (CCDC61-PPP5C) 3.000000e-02 6.000000e-02 0 0 4 1 5 0 -9.318264e-01 -8.750724e-01 9.846154e-01 1.083077e+01 1 1.083077e+01 1 46507480 46880797 1 46507525 45 46880797 0 11 9.801218e-01 0 3 68 0 25 1 -1 -46507481 -1 -46880798 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 154 5 0 13760774 5 1 14174552 deletion 413781 12 0 0 0 26_samples:0 13760439 13760772 334 84 14174553 14174855 303 78 DNAH5 Intron of DNAH5(-): 2Kb before exon 61 TRIO Intron of TRIO(+): 31Kb after exon 1 - 0 0 0 0 1 2 3 0 1.476385e+00 1.112028e+00 9.011690e-01 1.081403e+01 1 1.081403e+01 1 13760772 14174553 1 13760774 2 14174552 -1 5 9.483365e-01 0 3 74 0 12 1 -1 -13760773 -1 -14174554 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 199 2 0 80247883 2 1 80250122 deletion 2266 10 0 0 0 26_samples:0 80247613 80247873 261 60 80250139 80250452 314 69 CTNNA2 Intron of CTNNA2(+): 111Kb after exon 7 CTNNA2 Intron of CTNNA2(+): 113Kb after exon 7 Deletion within intron 0 0 0 0 2 0 1 1 3.299283e-02 5.437795e-01 1 10 1 10 1 80247873 80250139 1 80247883 10 80250122 -17 18 9.976155e-01 0 3 76 0 26 1 -1 -80247874 -1 -80250140 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 201 2 1 138427786 2 0 138467148 tandem_dup 39344 10 0 0 0 26_samples:0 138427811 138428119 309 60 138466928 138467155 228 38 THSD7B Intron of THSD7B(+): 2Kb after exon 26 THSD7B IGR: 32Kb after THSD7B(+) - 0 0 0 0 1 1 2 1 3.299283e-02 -1.215597e+00 1 10 1 10 1 138427811 138467155 1 138427786 -25 138467148 -7 9 1 1 2 65 0 12 1 -1 -138427812 -1 -138467156 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 205 6 0 163868744 6 1 163946489 deletion 77777 10 0 0 0 26_samples:0 163868436 163868727 292 58 163946504 163946744 241 52 QKI Intron of QKI(+): 8Kb before exon 2 QKI Intron of QKI(+): 10Kb before exon 4 Deletion of 2 exons: out of frame 0 0 1.000000e-02 3.000000e-02 3 4 3 4 -8.051532e-02 -4.210398e-01 1 10 1 10 1 163868727 163946504 1 163868744 17 163946489 -15 11 9.888371e-01 0 3 67 0 18 1 -1 -163868728 -1 -163946505 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 206 6 0 23705030 16 0 24099587 inter_chr NaN 10 0 0 0 26_samples:0 23704715 23704987 273 74 24099316 24099594 279 59 NRSN1 IGR: 421Kb before NRSN1(+) PRKCB Intron of PRKCB(+): 5Kb before exon 6 - 0 0 0 0 2 1 4 0 8.275499e-01 -2.376124e-02 1 10 1 10 1 23704987 24099594 1 23705030 43 24099587 -7 4 9.768749e-01 0 1 78 0 9 1 -1 -23704988 -1 -24099595 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 217 14 0 100686995 14 1 100719266 deletion 32320 10 0 0 0 26_samples:0 100686721 100686979 259 61 100719299 100719552 254 56 YY1 IGR: 18Kb before YY1(+) YY1 Intron of YY1(+): 9Kb before exon 2 - 3.000000e-02 3.000000e-02 0 0 4 1 3 0 8.974691e-02 -1.940235e-01 1 10 1 10 1 100686979 100719299 1 100686995 16 100719266 -33 15 9.967955e-01 0 0 98 0 29 1 -1 -100686980 -1 -100719300 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 218 15 0 90796268 15 1 99126066 long_range 8329854 10 0 0 0 26_samples:0 90796001 90796242 242 41 99126096 99126331 236 35 TTLL13 Intron of TTLL13(+): 239bp before exon 4 IGF1R IGR: 67Kb before IGF1R(+) - 2.000000e-02 4.000000e-02 0 0 3 1 4 0 -1.045335e+00 -1.385859e+00 1 10 1 10 1 90796242 99126096 1 90796268 26 99126066 -30 20 9.714996e-01 0 2 66 0 28 1 -1 -90796243 -1 -99126097 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 219 15 0 74624168 15 1 92694839 long_range 18070665 10 0 0 0 26_samples:0 74623882 74624171 290 76 92694836 92695150 315 77 CCDC33 Intron of CCDC33(+): 534bp after exon 15 SLCO3A1 Intron of SLCO3A1(+): 592bp after exon 9 Protein fusion: in frame (CCDC33-SLCO3A1) 4.000000e-02 4.000000e-02 0 0 2 2 4 1 9.410580e-01 9.978121e-01 1 10 1 10 1 74624171 92694836 1 74624168 -3 92694839 3 7 9.969287e-01 0 2 62 0 13 1 -1 -74624172 -1 -92694837 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 220 16 0 9050440 16 1 9185715 deletion 135309 10 0 0 0 26_samples:0 9050173 9050428 256 54 9185737 9185980 244 43 USP7 Intron of USP7(-): 7Kb after exon 1 C16orf72 5'-UTR of C16orf72(+): 165bp before coding start - 1.000000e-02 0 0 0 2 1 2 0 -3.075316e-01 -9.318264e-01 1 10 1 10 1 9050428 9185737 1 9050440 12 9185715 -22 9 1 0 2 76 0 28 1 -1 -9050429 -1 -9185738 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 182 16 0 46886136 16 1 46989830 deletion 103700 11 0 0 0 26_samples:0 46885832 46886136 305 69 46989836 46990133 298 64 GPT2 IGR: 32Kb before GPT2(+) DNAJA2 3'-UTR of DNAJA2(-): 1Kb after coding stop - 0 0 0 0 3 0 6 1 5.437795e-01 2.600091e-01 8.888889e-01 9.777778e+00 1 9.777778e+00 1 46886136 46989836 1 46886136 0 46989830 -6 13 9.512692e-01 0 0 66 0 26 1 46886339 203 46989758 -78 1 8.967869e-01 0 2 70 0 2 1 13 LUSC-22-1016 112 1 1 214751487 1 1 214799375 inversion 47873 14 0 0 0 26_samples:0 214751510 214751779 270 59 214799383 214799668 286 66 CENPF IGR: 25Kb before CENPF(+) CENPF Intron of CENPF(+): 3Kb before exon 8 - 2.000000e-02 0 0 0 7 2 5 4 -4.176927e-02 3.833138e-01 6.924768e-01 9.694675e+00 1 9.694675e+00 1 214751510 214799383 1 214751487 -23 214799375 -8 6 9.324386e-01 1 0 64 0 15 1 -1 -214751511 -1 -214799384 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 221 1 0 49195252 1 1 49223522 deletion 28286 9 0 0 0 26_samples:0 49194995 49195258 264 48 49223544 49223796 253 55 BEND5 Intron of BEND5(-): 2Kb before exon 6 BEND5 Intron of BEND5(-): 1Kb after exon 3 Deletion of 2 exons: in frame 0 0 0 0 2 0 3 1 -5.841291e-01 -2.098930e-01 1 9 1 9 1 49195258 49223544 1 49195252 -6 49223522 -22 9 9.865656e-01 0 2 72 0 14 1 -1 -49195259 -1 -49223545 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 244 2 0 197145184 2 1 197492176 deletion 346998 9 0 0 0 26_samples:0 197144859 197145172 314 68 197492170 197492423 254 52 HECW2 Intron of HECW2(-): 2Kb before exon 15 CCDC150 IGR: 12Kb before CCDC150(+) - 0 0 0 0 3 1 3 1 4.851169e-01 -3.702799e-01 1 9 1 9 1 197145172 197492170 1 197145184 12 197492176 6 5 9.903414e-01 0 6 74 0 11 1 -1 -197145173 -1 -197492171 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 246 3 0 4609395 3 1 4634313 deletion 24959 9 0 0 0 26_samples:0 4609076 4609360 285 62 4634319 4634609 291 66 ITPR1 Intron of ITPR1(+): 47Kb after exon 4 ITPR1 Intron of ITPR1(+): 35Kb before exon 5 Deletion within intron 1.000000e-02 2.000000e-02 0 0 2 2 3 0 1.643431e-01 3.781923e-01 1 9 1 9 1 4609360 4634319 1 4609395 35 4634313 -6 5 9.508379e-01 0 4 78 0 16 1 -1 -4609361 -1 -4634320 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 249 3 0 185450535 3 1 185500333 deletion 49821 9 0 0 0 26_samples:0 185450222 185450511 290 63 185500332 185500579 248 63 IGF2BP2 Intron of IGF2BP2(-): 34Kb before exon 3 IGF2BP2 Intron of IGF2BP2(-): 41Kb after exon 2 Deletion within intron 0 0 0 0 3 0 2 0 2.178054e-01 2.178054e-01 1 9 1 9 1 185450511 185500332 1 185450535 24 185500333 1 17 9.957813e-01 0 1 69 0 25 1 -1 -185450512 -1 -185500333 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 267 21 1 29127802 21 0 29197540 tandem_dup 69727 9 0 0 0 26_samples:0 29127809 29128084 276 52 29197273 29197536 264 62 NCRNA00113 IGR: 4Kb after NCRNA00113(+) NCRNA00113 IGR: 103Kb before NCRNA00113(+) - 0 0 1.000000e-02 0 4 3 3 1 -3.702799e-01 1.643431e-01 1 9 1 9 1 29127809 29197536 1 29127802 -7 29197540 4 5 9.979071e-01 1 2 71 0 7 1 -1 -29127810 -1 -29197537 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 268 21 0 42435189 21 1 43339711 deletion 904522 9 0 0 0 26_samples:0 42434942 42435194 253 55 43339716 43340008 293 65 C21orf130 IGR: 78Kb before C21orf130(-) C2CD2 Intron of C2CD2(-): 647bp before exon 4 - 0 0 0 0 2 1 1 0 -2.098930e-01 3.247300e-01 1 9 1 9 1 42435194 43339716 1 42435189 -5 43339711 -5 11 9.966250e-01 0 1 75 0 15 1 -1 -42435195 -1 -43339717 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 269 23 0 115484474 23 1 115491747 deletion 7273 9 0 0 0 26_samples:0 115484232 115484474 243 54 115491747 115492028 282 65 SLC6A14 IGR: 83Kb before SLC6A14(+) SLC6A14 IGR: 76Kb before SLC6A14(+) - 0 0 0 0 1 1 1 3 -2.633553e-01 3.247300e-01 1 9 1 9 1 115484474 115491747 1 115484482 8 115491739 -8 1 9.664221e-01 0 2 72 3 TTT 1 1 -1 -115484475 -1 -115491748 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-22-1016 270 23 0 116521141 23 1 116522026 deletion 882 9 0 0 0 26_samples:0 116520817 116521137 321 68 116522019 116522305 287 64 KLHL13 IGR: 511Kb before KLHL13(-) KLHL13 IGR: 510Kb before KLHL13(-) - 0 0 0 0 1 2 2 1 4.851169e-01 2.712677e-01 1 9 1 9 1 116521137 116522019 1 116521141 4 116522026 7 2 9.565160e-01 0 0 79 1 A 2 1 -1 -116521138 -1 -116522020 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 271 23 0 141423962 23 1 142015095 deletion 591149 9 0 0 0 26_samples:0 141423690 141423971 282 76 142015120 142015390 271 69 MAGEC2 IGR: 134Kb before MAGEC2(-) SPANXN4 IGR: 99Kb before SPANXN4(+) - 0 0 0 0 3 1 2 1 9.128153e-01 5.385792e-01 1 9 1 9 1 141423971 142015120 1 141423962 -9 142015095 -25 5 9.924361e-01 0 5 73 0 6 1 -1 -141423972 -1 -142015121 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 242 2 0 139252582 2 1 139273997 deletion 21437 9 0 0 0 26_samples:0 139252321 139252583 263 78 139274020 139274356 337 78 SPOPL IGR: 7Kb before SPOPL(+) SPOPL 5'-UTR of SPOPL(+): 34Kb before coding start - 0 0 0 0 3 2 3 2 1.019740e+00 1.019740e+00 9.999846e-01 8.999862e+00 1 8.999862e+00 1 139252583 139274020 1 139252582 -1 139273997 -23 17 9.881613e-01 0 5 64 0 24 1 -1 -139252584 -1 -139274021 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 185 1 0 172857672 1 1 173122235 deletion 264584 10 0 0 0 26_samples:0 172857413 172857662 250 65 173122246 173122535 290 69 TNFSF18 IGR: 153Kb before TNFSF18(-) TNFSF4 IGR: 31Kb before TNFSF4(-) - 0 0 1.000000e-02 0 2 0 6 2 3.167632e-01 5.437795e-01 8.888889e-01 8.888889e+00 1 8.888889e+00 1 172857662 173122246 1 172857672 10 173122235 -11 7 9.949007e-01 0 2 75 0 16 1 -1 -172857663 -1 -173122247 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 200 2 0 48907126 2 1 54707799 long_range 5800693 10 0 0 0 26_samples:0 48906816 48907107 292 68 54707800 54708100 301 62 GTF2A1L Intron of GTF2A1L(+): 8Kb after exon 8 SPTBN1 5'-UTR of SPTBN1(+): 46Kb before coding start Transcript fusion (GTF2A1L-SPTBN1) 0 0 0 0 2 3 6 1 4.870254e-01 1.465010e-01 8.888889e-01 8.888889e+00 1 8.888889e+00 1 48907107 54707800 1 48907126 19 54707799 -1 3 9.021698e-01 0 1 70 1 G 6 1 -1 -48907108 -1 -54707801 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 222 1 0 157979099 1 1 157980009 deletion 908 9 0 0 0 26_samples:0 157978805 157979094 290 61 157980002 157980286 285 74 KIRREL Intron of KIRREL(+): 16Kb after exon 1 KIRREL Intron of KIRREL(+): 16Kb after exon 1 Deletion within intron 0 0 2.300000e-01 1.800000e-01 1 0 5 4 1.108808e-01 8.058907e-01 9.846154e-01 8.861538e+00 1 8.861538e+00 1 157979094 157980002 1 157979099 5 157980009 7 15 9.868545e-01 0 4 89 0 26 1 -1 -157979095 -1 -157980003 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 245 2 0 113049005 9 1 31027511 inter_chr NaN 9 0 0 0 26_samples:0 113048752 113049011 260 51 31027560 31027794 235 43 ZC3H6 Intron of ZC3H6(+): 8Kb before exon 2 ACO1 IGR: 1Mb before ACO1(+) - 1.000000e-02 0 0 0 5 1 3 0 -4.237422e-01 -8.514406e-01 9.846154e-01 8.861538e+00 1 8.861538e+00 1 113049011 31027560 1 113049005 -6 31027511 -49 11 9.955192e-01 0 2 62 0 16 1 -1 -113049012 -1 -31027561 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 251 4 1 134865424 4 0 134867769 tandem_dup 2333 9 0 0 0 26_samples:0 134865443 134865751 309 77 134867482 134867776 295 66 PABPC4L IGR: 252Kb before PABPC4L(-) PABPC4L IGR: 250Kb before PABPC4L(-) - 0 0 1.000000e-02 0 2 2 5 1 9.662776e-01 3.781923e-01 9.846154e-01 8.861538e+00 1 8.861538e+00 1 134865443 134867776 1 134865424 -19 134867769 -7 9 9.988064e-01 1 2 69 0 11 1 -1 -134865444 -1 -134867777 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 264 12 0 61371311 12 1 61437250 deletion 65981 9 0 0 0 26_samples:0 61371041 61371319 279 59 61437300 61437562 263 53 FAM19A2 IGR: 731Kb before FAM19A2(-) FAM19A2 IGR: 665Kb before FAM19A2(-) - 0 0 0 0 3 0 5 1 3.956217e-03 -3.168176e-01 9.846154e-01 8.861538e+00 1 8.861538e+00 1 61371319 61437300 1 61371311 -8 61437250 -50 15 9.742989e-01 0 3 71 0 17 1 -1 -61371320 -1 -61437301 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 247 3 0 125898998 3 1 126185037 deletion 286081 9 0 0 0 26_samples:0 125898733 125898967 235 71 126185048 126185328 281 83 ALDH1L1 5'-UTR of ALDH1L1(-): 19Kb before coding start ZXDC Exon 5 of ZXDC(-) Protein fusion: mid-exon (ZXDC-ALDH1L1) 0 0 0 0 3 1 2 1 6.455038e-01 1.287051e+00 9.768939e-01 8.792045e+00 1 8.792045e+00 1 125898967 126185048 1 125898998 31 126185037 -11 8 8.916058e-01 0 2 76 8 TGAAGAGT 29 1 -1 -125898968 -1 -126185049 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 128 1 0 245409606 1 1 245986390 deletion 576805 13 0 0 0 26_samples:0 245409343 245409610 268 54 245986415 245986793 379 82 KIF26B Intron of KIF26B(+): 90Kb after exon 2 SMYD3 Intron of SMYD3(-): 35Kb after exon 10 Antisense fusion 1.000000e-02 0 0 0 7 1 4 1 -3.454000e-01 1.354932e+00 6.731959e-01 8.751547e+00 1 8.751547e+00 1 245409610 245986415 1 245409606 -4 245986390 -25 9 9.884439e-01 0 5 70 0 20 1 -1 -245409611 -1 -245986416 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 265 16 1 85255964 16 0 85310104 tandem_dup 54118 9 0 0 0 26_samples:0 85255987 85256288 302 84 85309832 85310105 274 70 FAM92B IGR: 124Kb before FAM92B(-) FAM92B IGR: 178Kb before FAM92B(-) - 0 0 0 0 3 0 2 0 1.340514e+00 5.920415e-01 9.620172e-01 8.658155e+00 1 8.658155e+00 1 85255987 85310105 1 85255964 -23 85310104 -1 14 9.870488e-01 1 0 75 1 A 18 1 85255885 -102 85310308 203 1 7.572775e-01 1 2 71 0 13 1 1.384615e+00 LUSC-22-1016 253 6 0 162011321 6 1 162036643 deletion 25370 9 0 0 0 26_samples:0 162010966 162011324 359 83 162036694 162036946 253 56 PARK2 Intron of PARK2(-): 21Kb before exon 8 PARK2 Intron of PARK2(-): 46Kb before exon 8 Deletion within intron 8.000000e-02 6.000000e-02 0 0 5 1 2 1 1.287051e+00 -1.564307e-01 9.618648e-01 8.656783e+00 1 8.656783e+00 1 162011324 162036694 1 162011321 -3 162036643 -51 12 9.562351e-01 0 2 61 0 19 1 -1 -162011325 -1 -162036695 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 60 6 1 78287550 8 0 52207701 inter_chr NaN 22 0 0 0 26_samples:0 78287570 78287884 315 71 52207386 52207690 305 70 HTR1B IGR: 116Kb before HTR1B(-) PXDNL IGR: 24Kb before PXDNL(-) - 0 0 1.000000e-02 0 3 2 9 0 7.593282e-01 6.885311e-01 3.899347e-01 8.578563e+00 1 8.578563e+00 1 78287570 52207690 1 78287550 -20 52207701 11 10 9.379875e-01 1 0 73 1 T 15 1 78287363 -207 52207864 174 2 7.650587e-01 1 6 71 0 10 1 1.500000e+00 LUSC-22-1016 3 1 0 53468079 1 0 53513667 inversion 45592 89 0 0 0 26_samples:0 53467753 53468088 336 57 53513224 53513680 457 64 SCP2 Intron of SCP2(+): 12Kb before exon 12 SCP2 Intron of SCP2(+): 71bp after exon 15 Antisense fusion 2.000000e-02 2.000000e-02 0 0 12 2 10 3 -2.876886e-01 2.653622e-01 9.524575e-02 8.476871e+00 1 8.476871e+00 1 53468088 53513680 1 53468079 -9 53513667 -13 20 9.739960e-01 0 0 73 0 141 1 -1 -53468089 -1 -53513681 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 140 15 1 90804584 15 1 99150102 long_range 8345491 13 0 0 0 26_samples:0 90804607 90804894 288 65 99150098 99150441 344 90 NGRN IGR: 4Kb before NGRN(+) IGF1R IGR: 43Kb before IGF1R(+) - 2.000000e-02 2.000000e-02 0 0 3 2 4 3 3.225877e-01 1.840742e+00 6.272443e-01 8.154177e+00 1 8.154177e+00 1 90804607 99150098 1 90804584 -23 99150102 4 12 9.856018e-01 1 0 76 0 18 1 -1 -90804608 -1 -99150099 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 130 2 1 219344180 5 1 38679058 inter_chr NaN 13 0 0 0 26_samples:0 219344197 219344387 191 28 38679087 38679348 262 66 USP37 Intron of USP37(-): 176bp after exon 18 OSMR IGR: 167Kb before OSMR(+) - 0 0 2.000000e-02 7.000000e-02 7 1 6 2 -1.924280e+00 3.833138e-01 6.251526e-01 8.126984e+00 1 8.126984e+00 1 219344197 38679087 1 219344180 -17 38679058 -29 5 9.131962e-01 1 0 59 13 ACATTTTTAAATA 24 1 -1 -219344198 -1 -38679088 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 151 2 0 100223431 6 0 92778112 inter_chr NaN 12 0 0 0 26_samples:0 100223144 100223420 277 65 92777716 92778112 397 81 AFF3 Intron of AFF3(-): 5Kb before exon 13 EPHA7 IGR: 1Mb before EPHA7(-) - 4.000000e-02 3.000000e-02 0 0 7 1 5 1 3.225877e-01 1.294206e+00 6.752803e-01 8.103363e+00 1 8.103363e+00 1 100223420 92778112 1 100223431 11 92778112 0 7 9.544266e-01 0 2 72 0 9 1 100223291 -129 92778316 204 1 8.817426e-01 0 3 74 0 4 1 2.250000e+00 LUSC-22-1016 87 22 0 46141489 22 1 46467293 deletion 325911 18 0 0 0 26_samples:0 46141059 46141485 427 92 46467396 46467566 171 26 ATXN10 Intron of ATXN10(+): 5Kb after exon 9 LOC400931 IGR: 14Kb before LOC400931(+) - 0 0 0 0 4 0 2 0 2.070872e+00 -2.196653e+00 4.488246e-01 8.078843e+00 1 8.078843e+00 1 46141485 46467396 1 46141489 4 46467293 -103 11 9.779064e-01 0 3 49 0 14 1 -1 -46141486 -1 -46467397 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 302 2 0 187344522 2 1 187556382 deletion 211905 8 0 0 0 26_samples:0 187344253 187344512 260 69 187556417 187556679 263 60 ZC3H15 IGR: 6Kb before ZC3H15(+) FAM171B Promoter of FAM171B(+): 2Kb from tx start - 0 0 0 0 3 3 2 1 5.385792e-01 5.741852e-02 1 8 1 8 1 187344512 187556417 1 187344522 10 187556382 -35 10 9.742974e-01 0 3 70 0 10 1 -1 -187344513 -1 -187556418 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 305 4 1 170138437 4 0 170144977 tandem_dup 6507 8 0 0 0 26_samples:0 170138471 170138765 295 62 170144760 170144978 219 42 SH3RF1 Intron of SH3RF1(-): 52Kb after exon 2 SH3RF1 Intron of SH3RF1(-): 45Kb after exon 2 Duplication within intron 0 0 0 0 3 2 1 1 1.643431e-01 -9.049029e-01 1 8 1 8 1 170138471 170144978 1 170138437 -34 170144977 -1 8 9.723249e-01 1 1 74 0 14 1 -1 -170138472 -1 -170144979 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 313 6 0 84202071 15 1 29136377 inter_chr NaN 8 0 0 0 26_samples:0 84201785 84202072 288 57 29136406 29136651 246 53 PRSS35 IGR: 20Kb before PRSS35(+) APBA2 IGR: 77Kb before APBA2(+) - 0 2.000000e-02 1.000000e-02 0 4 1 3 1 -1.029684e-01 -3.168176e-01 1 8 1 8 1 84202072 29136406 1 84202071 -1 29136377 -29 18 9.598123e-01 0 2 69 0 23 1 -1 -84202073 -1 -29136407 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 320 8 1 32024240 8 1 43740760 long_range 11716520 8 0 0 0 26_samples:0 32024240 32024440 201 59 43740760 43740993 234 49 NRG1 Intron of NRG1(+): 429Kb before exon 2 POTEA IGR: 593Kb before POTEA(+) - 0 0 1.000000e-02 0 2 0 4 0 3.956217e-03 -5.306668e-01 1 8 1 8 1 32024240 43740760 1 32024213 -27 43740714 -46 1 1 1 2 73 0 5 1 -1 -32024241 -1 -43740761 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-22-1016 321 8 0 119060980 8 1 119774802 deletion 713861 8 0 0 0 26_samples:0 119060726 119060954 229 48 119774815 119775089 275 56 EXT1 Intron of EXT1(-): 61Kb after exon 1 TNFRSF11B IGR: 161Kb before TNFRSF11B(-) - 0 0 0 0 3 0 4 1 -5.841291e-01 -1.564307e-01 1 8 1 8 1 119060954 119774815 1 119060980 26 119774802 -13 14 9.892658e-01 0 4 85 0 17 1 -1 -119060955 -1 -119774816 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 331 14 1 84006282 18 0 48874028 inter_chr NaN 8 0 0 0 26_samples:0 84006301 84006569 269 60 48873795 48874028 234 46 FLRT2 IGR: 2Mb before FLRT2(+) MEX3C IGR: 173Kb before MEX3C(-) - 0 0 0 0 3 1 3 3 5.741852e-02 -6.910537e-01 1 8 1 8 1 84006301 48874028 1 84006282 -19 48874028 0 7 9.340495e-01 1 1 73 0 16 1 -1 -84006302 -1 -48874029 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 307 5 1 32162328 5 1 32524788 inversion 362460 8 0 0 0 26_samples:0 32162328 32162598 271 70 32524788 32525093 306 79 GOLPH3 Intron of GOLPH3(-): 12Kb after exon 1 SUB1 IGR: 61Kb before SUB1(+) - 8.000000e-02 1.300000e-01 1.000000e-02 3.000000e-02 4 1 3 1 5.920415e-01 1.073202e+00 9.996079e-01 7.996863e+00 1 7.996863e+00 1 32162328 32524788 1 32162127 -201 32524587 -201 2 8.375271e-01 1 0 93 39 CACAACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCC 34 1 32162127 -201 32524587 -201 1 8.284002e-01 1 0 93 39 CACAACTGCACTCCAGCCTGGGCGACAGAGCGAGCCTCC 12 0 2.833333e+00 LUSC-22-1016 335 20 0 6648688 20 1 6740754 deletion 92066 8 0 0 0 26_samples:0 6648440 6648688 249 51 6740754 6740977 224 41 BMP2 IGR: 100Kb before BMP2(+) BMP2 IGR: 8Kb before BMP2(+) - 0 0 0 0 5 1 4 2 -4.237422e-01 -9.583652e-01 9.846154e-01 7.876923e+00 1 7.876923e+00 1 6648688 6740754 1 -1 -6648689 -1 -6740755 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -6648689 -1 -6740755 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-22-1016 315 7 1 111583389 7 1 111600123 inversion 16742 8 0 0 0 26_samples:0 111583392 111583712 321 76 111600134 111600419 286 56 DOCK4 Intron of DOCK4(-): 1Kb after exon 10 DOCK4 Intron of DOCK4(-): 14Kb before exon 9 Antisense fusion 0 0 1.100000e-01 9.000000e-02 5 1 5 2 9.128153e-01 -1.564307e-01 9.694675e-01 7.755740e+00 1 7.755740e+00 1 111583392 111600134 1 111583389 -3 111600123 -11 5 9.974789e-01 1 1 66 0 6 1 -1 -111583393 -1 -111600135 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 183 17 0 68843685 17 1 68951912 deletion 108221 11 0 0 0 26_samples:0 68843361 68843685 325 64 68951906 68952205 300 73 KCNJ2 IGR: 678Kb before KCNJ2(+) KCNJ2 IGR: 786Kb before KCNJ2(+) - 0 0 0 0 4 2 7 1 2.600091e-01 7.707958e-01 7.032967e-01 7.736264e+00 1 7.736264e+00 1 68843685 68951906 1 68843685 0 68951912 6 9 9.723267e-01 0 4 80 0 10 1 -1 -68843686 -1 -68951907 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 150 2 0 223538436 5 1 85452 inter_chr NaN 12 0 0 0 26_samples:0 223538151 223538441 291 74 85433 85834 402 81 MOGAT1 Intron of MOGAT1(+): 2Kb after exon 1 PLEKHG4B IGR: 55Kb before PLEKHG4B(+) - 0 0 2.900000e-01 4.400000e-01 4 1 2 1 8.691230e-01 1.294206e+00 6.027038e-01 7.232446e+00 1 7.232446e+00 1 223538441 85433 1 223538436 -5 85452 19 20 9.834538e-01 0 0 64 0 189 1 -1 -223538442 -1 -85434 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 322 10 0 89739676 10 1 90679800 deletion 940124 8 0 0 0 26_samples:0 89739420 89739675 256 66 90679799 90680124 326 76 PTEN IGR: 11Kb after PTEN(+) STAMBPL1 Intron of STAMBPL1(+): 1Kb before exon 9 - 0 0 2.000000e-02 0 3 0 6 2 3.781923e-01 9.128153e-01 8.888889e-01 7.111111e+00 1 7.111111e+00 1 89739675 90679799 1 89739676 1 90679800 1 4 9.811841e-01 0 4 75 0 10 1 -1 -89739676 -1 -90679800 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 332 16 0 25996376 16 1 26202391 deletion 206067 8 0 0 0 26_samples:0 25996114 25996375 262 54 26202442 26202680 239 56 HS3ST4 Intron of HS3ST4(+): 151Kb before exon 2 HS3ST4 IGR: 53Kb after HS3ST4(+) - 0 0 1.000000e-02 2.000000e-02 3 2 6 1 -2.633553e-01 -1.564307e-01 8.888889e-01 7.111111e+00 1 7.111111e+00 1 25996375 26202442 1 25996376 1 26202391 -51 6 9.125092e-01 0 0 59 1 C 10 1 -1 -25996376 -1 -26202443 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 323 10 0 111814217 10 1 111857519 deletion 43302 8 0 0 0 26_samples:0 111813976 111814217 242 66 111857519 111857736 218 47 ADD3 5'-UTR of ADD3(+): 46Kb before coding start ADD3 5'-UTR of ADD3(+): 3Kb before coding start Deletion within transcript 4.000000e-02 3.000000e-02 5.000000e-02 8.000000e-02 5 1 6 3 3.781923e-01 -6.375914e-01 8.752137e-01 7.001709e+00 1 7.001709e+00 1 111814217 111857519 1 111814419 202 111857572 53 4 8.258201e-01 0 9 119 0 22 1 111814419 202 111857572 53 1 8.268203e-01 0 9 118 0 15 0 1.466667e+00 LUSC-22-1016 343 1 0 173813014 5 1 32476992 inter_chr NaN 7 0 0 0 26_samples:0 173812788 173813011 224 48 32477018 32477216 199 42 DARS2 Intron of DARS2(+): 1Kb before exon 12 ZFR IGR: 32Kb after ZFR(-) - 0 0 0 0 3 1 4 3 -4.769825e-01 -7.576821e-01 1 7 1 7 1 173813011 32477018 1 173813014 3 32476992 -26 3 9.523672e-01 0 3 80 30 GACCTTTACATTAGTCTTTTTTGGTGTAAA 12 1 -1 -173813012 -1 -32477019 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 382 2 1 34167617 16 0 80242658 inter_chr NaN 7 0 0 0 26_samples:0 34167617 34167915 299 69 80242351 80242634 284 70 MYADML IGR: 216Kb before MYADML(-) DYNLRB2 IGR: 332Kb before DYNLRB2(+) - 0 0 0 0 3 0 3 0 5.054659e-01 5.522492e-01 1 7 1 7 1 34167617 80242634 1 34167617 0 80242658 24 5 9.368237e-01 1 2 78 0 11 1 -1 -34167618 -1 -80242635 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 387 5 1 166529889 5 0 174157352 long_range 7627460 7 0 0 0 26_samples:0 166529884 166530182 299 68 174157057 174157344 288 64 ODZ2 IGR: 182Kb before ODZ2(+) MSX2 3'-UTR of MSX2(+): 758bp after coding stop - 1.000000e-02 0 0 0 4 0 3 2 4.586827e-01 2.715496e-01 1 7 1 7 1 166529884 174157344 1 166529889 5 174157352 8 11 9.975329e-01 1 3 71 0 19 1 -1 -166529885 -1 -174157345 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 392 6 0 27130346 6 1 27310293 deletion 180001 7 0 0 0 26_samples:0 27130098 27130316 219 49 27310317 27310538 222 42 HIST1H2AH IGR: 15Kb before HIST1H2AH(+) ZNF204P IGR: 15Kb before ZNF204P(-) - 0 0 0 0 2 0 2 2 -4.301992e-01 -7.576821e-01 1 7 1 7 1 27130316 27310317 1 27130346 30 27310293 -24 3 9.945414e-01 0 2 67 0 6 1 -1 -27130317 -1 -27310318 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 411 11 1 60872910 11 0 62432481 long_range 1559530 7 0 0 0 26_samples:0 60872950 60873205 256 51 62432208 62432480 273 62 CD5 Intron of CD5(+): 3Kb after exon 1 C11orf48 Intron of C11orf48(-): 35bp before exon 5 - 0 0 0 0 2 0 2 0 -3.366327e-01 1.779831e-01 1 7 1 7 1 60872950 62432480 1 60872910 -40 62432481 1 2 9.369045e-01 1 0 76 0 23 1 -1 -60872951 -1 -62432481 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 414 15 1 43293860 15 0 43328530 tandem_dup 34625 7 0 0 0 26_samples:0 43293867 43294105 239 56 43328252 43328492 241 49 UBR1 Intron of UBR1(-): 886bp after exon 32 UBR1 Intron of UBR1(-): 15bp before exon 19 Duplication of 14 exons: out of frame 0 0 7.000000e-02 3.000000e-02 2 2 3 0 -1.027164e-01 -4.301992e-01 1 7 1 7 1 43293867 43328492 1 43293860 -7 43328530 38 6 9.676501e-01 1 4 75 0 9 1 -1 -43293868 -1 -43328493 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 177 8 1 48709441 8 0 49922956 long_range 1213499 11 0 0 0 26_samples:0 48709446 48709703 258 57 49922677 49922945 269 59 PRKDC Intron of PRKDC(-): 1Kb after exon 73 C8orf22 IGR: 62Kb before C8orf22(+) - 1.000000e-02 0 0 0 6 2 7 3 -1.372694e-01 -2.376124e-02 6.251526e-01 6.876679e+00 1 6.876679e+00 1 48709446 49922945 1 48709441 -5 49922956 11 20 9.931844e-01 1 1 79 0 25 1 48709344 -102 49923149 204 3 8.104065e-01 1 3 115 1 G 3 1 8.333333e+00 LUSC-22-1016 92 1 0 55968811 1 1 55982308 deletion 13493 16 0 0 0 26_samples:0 55968405 55968811 407 84 55982304 55982604 301 60 USP24 IGR: 437Kb before USP24(-) USP24 IGR: 450Kb before USP24(-) - 0 0 0 0 7 1 7 0 1.553597e+00 1.769106e-03 4.228803e-01 6.766084e+00 1 6.766084e+00 1 55968811 55982304 1 55968811 0 55982308 4 15 9.886326e-01 0 1 74 0 23 1 -1 -55968812 -1 -55982305 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 7 1 0 52300179 8 0 140340061 inter_chr NaN 58 0 0 0 26_samples:0 52299889 52300188 300 63 140339735 140340066 332 66 NRD1 Intron of NRD1(-): 346bp before exon 6 KCNK9 IGR: 285Kb before KCNK9(-) - 2.000000e-02 4.000000e-02 0 0 12 2 8 3 1.863549e-01 4.233767e-01 1.153157e-01 6.688313e+00 1 6.688313e+00 1 52300188 140340066 1 52300179 -9 140340061 -5 20 9.905544e-01 0 1 79 0 63 1 52300079 -109 140340269 203 3 7.802606e-01 0 2 95 16 CCTGCCTCAGCCTCCT 17 1 3.705882e+00 LUSC-22-1016 53 10 1 60698586 10 0 62061569 long_range 1362952 24 0 0 0 26_samples:0 60698603 60698898 296 64 62061244 62061555 312 62 LOC728640 IGR: 224Kb before LOC728640(+) ANK3 Intron of ANK3(-): 22Kb before exon 2 - 1.000000e-02 0 2.000000e-02 0 3 1 10 1 2.637483e-01 1.221541e-01 2.704729e-01 6.491349e+00 1 6.491349e+00 1 60698603 62061555 1 60698586 -17 62061569 14 16 9.871534e-01 1 4 68 0 26 1 -1 -60698604 -1 -62061556 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 241 2 0 133145530 2 1 133414683 deletion 269179 9 0 0 0 26_samples:0 133145252 133145527 276 62 133414706 133414989 284 69 GPR39 IGR: 29Kb before GPR39(+) LYPD1 Intron of LYPD1(-): 11Kb before exon 3 - 1.000000e-02 0 0 0 7 1 3 0 1.643431e-01 5.385792e-01 7.032967e-01 6.329670e+00 1 6.329670e+00 1 133145527 133414706 1 133145530 3 133414683 -23 14 9.869537e-01 0 2 67 0 20 1 -1 -133145528 -1 -133414707 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 252 5 0 8900386 5 0 32196183 long_range 23295818 9 0 0 0 26_samples:0 8900130 8900352 223 39 32195849 32196170 322 74 SEMA5A IGR: 135Kb before SEMA5A(-) MTMR12 IGR: 31Kb before MTMR12(-) - 0 0 1.000000e-02 0 7 3 5 2 -1.065290e+00 8.058907e-01 6.924768e-01 6.232291e+00 1 6.232291e+00 1 8900352 32196170 1 8900386 34 32196183 13 6 8.415026e-01 0 0 77 0 10 1 -1 -8900353 -1 -32196171 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 393 6 0 89250986 6 1 89805076 deletion 554126 7 0 0 0 26_samples:0 89250674 89250946 273 69 89805072 89805339 268 66 RNGTT IGR: 69Kb before RNGTT(-) SFRS13B IGR: 607bp before SFRS13B(-) - 0 0 2.000000e-02 0 3 0 6 2 5.054659e-01 3.651162e-01 8.888889e-01 6.222222e+00 1 6.222222e+00 1 89250946 89805072 1 89250986 40 89805076 4 6 9.749706e-01 0 2 75 0 8 1 -1 -89250947 -1 -89805073 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 266 20 0 8706866 20 1 8969890 deletion 263049 9 0 0 0 26_samples:0 8706602 8706861 260 55 8969910 8970308 399 92 PLCB1 Intron of PLCB1(+): 1Kb before exon 17 PLCB4 IGR: 80Kb before PLCB4(+) - 0 0 1.000000e-02 0 3 2 4 2 -2.098930e-01 1.768212e+00 6.880606e-01 6.192546e+00 1 6.192546e+00 1 8706861 8969910 1 8706866 5 8969890 -20 10 9.615354e-01 0 0 67 1 A 10 1 -1 -8706862 -1 -8969911 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 496 2 0 34167583 16 1 80242285 inter_chr NaN 6 0 0 0 26_samples:0 34167378 34167586 209 49 80242361 80242615 255 55 MYADML IGR: 216Kb before MYADML(-) DYNLRB2 IGR: 332Kb before DYNLRB2(+) - 0 0 0 0 3 0 3 0 -4.301992e-01 -1.494997e-01 1 6 1 6 1 34167586 80242361 1 34167583 -3 80242285 -76 3 9.716877e-01 0 1 87 0 9 1 -1 -34167587 -1 -80242362 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 510 6 0 4263303 6 1 92010727 long_range 87747502 6 0 0 0 26_samples:0 4263133 4263304 172 25 92010806 92011015 210 46 PECI IGR: 147Kb before PECI(-) MAP3K7 IGR: 785Kb before MAP3K7(-) - 0 0 0 0 1 2 3 1 -1.552997e+00 -5.705490e-01 1 6 1 6 1 4263304 92010806 1 4263303 -1 92010727 -79 10 9.958669e-01 0 2 76 0 13 1 -1 -4263305 -1 -92010807 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 534 9 0 33317750 9 0 33877027 inversion 559342 6 0 0 0 26_samples:0 33317487 33317674 188 47 33876755 33877016 262 53 NFX1 Intron of NFX1(+): 1Kb before exon 8 UBE2R2 Intron of UBE2R2(+): 10Kb before exon 2 Antisense fusion 0 0 1.000000e-02 0 3 2 3 0 -5.237658e-01 -2.430662e-01 1 6 1 6 1 33317674 33877016 1 33317750 76 33877027 11 8 9.924430e-01 0 3 71 0 19 1 33318025 351 33877146 130 1 7.644046e-01 0 1 96 14 TCTGTTTAATGTAC 3 1 6.333333e+00 LUSC-22-1016 562 17 0 78854658 17 1 79290910 deletion 436332 6 0 0 0 26_samples:0 78854425 78854652 228 50 79290984 79291154 171 28 RPTOR Intron of RPTOR(+): 363bp after exon 14 TMEM105 5'-UTR of TMEM105(-): 3Kb before coding start Antisense fusion 0 0 0 0 1 2 2 1 -3.834160e-01 -1.412648e+00 1 6 1 6 1 78854652 79290984 1 78854658 6 79290910 -74 3 1 0 2 79 0 9 1 -1 -78854653 -1 -79290985 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 487 2 0 99659822 2 1 112293048 long_range 12633255 6 0 0 0 26_samples:0 99659567 99659823 257 63 112293078 112293355 278 82 TSGA10 Intron of TSGA10(-): 8Kb before exon 17 LOC541471 IGR: 40Kb after LOC541471(-) - 0 0 0 0 3 0 2 0 2.247664e-01 1.113648e+00 9.985343e-01 5.991206e+00 1 5.991206e+00 1 99659823 112293078 1 99659822 -1 112293048 -30 14 9.989458e-01 0 3 80 0 18 1 -1 -99659824 -1 -112293079 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 314 6 0 88542547 15 0 28507476 inter_chr NaN 8 0 0 0 26_samples:0 88542232 88542545 314 67 28507068 28507451 384 91 NCRNA00120 IGR: 133Kb before NCRNA00120(-) HERC2 Intron of HERC2(-): 613bp after exon 15 - 0 0 0 0 3 0 2 0 4.316546e-01 1.714750e+00 7.325244e-01 5.860195e+00 1 5.860195e+00 1 88542545 28507451 1 88542547 2 28507476 25 6 1 0 1 82 0 19 1 -1 -88542546 -1 -28507452 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 336 1 1 7221481 1 0 7480916 tandem_dup 259437 7 0 0 0 26_samples:0 7221476 7221852 377 92 7480670 7480913 244 65 CAMTA1 Intron of CAMTA1(+): 70Kb after exon 4 CAMTA1 Intron of CAMTA1(+): 47Kb before exon 6 Duplication of 1 exon: out of frame 2.000000e-02 2.000000e-02 0 0 1 0 2 0 1.581481e+00 3.183329e-01 8.356939e-01 5.849857e+00 1 5.849857e+00 1 7221476 7480913 1 7221481 5 7480916 3 5 9.956997e-01 1 2 80 0 27 1 -1 -7221477 -1 -7480914 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 308 5 0 129491539 5 1 129522179 deletion 30646 8 0 0 0 26_samples:0 129491139 129491543 405 91 129522189 129522453 265 66 CHSY3 Intron of CHSY3(+): 28Kb before exon 3 CHSY3 3'-UTR of CHSY3(+): 705bp after coding stop - 0 0 0 0 3 1 5 0 1.714750e+00 3.781923e-01 7.212548e-01 5.770038e+00 1 5.770038e+00 1 129491543 129522189 1 129491539 -4 129522179 -10 5 1 0 0 66 0 6 1 -1 -129491544 -1 -129522190 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 507 5 1 167123876 5 1 168023779 inversion 899968 6 0 0 0 26_samples:0 167123881 167124084 204 39 168023849 168024055 207 41 ODZ2 Intron of ODZ2(+): 179Kb before exon 3 MIR103-1AS IGR: 36Kb before MIR103-1AS(+) - 0 0 7.000000e-02 0 5 5 5 1 -8.980318e-01 -8.044653e-01 9.545526e-01 5.727315e+00 1 5.727315e+00 1 167123881 168023849 1 167123876 -5 168023779 -70 11 9.819629e-01 1 4 74 0 17 1 167123599 -282 168023699 -150 1 8.709744e-01 1 0 81 0 1 1 17 LUSC-22-1016 330 12 1 12758702 12 1 12787766 inversion 28995 8 0 0 0 26_samples:0 12758749 12758969 221 58 12787744 12787999 256 46 CREBL2 IGR: 6Kb before CREBL2(+) CREBL2 Intron of CREBL2(+): 967bp before exon 2 - 3.000000e-02 7.000000e-02 1.000000e-02 0 3 4 7 2 -4.950608e-02 -6.910537e-01 7.032967e-01 5.626374e+00 1 5.626374e+00 1 12758749 12787744 1 12758702 -47 12787766 22 12 9.971390e-01 1 2 88 0 23 1 -1 -12758750 -1 -12787745 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 309 6 1 4231107 6 1 5951989 long_range 1720887 8 0 0 0 26_samples:0 4231125 4231429 305 81 5952012 5952287 276 60 PECI IGR: 115Kb before PECI(-) NRN1 IGR: 46Kb before NRN1(-) - 5.000000e-02 0 0 0 7 2 4 1 1.180127e+00 5.741852e-02 6.992103e-01 5.593682e+00 1 5.593682e+00 1 4231125 5952012 1 4231107 -18 5951989 -23 3 9.644757e-01 1 2 77 2 TG 5 1 -1 -4231126 -1 -5952013 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 180 12 0 2865636 12 1 2866741 deletion 1114 11 0 0 0 26_samples:0 2865350 2865628 279 63 2866742 2867071 330 79 FKBP4 IGR: 38Kb before FKBP4(+) FKBP4 IGR: 37Kb before FKBP4(+) - 2.000000e-02 2.000000e-02 1.000000e-02 3.000000e-02 4 3 8 2 2.032551e-01 1.111320e+00 4.993112e-01 5.492423e+00 1 5.492423e+00 1 2865628 2866742 1 2865636 8 2866741 -1 11 9.782567e-01 0 1 77 0 21 1 -1 -2865629 -1 -2866743 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 97 8 0 93501834 8 1 93628006 deletion 126186 16 0 0 0 26_samples:0 93501606 93501822 217 40 93628008 93628331 324 73 C8orf83 IGR: 394Kb before C8orf83(-) C8orf83 IGR: 268Kb before C8orf83(-) - 0 0 0 0 5 3 9 2 -1.291420e+00 8.423423e-01 3.334147e-01 5.334636e+00 1 5.334636e+00 1 93501822 93628008 1 93501834 12 93628006 -2 19 9.695799e-01 0 2 70 0 27 1 -1 -93501823 -1 -93628009 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 567 1 0 245145566 1 1 245149561 deletion 4067 5 0 0 0 26_samples:0 245145347 245145552 206 40 245149619 245149807 189 41 EFCAB2 Intron of EFCAB2(+): 12Kb after exon 1 EFCAB2 Intron of EFCAB2(+): 16Kb after exon 1 Deletion within intron 0 0 0 0 1 3 3 3 -7.660997e-01 -7.223526e-01 1 5 1 5 1 245145552 245149619 1 245145566 14 245149561 -58 5 8.493236e-01 0 0 67 0 15 1 -1 -245145553 -1 -245149620 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 675 2 0 197518129 2 1 197944093 deletion 426073 5 0 0 0 26_samples:0 197517860 197518090 231 52 197944163 197944355 193 36 CCDC150 Intron of CCDC150(+): 3Kb before exon 3 ANKRD44 Intron of ANKRD44(-): 625bp before exon 16 Antisense fusion 1.000000e-02 0 0 0 1 1 4 1 -2.411338e-01 -9.410884e-01 1 5 1 5 1 197518090 197944163 1 197518129 39 197944093 -70 7 9.973753e-01 0 3 66 0 14 1 -1 -197518091 -1 -197944164 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 703 4 0 129704203 4 1 129706274 deletion 2099 5 0 0 0 26_samples:0 129703911 129704179 269 63 129706278 129706537 260 68 PHF17 IGR: 27Kb before PHF17(+) PHF17 IGR: 25Kb before PHF17(+) - 0 0 3.000000e-02 0 2 2 0 1 2.400851e-01 4.588209e-01 1 5 1 5 1 129704179 129706278 1 129704203 24 129706274 -4 9 9.233737e-01 0 1 68 3 AAA 13 1 129704252 73 129705924 -354 4 8.854286e-01 0 14 107 0 7 1 1.857143e+00 LUSC-22-1016 713 5 0 112381243 5 1 112471110 deletion 89867 5 0 0 0 26_samples:0 112381097 112381243 147 18 112471110 112471295 186 58 MCC Intron of MCC(-): 2Kb before exon 15 MCC Intron of MCC(-): 8Kb after exon 3 Deletion of 11 exons: out of frame 2.000000e-02 0 1.000000e-01 7.000000e-02 4 2 4 3 -1.728537e+00 2.134923e-02 1 5 1 5 1 112381243 112471110 1 -1 -112381244 -1 -112471111 -1 -1 -1 -1 -1 -1 failed 0 1 112381451 208 112470824 -286 1 8.278766e-01 0 2 73 0 8 0 0 LUSC-22-1016 714 5 0 129277205 5 1 129379789 deletion 102598 5 0 0 0 26_samples:0 129276938 129277187 250 61 129379785 129380023 239 52 CHSY3 Intron of CHSY3(+): 33Kb after exon 2 CHSY3 Intron of CHSY3(+): 136Kb after exon 2 Deletion within intron 0 0 0 0 1 2 3 2 1.525907e-01 -2.411338e-01 1 5 1 5 1 129277187 129379785 1 129277205 18 129379789 4 3 1 0 0 76 0 6 1 -1 -129277188 -1 -129379786 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 770 7 0 93596770 7 1 93597661 deletion 915 5 0 0 0 26_samples:0 93596504 93596745 242 55 93597660 93597942 283 73 BET1 IGR: 24Kb before BET1(-) BET1 IGR: 23Kb before BET1(-) - 0 0 0 0 3 1 2 3 -1.098923e-01 6.775567e-01 1 5 1 5 1 93596745 93597660 1 93596770 25 93597661 1 4 9.892415e-01 0 2 82 0 9 1 -1 -93596746 -1 -93597661 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 862 11 0 60484083 11 0 70782555 long_range 10298488 5 0 0 0 26_samples:0 60483778 60484066 289 78 70782314 70782554 241 67 MS4A8B IGR: 784bp after MS4A8B(+) SHANK2 Intron of SHANK2(-): 21Kb after exon 7 - 0 0 3.000000e-02 3.000000e-02 3 1 4 2 8.962925e-01 4.150737e-01 1 5 1 5 1 60484066 70782554 1 60484083 17 70782555 1 3 9.354215e-01 0 1 61 0 14 1 -1 -60484067 -1 -70782555 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 886 16 0 50617872 16 0 50774937 inversion 157094 5 0 0 0 26_samples:0 50617616 50617838 223 63 50774682 50774932 251 64 NKD1 Intron of NKD1(+): 24Kb before exon 4 CYLD Promoter of CYLD(+): 1Kb from tx start Antisense fusion 0 0 0 2.000000e-02 1 0 3 2 2.400851e-01 2.838322e-01 1 5 1 5 1 50617838 50774932 1 50617872 34 50774937 5 11 1 0 0 70 0 18 1 -1 -50617839 -1 -50774933 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 909 23 0 77018494 23 1 77025452 deletion 7026 5 0 0 0 26_samples:0 77018217 77018432 216 50 77025458 77025646 189 48 ATRX Intron of ATRX(-): 23Kb after exon 1 ATRX Intron of ATRX(-): 16Kb after exon 1 Deletion within intron 0 0 4.000000e-02 7.000000e-02 1 0 2 2 -3.286281e-01 -4.161224e-01 1 5 1 5 1 77018432 77025458 1 77018494 62 77025452 -6 6 1.000001e+00 0 1 70 0 12 1 -1 -77018433 -1 -77025459 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 405 10 1 60698027 10 1 61993920 long_range 1295892 7 0 0 0 26_samples:0 60698028 60698288 261 66 61993920 61994154 235 54 LOC728640 IGR: 223Kb before LOC728640(+) ANK3 Intron of ANK3(-): 526bp after exon 8 - 0 0 0 0 3 1 7 2 3.651162e-01 -1.962829e-01 7.032967e-01 4.923077e+00 1 4.923077e+00 1 60698028 61993920 1 60698027 -1 61993920 0 3 9.515998e-01 1 1 75 31 CATGTACATGGGCATGACAGGCCCATGTACA 16 1 -1 -60698029 -1 -61993921 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 398 8 0 141624605 8 1 142000469 deletion 375870 7 0 0 0 26_samples:0 141624349 141624599 251 71 142000469 142000771 303 78 EIF2C2 Intron of EIF2C2(-): 21Kb after exon 1 PTK2 5'-UTR of PTK2(-): 6Kb before coding start Transcript fusion (PTK2-EIF2C2) 1.000000e-02 0 2.000000e-02 0 5 1 7 1 5.990325e-01 9.265153e-01 6.924768e-01 4.847337e+00 1 4.847337e+00 1 141624599 142000469 1 141624605 6 142000469 0 6 9.632925e-01 0 0 72 1 T 17 1 -1 -141624600 -1 -142000470 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 676 2 0 61676295 2 1 61758124 deletion 81841 5 0 0 0 26_samples:0 61675963 61676293 331 91 61758134 61758384 251 74 USP34 Intron of USP34(-): 21Kb after exon 1 XPO1 Intron of XPO1(-): 3Kb after exon 2 Protein fusion: out of frame (XPO1-USP34) 4.000000e-02 2.000000e-02 0 0 5 2 2 1 1.465006e+00 7.213039e-01 8.946589e-01 4.473295e+00 1 4.473295e+00 1 61676293 61758134 1 61676295 2 61758124 -10 2 9.820029e-01 0 4 66 0 12 1 61676654 361 61757863 -271 4 8.010502e-01 0 10 84 0 8 1 1.500000e+00 LUSC-22-1016 504 4 1 84105479 10 0 73752250 inter_chr NaN 6 0 0 0 26_samples:0 84105479 84105700 222 48 73752047 73752250 204 48 COQ2 IGR: 80Kb before COQ2(-) CHST3 5'-UTR of CHST3(+): 13Kb before coding start - 0 3.000000e-02 3.000000e-02 0 6 6 6 2 -4.769825e-01 -4.769825e-01 7.023320e-01 4.213992e+00 1 4.213992e+00 1 84105479 73752250 1 -1 -84105480 -1 -73752251 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -84105480 -1 -73752251 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-22-1016 82 6 1 71737102 6 1 84198811 long_range 12461713 18 0 0 0 26_samples:0 71737098 71737381 284 55 84198811 84199106 296 59 B3GAT2 IGR: 166Kb before B3GAT2(-) PRSS35 IGR: 23Kb before PRSS35(+) - 2.000000e-02 0 2.000000e-02 0 4 3 10 1 -3.215283e-01 -6.289037e-02 2.285714e-01 4.114286e+00 1 4.114286e+00 1 71737098 84198811 1 71737102 4 84198811 0 12 9.853437e-01 1 0 68 0 18 1 -1 -71737099 -1 -84198812 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 918 1 0 243390847 1 1 243412492 deletion 21645 4 0 0 0 26_samples:0 243390670 243390847 178 34 243412492 243412725 234 62 CEP170 5'-UTR of CEP170(-): 2Kb before coding start CEP170 5'-UTR of CEP170(-): 24Kb before coding start Deletion within transcript 0 0 2.000000e-02 0 4 2 4 0 -8.773286e-01 2.191340e-01 1 4 1 4 1 243390847 243412492 1 243390900 53 243412460 -32 1 9.238968e-01 0 1 73 1 A 2 1 243390896 49 243412163 -329 1 9.892685e-01 0 0 74 0 2 0 1 LUSC-22-1016 1087 2 1 17087337 2 1 214507754 long_range 197420417 4 0 0 0 26_samples:0 17087337 17087438 102 1 214507754 214507884 131 12 FAM49A IGR: 357Kb before FAM49A(-) SPAG16 Intron of SPAG16(+): 153Kb after exon 10 - 1.000000e-02 4.000000e-02 0 0 4 1 3 3 -2.169588e+00 -1.738835e+00 1 4 1 4 1 17087337 214507754 1 17087349 12 214507569 -185 18 9.952419e-01 1 14 99 0 51 1 17087349 12 214507569 -185 15 9.927994e-01 1 14 99 0 20 -1 2.550000e+00 LUSC-22-1016 1088 2 0 95723602 2 0 99879792 long_range 4156213 4 0 0 0 26_samples:0 95723372 95723562 191 38 99879545 99879775 231 58 MAL IGR: 4Kb after MAL(+) LYG1 IGR: 21Kb before LYG1(-) - 0 0 3.000000e-02 0 3 0 4 2 -7.206911e-01 6.249650e-02 1 4 1 4 1 95723562 99879775 1 95723602 40 99879792 17 3 9.940833e-01 0 0 69 0 15 1 -1 -95723563 -1 -99879776 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 1090 2 0 171196831 2 1 171201886 deletion 5096 4 0 0 0 26_samples:0 171196506 171196790 285 75 171201886 171202105 220 51 MYO3B Intron of MYO3B(+): 5Kb after exon 8 MYO3B Intron of MYO3B(+): 10Kb after exon 8 Deletion within intron 0 0 0 0 2 1 1 1 7.282060e-01 -2.116192e-01 1 4 1 4 1 171196790 171201886 1 171196831 41 171201886 0 4 1 0 3 81 0 11 1 -1 -171196791 -1 -171201887 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 1100 2 0 100162307 6 1 92684535 inter_chr NaN 4 0 0 0 26_samples:0 100162049 100162307 259 75 92684535 92684803 269 76 AFF3 IGR: 1Kb before AFF3(-) EPHA7 IGR: 1Mb before EPHA7(-) - 0 0 0 0 2 0 4 1 7.282060e-01 7.673654e-01 1 4 1 4 1 100162307 92684535 1 100162304 -3 92684524 -11 1 9.032102e-01 0 0 66 0 8 1 -1 -100162308 -1 -92684536 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-22-1016 1194 5 1 6804882 5 1 39247985 long_range 32443103 4 0 0 0 26_samples:0 6804882 6805113 232 70 39247985 39248193 209 54 PAPD7 IGR: 59Kb before PAPD7(+) C9 IGR: 36Kb before C9(-) - 0 0 2.000000e-02 0 3 2 2 1 5.324091e-01 -9.414103e-02 1 4 1 4 1 6804882 39247985 1 6804666 -216 39247987 2 8 8.698182e-01 1 1 69 0 6 1 6804666 -216 39247987 2 5 8.509170e-01 1 1 69 0 3 0 2 LUSC-22-1016 1454 8 0 99617436 8 1 99739700 deletion 122264 4 0 0 0 26_samples:0 99617232 99617436 205 47 99739700 99739904 205 44 STK3 Intron of STK3(-): 9Kb before exon 7 STK3 Intron of STK3(-): 20Kb before exon 5 Deletion of 2 exons: in frame 1.000000e-02 0 0 0 4 2 2 2 -3.682567e-01 -4.857348e-01 1 4 1 4 1 99617436 99739700 1 99617523 87 99739775 75 1 9.181173e-01 0 1 74 0 9 1 -1 -99617437 -1 -99739701 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-22-1016 1455 8 0 121097618 8 1 121119675 deletion 22134 4 0 0 0 26_samples:0 121097318 121097548 231 60 121119682 121119903 222 51 COL14A1 IGR: 40Kb before COL14A1(+) COL14A1 IGR: 18Kb before COL14A1(+) - 0 0 0 0 1 1 2 2 1.408153e-01 -2.116192e-01 1 4 1 4 1 121097548 121119682 1 121097618 70 121119675 -7 2 9.783654e-01 0 1 61 0 8 1 121097899 351 121119705 23 1 8.278681e-01 0 0 74 7 ACCAGCC 2 1 4 LUSC-22-1016 1477 8 1 49109596 21 1 16670425 inter_chr NaN 4 0 0 0 26_samples:0 49109596 49109762 167 31 16670425 16670537 113 6 UBE2V2 IGR: 189Kb before UBE2V2(+) NRIP1 IGR: 337Kb before NRIP1(-) - 0 0 0 0 2 1 1 0 -9.948068e-01 -1.973791e+00 1 4 1 4 1 49109596 16670425 1 -1 -49109597 -1 -16670426 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -49109597 -1 -16670426 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-22-1016 1478 8 1 66716289 21 0 46153942 inter_chr NaN 4 0 0 0 26_samples:0 66716288 66716485 198 43 46153647 46153865 219 54 PDE7A Intron of PDE7A(-): 21Kb before exon 2 UBE2G2 IGR: 35Kb before UBE2G2(-) - 0 0 0 0 3 2 1 1 -5.248942e-01 -9.414103e-02 1 4 1 4 1 66716288 46153865 1 66716289 1 46153942 77 5 9.637542e-01 1 2 62 0 9 1 -1 -66716289 -1 -46153866 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 1480 9 0 34839782 9 1 35611308 deletion 771575 4 0 0 0 26_samples:0 34839567 34839759 193 46 35611334 35611573 240 59 C9orf144 Promoter of C9orf144(-): 1Kb from tx start CD72 Intron of CD72(-): 467bp after exon 7 Transcript fusion (CD72-C9orf144) 0 0 0 0 4 2 2 1 -4.074161e-01 1.016559e-01 1 4 1 4 1 34839759 35611334 1 34839782 23 35611308 -26 8 9.979782e-01 0 1 74 0 11 1 -1 -34839760 -1 -35611335 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 1587 11 1 92149269 22 0 22101937 inter_chr NaN 4 0 0 0 26_samples:0 92149269 92149380 112 5 22101738 22101937 200 44 FAT3 Intron of FAT3(+): 61Kb after exon 1 MAPK1 IGR: 12Kb before MAPK1(-) - 3.000000e-02 0 1.000000e-02 0 2 2 3 1 -2.012951e+00 -4.857348e-01 1 4 1 4 1 92149269 22101937 1 92149287 18 22102086 149 10 9.827318e-01 1 7 98 0 24 1 92149287 18 22102086 149 8 9.865551e-01 1 7 98 0 8 -1 3 LUSC-22-1016 1613 15 0 47624396 15 1 47672828 deletion 48496 4 0 0 0 26_samples:0 47624244 47624376 133 14 47672872 47673113 242 63 SEMA6D IGR: 386Kb before SEMA6D(+) SEMA6D IGR: 338Kb before SEMA6D(+) - 0 0 0 0 2 0 3 0 -1.660516e+00 2.582934e-01 1 4 1 4 1 47624376 47672872 1 47624396 20 47672828 -44 5 1 0 2 76 0 9 1 47624661 285 47672710 -162 1 7.949222e-01 0 0 70 0 2 1 4.500000e+00 LUSC-22-1016 1619 16 1 9704339 16 0 26167587 long_range 16463248 4 0 0 0 26_samples:0 9704339 9704482 144 18 26167406 26167587 182 34 GRIN2A IGR: 143Kb before GRIN2A(-) HS3ST4 IGR: 19Kb after HS3ST4(+) - 0 0 2.000000e-02 5.000000e-02 3 0 3 1 -1.503879e+00 -8.773286e-01 1 4 1 4 1 9704339 26167587 1 9704322 -17 26167939 352 4 8.178847e-01 1 1 83 0 14 1 -1 -9704340 -1 -26167588 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-22-1016 1630 16 0 17024139 16 0 24099633 long_range 7075440 4 0 0 0 26_samples:0 17023952 17024122 171 30 24099348 24099562 215 48 XYLT1 IGR: 172Kb before XYLT1(-) PRKCB Intron of PRKCB(+): 5Kb before exon 6 - 0 0 0 0 2 1 4 0 -1.033966e+00 -3.290973e-01 1 4 1 4 1 17024122 24099562 1 17024139 17 24099633 71 3 1 0 1 76 0 14 1 -1 -17024123 -1 -24099563 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-22-1016 1687 23 0 121823178 23 1 121828453 deletion 5275 4 0 0 0 26_samples:0 121822952 121823178 227 58 121828453 121828635 183 41 GRIA3 IGR: 495Kb before GRIA3(+) GRIA3 IGR: 490Kb before GRIA3(+) - 9.000000e-02 0 1.300000e-01 1.500000e-01 3 2 2 4 6.249650e-02 -6.032130e-01 1 4 1 4 1 121823178 121828453 1 121823050 -128 121828113 -340 1 8.494838e-01 0 1 73 0 2 1 -1 -121823179 -1 -121828454 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-34-2600 4527 23 0 15612895 23 1 20067718 long_range 4454811 116 1 0 0 26_samples:0 15612582 15612903 322 59 20067714 20068063 350 62 ACE2 Intron of ACE2(-): 65bp after exon 3 MAP7D2 Intron of MAP7D2(-): 1Kb after exon 6 Protein fusion: out of frame (MAP7D2-ACE2) 0 0 1.000000e-02 0 2 1 2 1 6.076132e-01 8.717787e-01 1 116 1 116 1 15612903 20067714 1 15612895 -8 20067718 4 20 9.703122e-01 0 0 88 0 115 1 -1 -15612904 -1 -20067715 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-34-2600 4528 23 1 15605535 23 1 15606756 inversion 1227 71 1 0 0 26_samples:0 15605525 15605814 290 55 15606752 15607064 313 57 ACE2 Intron of ACE2(-): 351bp after exon 7 ACE2 Intron of ACE2(-): 715bp after exon 6 Antisense fusion 0 0 0 0 1 0 2 0 2.553924e-01 4.315028e-01 1 71 1 71 1 15605525 15606752 1 15605535 10 15606756 4 20 1 1 2 71 0 105 1 -1 -15605526 -1 -15606753 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-34-2600 2 1 0 46910663 9 0 34277471 inter_chr NaN 49 0 0 0 26_samples:0 46910363 46910671 309 64 34277155 34277476 322 61 FAAH IGR: 51Kb before FAAH(+) KIF24 Intron of KIF24(-): 6Kb before exon 7 - 0 0 0 0 2 0 2 0 1.047889e+00 7.837235e-01 9.998902e-01 4.899462e+01 1 4.899462e+01 1 46910671 34277476 1 46910663 -8 34277471 -5 20 9.963197e-01 0 3 73 0 68 1 46910663 -8 34277471 -5 1 1 0 3 73 0 6 1 1.133333e+01 LUSC-34-2600 7 15 1 60606572 15 1 60625467 inversion 18905 27 0 0 0 26_samples:0 60606571 60606839 269 48 60625476 60625730 255 52 ANXA2 IGR: 33Kb before ANXA2(-) ANXA2 IGR: 14Kb before ANXA2(-) - 0 0 0 4.000000e-02 1 0 2 2 -3.110493e-01 1.484933e-02 1 27 1 27 1 60606571 60625476 1 60606572 1 60625467 -9 16 9.821783e-01 1 1 70 1 T 25 1 -1 -60606572 -1 -60625477 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-34-2600 8 21 1 41448668 21 1 41468184 inversion 19528 27 0 0 0 26_samples:0 41448663 41448916 254 50 41468191 41468445 255 46 DSCAM Intron of DSCAM(-): 2Kb before exon 27 DSCAM Intron of DSCAM(-): 2Kb before exon 21 Antisense fusion 0 0 0 2.000000e-02 1 1 1 1 -1.481000e-01 -4.739986e-01 1 27 1 27 1 41448663 41468191 1 41448668 5 41468184 -7 17 8.994176e-01 1 0 78 1 T 18 1 -1 -41448664 -1 -41468192 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-34-2600 9 3 1 118125043 23 0 34522752 inter_chr NaN 25 0 0 0 26_samples:0 118125043 118125323 281 51 34522493 34522758 266 51 IGSF11 IGR: 494Kb before IGSF11(-) TMEM47 IGR: 122Kb before TMEM47(-) - 0 0 0 1.000000e-02 2 0 2 2 -6.662533e-02 -6.662533e-02 1 25 1 25 1 118125043 34522758 1 118125043 0 34522752 -6 20 9.702599e-01 1 1 74 0 36 1 -1 -118125044 -1 -34522759 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-34-2600 12 20 1 35016297 20 0 37037883 long_range 2021506 23 0 0 0 26_samples:0 35016291 35016443 153 19 37037586 37037797 212 28 DLGAP4 5'-UTR of DLGAP4(+): 44Kb before coding start LOC388796 IGR: 11Kb before LOC388796(-) - 0 0 1.000000e-02 6.000000e-02 2 0 3 0 -2.673815e+00 -1.940543e+00 1 23 1 23 1 35016291 37037797 1 35016297 6 37037883 86 20 9.878817e-01 1 3 69 0 38 1 -1 -35016292 -1 -37037798 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-34-2600 13 1 1 232561892 1 0 232588037 tandem_dup 26144 22 0 0 0 26_samples:0 232561889 232562145 257 50 232587745 232588033 289 51 SIPA1L2 Intron of SIPA1L2(-): 335bp before exon 16 SIPA1L2 Intron of SIPA1L2(-): 7Kb before exon 9 Duplication of 7 exons: out of frame 0 2.000000e-02 0 0 2 1 2 0 -1.481000e-01 -6.662533e-02 1 22 1 22 1 232561889 232588033 1 232561892 3 232588037 4 17 9.938394e-01 1 3 70 0 26 1 -1 -232561890 -1 -232588034 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-34-2600 15 1 1 32904978 1 0 32970296 tandem_dup 65304 21 0 0 0 26_samples:0 32904994 32905227 234 47 32970049 32970298 250 47 ZBTB8B IGR: 26Kb before ZBTB8B(+) ZBTB8A IGR: 34Kb before ZBTB8A(+) - 0 2.000000e-02 0 6.000000e-02 4 0 3 1 -3.925240e-01 -3.925240e-01 1 21 1 21 1 32904994 32970298 1 32904978 -16 32970296 -2 12 9.933648e-01 1 4 76 0 32 1 32904979 -15 32970202 -96 1 8.376200e-01 1 0 78 0 8 1 4 LUSC-34-2600 16 1 1 75386581 1 0 76739244 long_range 1352665 21 0 0 0 26_samples:0 75386585 75386841 257 65 76738972 76739250 279 50 TYW3 IGR: 188Kb before TYW3(+) ST6GALNAC3 Intron of ST6GALNAC3(+): 40Kb before exon 2 - 0 0 0 0 1 0 1 1 1.074020e+00 -1.481000e-01 9.995946e-01 2.099149e+01 1 2.099149e+01 1 75386585 76739250 1 75386581 -4 76739244 -6 17 8.876786e-01 1 1 67 0 21 1 75386377 -208 76739240 -10 1 9.274259e-01 1 7 68 0 2 1 1.050000e+01 LUSC-34-2600 11 19 0 47345167 19 1 47492152 deletion 146973 24 0 0 0 26_samples:0 47344897 47345174 278 61 47492147 47492469 323 71 AP2S1 Intron of AP2S1(-): 2Kb before exon 3 GRLF1 Intron of GRLF1(+): 654bp before exon 4 - 0 0 0 0 2 1 1 0 7.481213e-01 1.562868e+00 8.486601e-01 2.036784e+01 1 2.036784e+01 1 47345174 47492147 1 47345167 -7 47492152 5 19 9.949736e-01 0 1 70 0 28 1 47345376 202 47492036 -111 1 7.746008e-01 0 2 87 15 TGCAGTGAGCTATGA 19 1 1.473684e+00 LUSC-34-2600 3 20 1 49474375 20 1 49478381 inversion 4003 46 0 0 0 26_samples:0 49474379 49474710 332 72 49478382 49478697 316 61 BCAS4 Intron of BCAS4(+): 16Kb after exon 4 BCAS4 Intron of BCAS4(+): 14Kb before exon 5 - 0 0 1.000000e-02 1.300000e-01 8 0 2 5 1.752330e+00 7.837235e-01 4.422417e-01 2.034312e+01 1 2.034312e+01 1 49474379 49478382 1 49474375 -4 49478381 -1 7 9.016264e-01 1 2 62 0 20 1 -1 -49474380 -1 -49478383 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-34-2600 23 5 0 100266953 23 0 11952270 inter_chr NaN 19 0 0 0 26_samples:0 100266671 100266946 276 46 11952006 11952269 264 47 ST8SIA4 IGR: 46Kb before ST8SIA4(-) MSL3 IGR: 175Kb before MSL3(+) - 4.000000e-02 4.000000e-02 0 0 2 2 4 1 -4.231747e-01 -3.478628e-01 1 19 1 19 1 100266946 11952269 1 100266953 7 11952270 1 20 9.956341e-01 0 1 71 0 22 1 -1 -100266947 -1 -11952270 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-34-2600 27 12 0 2555020 12 1 2556417 deletion 1394 18 0 0 0 26_samples:0 2554727 2555027 301 56 2556421 2556704 284 54 CACNA1C Intron of CACNA1C(+): 3Kb before exon 4 CACNA1C Intron of CACNA1C(+): 2Kb before exon 4 Deletion within intron 0 0 0 0 1 0 0 0 3.299439e-01 1.793202e-01 1 18 1 18 1 2555027 2556421 1 2555020 -7 2556417 -4 9 9.926041e-01 0 2 68 0 13 1 2555232 205 2556248 -173 3 8.161707e-01 0 4 68 0 15 1 8.666667e-01 LUSC-34-2600 25 2 0 193113790 2 1 193283564 deletion 169765 18 0 0 0 26_samples:0 193113548 193113792 245 56 193283557 193283855 299 69 TMEFF2 IGR: 54Kb after TMEFF2(-) PCGEM1 IGR: 331Kb before PCGEM1(+) - 0 0 0 0 2 1 1 0 3.299439e-01 1.308998e+00 9.713424e-01 1.748416e+01 1 1.748416e+01 1 193113792 193283557 1 193113790 -2 193283564 7 10 9.562773e-01 0 0 83 0 20 1 -1 -193113793 -1 -193283558 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-34-2600 28 2 0 193959521 2 1 194391699 deletion 432175 17 0 0 0 26_samples:0 193959215 193959519 305 60 194391694 194391963 270 53 PCGEM1 IGR: 345Kb before PCGEM1(+) PCGEM1 IGR: 777Kb before PCGEM1(+) - 0 0 0 0 1 0 1 0 6.311913e-01 1.040083e-01 1 17 1 17 1 193959519 194391694 1 193959521 2 194391699 5 14 9.950169e-01 0 1 72 0 18 1 193959521 2 194391699 5 1 1 0 1 72 0 5 1 3.600000e+00 LUSC-34-2600 21 2 1 113866865 2 0 113920114 tandem_dup 53256 20 0 0 0 26_samples:0 113866865 113867173 309 69 113919829 113920121 293 70 IL1RN IGR: 9Kb before IL1RN(+) LOC440839 3'-UTR of LOC440839(-): 285Kb after coding stop - 0 4.000000e-02 0 0 3 2 1 0 1.399919e+00 1.481393e+00 8.455558e-01 1.691112e+01 1 1.691112e+01 1 113866865 113920121 1 113866865 0 113920114 -7 15 9.828148e-01 1 2 72 0 22 1 -1 -113866866 -1 -113920122 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-34-2600 14 3 1 123595078 23 0 87239733 inter_chr NaN 22 0 0 0 26_samples:0 123595071 123595368 298 57 87239449 87239744 296 58 MYLK 5'-UTR of MYLK(-): 82Kb before coding start KLHL4 IGR: 467Kb before KLHL4(+) - 0 0 0 0 7 0 2 0 4.222226e-01 5.036973e-01 7.602227e-01 1.672490e+01 1 1.672490e+01 1 123595071 87239744 1 123595078 7 87239733 -11 14 9.985845e-01 1 0 76 0 16 1 -1 -123595072 -1 -87239745 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-34-2600 4 1 1 32881570 2 1 239205251 inter_chr NaN 38 0 0 0 26_samples:0 32881606 32881834 229 36 239205253 239205401 149 19 ZBTB8B IGR: 49Kb before ZBTB8B(+) TRAF3IP1 IGR: 24Kb before TRAF3IP1(+) - 0 0 4.900000e-01 4.400000e-01 2 1 1 0 -1.417656e+00 -2.914594e+00 4.218767e-01 1.603132e+01 1 1.603132e+01 1 32881606 239205253 1 32881570 -36 239205251 -2 14 9.965304e-01 1 2 72 0 147 1 -1 -32881607 -1 -239205254 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-34-2600 1 3 0 165593969 3 0 165597565 inversion 3585 63 0 0 0 26_samples:0 165593697 165593977 281 53 165597287 165597562 276 55 BCHE IGR: 39Kb after BCHE(-) BCHE IGR: 42Kb after BCHE(-) - 0 0 0 0 0 0 11 1 7.928209e-02 2.553924e-01 2.516046e-01 1.585109e+01 1 1.585109e+01 1 165593977 165597562 1 165593969 -8 165597565 3 20 9.918060e-01 0 2 70 0 46 1 165594179 202 165597667 105 1 8.634201e-01 0 1 81 0 4 1 1.150000e+01 LUSC-34-2600 29 2 0 178115028 2 1 178339292 deletion 224259 15 0 0 0 26_samples:0 178114783 178115032 250 50 178339291 178339577 287 46 NFE2L2 Intron of NFE2L2(-): 14Kb after exon 1 AGPS Intron of AGPS(+): 6Kb after exon 10 - 0 0 3.000000e-02 0 1 0 1 0 -1.219273e-01 -4.231747e-01 1 15 1 15 1 178115032 178339291 1 178115028 -4 178339292 1 20 9.976389e-01 0 3 67 0 22 1 178115234 202 178339440 149 1 7.558314e-01 0 1 82 0 1 1 22 LUSC-34-2600 30 8 1 112292303 8 0 112712879 tandem_dup 420544 15 0 0 0 26_samples:0 112292335 112292566 232 36 112712644 112712879 236 41 CSMD3 IGR: 943Kb before CSMD3(-) CSMD3 IGR: 522Kb before CSMD3(-) - 0 0 0 0 2 0 1 0 -1.176293e+00 -7.997340e-01 1 15 1 15 1 112292335 112712879 1 112292303 -32 112712879 0 11 9.936979e-01 1 0 65 0 13 1 -1 -112292336 -1 -112712880 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-34-2600 33 19 1 21315582 22 0 24119762 inter_chr NaN 13 0 0 0 26_samples:0 21315578 21315823 246 64 24119507 24119759 253 50 ZNF714 IGR: 8Kb after ZNF714(+) MMP11 Intron of MMP11(+): 2Kb before exon 2 - 2.000000e-02 2.000000e-02 7.000000e-02 5.000000e-02 2 1 3 2 8.980303e-01 -9.988023e-02 1 13 1 13 1 21315578 24119759 1 21315582 4 24119762 3 13 9.851843e-01 1 2 64 0 16 1 -1 -21315579 -1 -24119760 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-34-2600 35 2 0 84041848 2 1 84043235 deletion 1387 12 0 0 0 26_samples:0 84041677 84041848 172 21 84043235 84043480 246 39 FUNDC2P2 IGR: 476Kb before FUNDC2P2(+) FUNDC2P2 IGR: 475Kb before FUNDC2P2(+) - 0 0 0 0 0 0 0 0 -2.166981e+00 -8.839528e-01 1 12 1 12 1 84041848 84043235 1 -1 -84041849 -1 -84043236 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -84041849 -1 -84043236 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-34-2600 38 23 0 115529080 23 1 115530396 deletion 1326 12 0 0 0 26_samples:0 115528843 115529071 229 52 115530397 115530663 267 61 SLC6A14 IGR: 39Kb before SLC6A14(+) SLC6A14 IGR: 37Kb before SLC6A14(+) - 0 2.000000e-02 0 0 1 0 0 0 4.267841e-02 6.841923e-01 1 12 1 12 1 115529071 115530397 1 115529080 9 115530396 -1 10 9.968818e-01 0 0 78 0 14 1 -1 -115529072 -1 -115530398 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-34-2600 39 1 0 237181041 1 1 237203185 deletion 22152 11 0 0 0 26_samples:0 237180780 237181029 250 53 237203181 237203420 240 51 RYR2 IGR: 25Kb before RYR2(+) RYR2 Promoter of RYR2(+): 3Kb from tx start - 0 0 0 0 1 1 1 1 1.200912e-01 -1.397638e-02 1 11 1 11 1 237181029 237203181 1 237181041 12 237203185 4 11 9.981141e-01 0 1 70 0 13 1 237181230 201 237203158 -23 1 7.617735e-01 0 0 78 1 T 8 1 1.625000e+00 LUSC-34-2600 6 1 0 32946056 1 0 32982439 inversion 36378 27 0 0 0 26_samples:0 32945765 32946059 295 78 32982147 32982437 291 65 ZBTB8B Intron of ZBTB8B(+): 433bp before exon 3 ZBTB8A IGR: 22Kb before ZBTB8A(+) - 0 0 0 3.000000e-02 2 0 2 0 2.133191e+00 1.074020e+00 4.071414e-01 1.099282e+01 1 1.099282e+01 1 32946059 32982437 1 32946056 -3 32982439 2 20 9.995450e-01 0 2 78 0 105 1 -1 -32946060 -1 -32982438 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-34-2600 37 20 0 35016440 20 0 49531974 long_range 14515415 12 0 0 0 26_samples:0 35016298 35016449 152 24 49531673 49531864 192 33 DLGAP4 5'-UTR of DLGAP4(+): 44Kb before coding start ADNP 5'-UTR of ADNP(-): 11Kb before coding start Transcript fusion (DLGAP4-ADNP) 0 0 0 0 2 0 6 1 -1.953143e+00 -1.311629e+00 8.888889e-01 1.066667e+01 1 1.066667e+01 1 35016449 49531864 1 35016440 -9 49531974 110 20 9.975597e-01 0 2 65 0 41 1 -1 -35016450 -1 -49531865 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-34-2600 17 1 1 32880529 2 0 239205402 inter_chr NaN 21 0 0 0 26_samples:0 32880633 32880835 203 29 239205260 239205398 139 25 BSDC1 IGR: 50Kb before BSDC1(-) TRAF3IP1 IGR: 24Kb before TRAF3IP1(+) - 0 0 4.200000e-01 4.300000e-01 1 0 1 0 -1.859068e+00 -2.184967e+00 5.070681e-01 1.064843e+01 1 1.064843e+01 1 32880633 239205398 1 32880529 -104 239205402 4 20 9.828076e-01 1 3 65 0 64 1 32880465 -168 239205602 204 5 8.480971e-01 1 3 81 0 13 1 4.923077e+00 LUSC-34-2600 44 10 0 11662904 10 1 11664636 deletion 1747 9 0 0 0 26_samples:0 11662689 11662907 219 48 11664654 11664914 261 64 USP6NL IGR: 9Kb after USP6NL(-) USP6NL IGR: 11Kb after USP6NL(-) - 0 1.000000e-02 3.000000e-02 3.000000e-02 0 0 0 1 -1.812098e-01 8.347641e-01 1 9 1 9 1 11662907 11664654 1 11662904 -3 11664636 -18 9 9.903575e-01 0 2 69 0 14 1 11663109 202 11664763 109 1 7.533136e-01 0 1 69 0 12 1 1.166667e+00 LUSC-34-2600 45 10 1 68255954 11 1 2150667 inter_chr NaN 9 0 0 0 26_samples:0 68256018 68256160 143 14 2150706 2150880 175 26 CTNNA3 Intron of CTNNA3(-): 24Kb after exon 11 IGF2 3'-UTR of IGF2(-): 4Kb after coding stop - 0 0 0 0 1 0 1 0 -2.340154e+00 -1.578174e+00 1 9 1 9 1 68256018 2150706 1 68255954 -64 2150667 -39 4 9.935600e-01 1 1 69 0 10 1 -1 -68256019 -1 -2150707 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-34-2600 47 15 0 63873703 15 1 63874787 deletion 1139 9 0 0 0 26_samples:0 63873397 63873656 260 53 63874795 63875022 228 48 USP3 Intron of USP3(+): 7Kb before exon 12 USP3 Intron of USP3(+): 6Kb before exon 12 Deletion within intron 1.600000e-01 1.600000e-01 0 0 2 3 1 0 1.362821e-01 -1.812098e-01 1 9 1 9 1 63873656 63874795 1 63873703 47 63874787 -8 7 9.841225e-01 0 2 64 0 10 1 -1 -63873657 -1 -63874796 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-34-2600 49 1 0 84514563 18 0 75096217 inter_chr NaN 8 0 0 0 26_samples:0 84514387 84514555 169 26 75095974 75096143 170 26 PRKACB IGR: 29Kb before PRKACB(+) GALR1 IGR: 134Kb before GALR1(+) - 0 0 0 0 3 0 3 1 -1.578174e+00 -1.578174e+00 1 8 1 8 1 84514555 75096143 1 84514563 8 75096217 74 7 9.953913e-01 0 2 70 0 10 1 -1 -84514556 -1 -75096144 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-34-2600 63 4 0 43822154 11 1 86764997 inter_chr NaN 7 0 0 0 26_samples:0 43821837 43822083 247 49 86764987 86765161 175 29 KCTD8 IGR: 354Kb before KCTD8(-) TMEM135 Intron of TMEM135(+): 14Kb before exon 2 - 3.000000e-02 1.000000e-02 0 0 2 1 1 2 -7.254749e-02 -1.200551e+00 1 7 1 7 1 43822083 86764987 1 43822154 71 86764997 10 2 9.892462e-01 0 2 76 0 4 1 -1 -43822084 -1 -86764988 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-34-2600 64 5 1 100266930 23 1 11951628 inter_chr NaN 7 0 0 0 26_samples:0 100266930 100267145 216 46 11951628 11951848 221 42 ST8SIA4 IGR: 46Kb before ST8SIA4(-) MSL3 IGR: 174Kb before MSL3(+) - 1.600000e-01 7.000000e-02 0 0 3 3 2 0 -2.417480e-01 -4.673488e-01 1 7 1 7 1 100266930 11951628 1 -1 -100266931 -1 -11951629 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -100266931 -1 -11951629 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-34-2600 78 7 0 10638381 23 1 106613415 inter_chr NaN 6 0 0 0 26_samples:0 10638208 10638381 174 32 106613415 106613589 175 27 NDUFA4 IGR: 334Kb before NDUFA4(-) CXorf41 IGR: 164Kb before CXorf41(+) - 0 0 5.000000e-02 1.100000e-01 1 1 4 3 -1.031351e+00 -1.313352e+00 1 6 1 6 1 10638381 106613415 1 10638400 19 106613370 -45 1 1 0 2 73 0 4 1 -1 -10638382 -1 -106613416 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-34-2600 80 8 0 139308014 10 0 87124511 inter_chr NaN 6 0 0 0 26_samples:0 139307841 139308014 174 32 87124285 87124511 227 48 FAM135B Intron of FAM135B(-): 15Kb after exon 3 GRID1 IGR: 235Kb before GRID1(-) - 0 0 0 0 2 0 2 0 -1.031351e+00 -1.289477e-01 1 6 1 6 1 139308014 87124511 1 -1 -139308015 -1 -87124512 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -139308015 -1 -87124512 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-34-2600 84 10 0 68236225 11 0 2151205 inter_chr NaN 6 0 0 0 26_samples:0 68235951 68236208 258 51 2150994 2151172 179 37 CTNNA3 Intron of CTNNA3(-): 44Kb after exon 11 IGF2 3'-UTR of IGF2(-): 3Kb after coding stop - 0 0 0 0 1 2 2 1 4.025288e-02 -7.493497e-01 1 6 1 6 1 68236208 2151172 1 68236225 17 2151205 33 7 9.692408e-01 0 1 56 0 11 1 -1 -68236209 -1 -2151173 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-34-2600 51 3 1 123595231 13 1 108947259 inter_chr NaN 8 0 0 0 26_samples:0 123595225 123595388 164 24 108947349 108947542 194 34 MYLK 5'-UTR of MYLK(-): 83Kb before coding start TNFSF13B Intron of TNFSF13B(+): 8Kb after exon 3 Transcript fusion (MYLK-TNFSF13B) 0 0 0 0 7 0 2 0 -1.705171e+00 -1.070187e+00 7.032967e-01 5.626374e+00 1 5.626374e+00 1 123595225 108947349 1 123595231 6 108947259 -90 6 9.986668e-01 1 3 78 0 7 1 123595044 -181 108947144 -205 1 7.695890e-01 1 4 71 0 1 1 7 LUSC-34-2600 52 3 0 123595365 23 1 87239752 inter_chr NaN 8 0 0 0 26_samples:0 123595173 123595365 193 34 87239752 87239959 208 37 MYLK 5'-UTR of MYLK(-): 83Kb before coding start KLHL4 IGR: 467Kb before KLHL4(+) - 0 0 0 0 7 0 2 0 -1.070187e+00 -8.796918e-01 7.032967e-01 5.626374e+00 1 5.626374e+00 1 123595365 87239752 1 123595497 132 87239732 -20 1 8.171871e-01 0 0 74 0 1 1 -1 -123595366 -1 -87239753 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-34-2600 93 1 0 84514156 10 0 6872885 inter_chr NaN 5 0 0 0 26_samples:0 84514021 84514156 136 22 6872669 6872885 217 51 PRKACB IGR: 30Kb before PRKACB(+) SFMBT2 IGR: 331Kb before SFMBT2(-) - 0 0 0 2.000000e-02 2 0 1 1 -1.465231e+00 6.672724e-02 1 5 1 5 1 84514156 6872885 1 -1 -84514157 -1 -6872886 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -84514157 -1 -6872886 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-34-2600 114 6 1 21287924 6 0 21293182 tandem_dup 5234 5 0 0 0 26_samples:0 21287949 21288197 249 64 21292959 21293183 225 56 CDKAL1 IGR: 55Kb after CDKAL1(+) CDKAL1 IGR: 61Kb after CDKAL1(+) - 0 0 0 0 0 1 2 1 7.534670e-01 3.308579e-01 1 5 1 5 1 21287949 21293183 1 21287924 -25 21293182 -1 2 9.776674e-01 1 1 72 0 4 1 -1 -21287950 -1 -21293184 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-34-2600 116 6 0 148643867 14 0 73328512 inter_chr NaN 5 0 0 0 26_samples:0 148643743 148643867 125 10 73328409 73328512 104 2 SASH1 IGR: 20Kb before SASH1(+) DPF3 Intron of DPF3(-): 32Kb after exon 1 - 0 0 8.000000e-02 4.000000e-02 2 2 1 2 -2.099144e+00 -2.521753e+00 1 5 1 5 1 148643867 73328512 1 148644022 155 73328513 1 12 9.596724e-01 0 2 102 0 21 1 148644022 155 73328513 1 8 9.601887e-01 0 2 102 0 33 -1 6.363636e-01 LUSC-34-2600 118 6 1 63371883 23 1 26479890 inter_chr NaN 5 0 0 0 26_samples:0 63371892 63372061 170 49 26479966 26480142 177 28 KHDRBS2 IGR: 376Kb after KHDRBS2(-) VENTXP1 IGR: 96Kb before VENTXP1(+) - 0 0 0 0 3 1 2 0 -3.892503e-02 -1.148274e+00 1 5 1 5 1 63371892 26479966 1 63371883 -9 26479890 -76 3 1 1 2 77 0 3 1 -1 -63371893 -1 -26479967 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-34-2600 119 7 0 33414222 7 0 151264503 long_range 117850281 5 0 0 0 26_samples:0 33413997 33414222 226 52 151264293 151264503 211 54 BBS9 Intron of BBS9(+): 7Kb after exon 16 PRKAG2 Intron of PRKAG2(-): 1Kb after exon 11 Protein fusion: out of frame (BBS9-PRKAG2) 0 0 0 0 3 0 2 0 1.195534e-01 2.252056e-01 1 5 1 5 1 33414222 151264503 1 -1 -33414223 -1 -151264504 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -33414223 -1 -151264504 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-34-2600 122 8 1 139307999 10 0 87123452 inter_chr NaN 5 0 0 0 26_samples:0 139308020 139308287 268 66 87123231 87123439 209 42 FAM135B Intron of FAM135B(-): 15Kb after exon 3 GRID1 IGR: 236Kb before GRID1(-) - 0 0 1.400000e-01 5.000000e-02 4 1 2 1 8.591193e-01 -4.087080e-01 1 5 1 5 1 139308020 87123439 1 139307999 -21 87123452 13 8 9.786449e-01 1 3 64 0 13 1 139307734 -286 87123793 354 1 7.994849e-01 1 3 83 0 5 1 2.600000e+00 LUSC-34-2600 134 15 1 59495128 15 1 59541687 inversion 46559 5 0 0 0 26_samples:0 59495128 59495326 199 42 59541687 59541860 174 31 MYO1E Intron of MYO1E(-): 522bp before exon 16 MYO1E Intron of MYO1E(-): 7Kb after exon 4 Antisense fusion 0 0 0 0 2 0 1 0 -4.087080e-01 -9.897955e-01 1 5 1 5 1 59495128 59541687 1 -1 -59495129 -1 -59541688 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -59495129 -1 -59541688 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-34-2600 136 16 0 53174834 16 1 53237673 deletion 62846 5 0 0 0 26_samples:0 53174587 53174836 250 61 53237682 53237908 227 54 CHD9 5'-UTR of CHD9(+): 15Kb before coding start CHD9 Intron of CHD9(+): 6Kb before exon 3 Deletion within transcript 0 0 1.000000e-01 1.200000e-01 2 1 1 3 5.949886e-01 2.252056e-01 1 5 1 5 1 53174836 53237682 1 53174834 -2 53237673 -9 2 1 0 2 67 0 6 1 -1 -53174837 -1 -53237683 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-34-2600 149 1 0 88256056 5 0 179289956 inter_chr NaN 4 0 0 0 26_samples:0 88255817 88256056 240 62 179289703 179289956 254 66 LMO4 IGR: 462Kb before LMO4(+) TBC1D9B 3'-UTR of TBC1D9B(-): 492bp after coding stop - 0 0 0 0 2 0 1 0 6.208942e-01 8.093821e-01 1 4 1 4 1 88256056 179289956 1 88256067 11 179289953 -3 1 1.000001e+00 0 2 69 0 6 1 -1 -88256057 -1 -179289957 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-34-2600 180 4 0 28308979 4 0 28310558 inversion 1563 4 0 0 0 26_samples:0 28308770 28308944 175 37 28310347 28310507 161 27 STIM2 IGR: 1Mb before STIM2(+) STIM2 IGR: 1Mb before STIM2(+) - 0 0 0 1.000000e-02 1 0 1 0 -5.571549e-01 -1.028375e+00 1 4 1 4 1 28308944 28310507 1 28308979 35 28310558 51 2 9.412124e-01 0 0 74 2 GA 6 1 -1 -28308945 -1 -28310508 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-34-2600 181 4 0 53733212 4 1 54222827 deletion 489695 4 0 0 0 26_samples:0 53732942 53733189 248 68 54222884 54223098 215 58 RASL11B IGR: 194bp after RASL11B(+) SCFD2 Intron of SCFD2(-): 4Kb before exon 2 - 0 0 5.000000e-02 9.000000e-02 1 0 1 2 9.036260e-01 4.324064e-01 1 4 1 4 1 53733189 54222884 1 53733212 23 54222827 -57 11 9.914321e-01 0 3 68 0 14 1 -1 -53733190 -1 -54222885 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-34-2600 207 7 1 49717188 23 0 109053215 inter_chr NaN 4 0 0 0 26_samples:0 49717205 49717443 239 66 109052978 109053190 213 51 VWC2 IGR: 96Kb before VWC2(+) ACSL4 IGR: 169Kb before ACSL4(-) - 0 0 0 0 2 1 1 0 8.093821e-01 1.025526e-01 1 4 1 4 1 49717205 109053190 1 49717188 -17 109053215 25 5 9.604810e-01 1 6 80 0 6 1 -1 -49717206 -1 -109053191 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-34-2600 209 8 1 112072617 8 0 112141830 tandem_dup 69213 4 0 0 0 26_samples:0 112072617 112072749 133 23 112141683 112141830 148 21 KCNV1 IGR: 1Mb before KCNV1(-) CSMD3 IGR: 1Mb before CSMD3(-) - 0 0 0 0 2 0 1 1 -1.216862e+00 -1.311106e+00 1 4 1 4 1 112072617 112141830 1 -1 -112072618 -1 -112141831 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -112072618 -1 -112141831 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-34-2600 210 8 1 30822246 9 1 34141020 inter_chr NaN 4 0 0 0 26_samples:0 30822246 30822431 186 39 34141020 34141173 154 27 PURG IGR: 31Kb before PURG(-) UBAP1 IGR: 38Kb before UBAP1(+) - 2.000000e-02 2.000000e-02 0 0 1 0 1 0 -4.629110e-01 -1.028375e+00 1 4 1 4 1 30822246 34141020 1 30822190 -56 34140978 -42 1 1 1 2 54 0 3 1 -1 -30822247 -1 -34141021 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-34-2600 221 10 1 134632894 13 0 62311461 inter_chr NaN 4 0 0 0 26_samples:0 134632911 134633127 217 55 62311201 62311417 217 50 NKX6-2 IGR: 35Kb before NKX6-2(-) PCDH20 IGR: 328Kb before PCDH20(-) - 0 0 0 0 2 0 1 0 2.910405e-01 5.543064e-02 1 4 1 4 1 134632911 62311417 1 134632894 -17 62311461 44 4 9.979718e-01 1 1 76 0 7 1 -1 -134632912 -1 -62311418 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 2 3 0 182289183 3 0 182381122 inversion 91939 513 0 0 0 26_samples:0 182288487 182289188 702 71 182380561 182381127 567 63 ATP11B IGR: 222Kb before ATP11B(+) ATP11B IGR: 130Kb before ATP11B(+) - 0 0 0 0 5 1 5 0 6.782131e-01 1.589615e-01 1 513 1 513 1 182289188 182381127 1 182289183 -5 182381122 -5 20 9.545467e-01 0 3 71 0 538 1 -1 -182289189 -1 -182381128 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 3 3 0 182281752 3 0 182373200 inversion 91443 400 0 0 0 26_samples:0 182281508 182281764 257 47 182372825 182373207 383 55 ATP11B IGR: 230Kb before ATP11B(+) ATP11B IGR: 138Kb before ATP11B(+) - 0 0 1.000000e-02 6.000000e-02 17 0 7 2 -8.795418e-01 -3.602901e-01 9.931877e-01 3.972751e+02 1 3.972751e+02 1 182281764 182373207 1 182281752 -12 182373200 -7 20 9.816967e-01 0 3 67 0 313 1 -1 -182281765 -1 -182373208 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 4 3 0 158692914 3 1 163789092 long_range 5096162 190 0 0 0 26_samples:0 158692562 158692929 368 65 163789091 163789423 333 60 IQCJ IGR: 94Kb before IQCJ(+) SI IGR: 908Kb before SI(-) - 0 0 0 0 6 1 3 2 2.887744e-01 -3.575788e-02 1 190 1 190 1 158692929 163789091 1 158692914 -15 163789092 1 20 9.831676e-01 0 0 69 0 202 1 158693140 211 163788919 -172 3 8.279607e-01 0 11 70 0 5 1 4.040000e+01 LUSC-43-3394 5 3 1 178516875 3 0 178551748 tandem_dup 34888 188 0 0 0 26_samples:0 178516870 178517325 456 59 178551309 178551758 450 60 KCNMB2 5'-UTR of KCNMB2(+): 8Kb before coding start KCNMB2 Intron of KCNMB2(+): 6Kb after exon 4 Duplication within transcript 1.000000e-02 0 0 2.000000e-02 9 0 4 1 -1.006643e-01 -3.575788e-02 8.955410e-01 1.683617e+02 1 1.683617e+02 1 178516870 178551758 1 178516875 5 178551748 -10 20 9.872230e-01 1 0 77 0 234 1 -1 -178516871 -1 -178551759 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 6 3 1 158692545 3 1 166066688 long_range 7374140 138 0 0 0 26_samples:0 158692544 158692897 354 60 166066684 166066969 286 56 IQCJ IGR: 95Kb before IQCJ(+) BCHE IGR: 576Kb before BCHE(-) - 0 0 1.000000e-02 2.000000e-02 6 1 4 1 -3.575788e-02 -2.953837e-01 9.979365e-01 1.377152e+02 1 1.377152e+02 1 158692544 166066684 1 158692545 1 166066688 4 20 9.841289e-01 1 2 71 0 102 1 -1 -158692545 -1 -166066685 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 8 3 0 164088460 3 0 181650167 long_range 17561709 81 0 0 0 26_samples:0 164088144 164088465 322 57 181649671 181650174 504 69 SI IGR: 608Kb before SI(-) SOX2 IGR: 220Kb before SOX2(+) - 0 0 1.000000e-02 0 5 0 4 1 -2.304772e-01 5.484002e-01 9.996891e-01 8.097482e+01 1 8.097482e+01 1 164088465 181650174 1 164088460 -5 181650167 -7 20 9.987560e-01 0 3 70 0 79 1 -1 -164088466 -1 -181650175 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 10 3 1 182505236 3 1 182509329 inversion 4093 76 0 0 0 26_samples:0 182505231 182505575 345 63 182509324 182509780 457 78 ATP11B IGR: 6Kb before ATP11B(+) ATP11B Promoter of ATP11B(+): 2Kb from tx start - 0 0 0 0 1 0 4 2 1.589615e-01 1.132558e+00 9.976761e-01 7.582339e+01 1 7.582339e+01 1 182505231 182509324 1 182505236 5 182509329 5 20 1 1 1 77 0 102 1 -1 -182505232 -1 -182509325 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 7 3 0 158680441 3 0 166066966 long_range 7386523 84 0 0 0 26_samples:0 158680204 158680446 243 40 166066691 166066969 279 45 IQCJ IGR: 107Kb before IQCJ(+) BCHE IGR: 576Kb before BCHE(-) - 0 0 1.000000e-02 2.000000e-02 7 0 4 1 -1.333887e+00 -1.009355e+00 8.973707e-01 7.537914e+01 1 7.537914e+01 1 158680446 166066969 1 158680441 -5 166066966 -3 20 9.964712e-01 0 1 77 0 51 1 -1 -158680447 -1 -166066970 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 12 3 0 168920465 13 0 65417321 inter_chr NaN 75 0 0 0 26_samples:0 168919985 168920468 484 75 65416947 65417328 382 63 MECOM Intron of MECOM(-): 59Kb before exon 3 OR7E156P IGR: 1Mb before OR7E156P(+) - 1.000000e-02 0 0 0 1 0 2 0 9.378389e-01 1.589615e-01 1 75 1 75 1 168920468 65417328 1 168920465 -3 65417321 -7 20 9.894262e-01 0 1 81 0 61 1 -1 -168920469 -1 -65417329 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 13 6 1 63770815 12 1 44148197 inter_chr NaN 73 0 0 0 26_samples:0 63770811 63771255 445 60 44148194 44148652 459 61 LGSN IGR: 215Kb before LGSN(-) PUS7L Exon 2 of PUS7L(-) - 0 0 0 0 1 0 3 1 -3.575788e-02 2.914858e-02 1 73 1 73 1 63770811 44148194 1 63770815 4 44148197 3 20 9.913764e-01 1 0 71 0 71 1 -1 -63770812 -1 -44148195 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 14 3 0 182442267 3 0 183384625 inversion 942358 68 0 0 0 26_samples:0 182441805 182442267 463 59 183384342 183384625 284 43 ATP11B IGR: 69Kb before ATP11B(+) KLHL24 Intron of KLHL24(+): 2Kb after exon 5 - 1.000000e-02 0 0 0 3 0 5 1 -1.006643e-01 -1.139168e+00 9.990882e-01 6.793799e+01 1 6.793799e+01 1 182442267 183384625 1 -1 -182442268 -1 -183384626 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -182442268 -1 -183384626 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-43-3394 17 3 1 178545923 3 0 178613333 tandem_dup 67412 57 0 0 0 26_samples:0 178545916 178546322 407 70 178613023 178613328 306 61 KCNMB2 Intron of KCNMB2(+): 50bp before exon 4 KCNMB2 IGR: 51Kb after KCNMB2(+) - 0 0 0 0 4 1 5 1 6.133067e-01 2.914858e-02 9.981985e-01 5.689732e+01 1 5.689732e+01 1 178545916 178613328 1 178545923 7 178613333 5 20 9.936978e-01 1 2 78 0 81 1 -1 -178545917 -1 -178613329 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 15 3 0 183155469 3 0 183164597 inversion 9132 65 0 0 0 26_samples:0 183155204 183155471 268 43 183164370 183164603 234 38 KLHL6 IGR: 50Kb before KLHL6(-) KLHL6 IGR: 41Kb before KLHL6(-) - 0 0 0 3.000000e-02 4 1 7 0 -1.139168e+00 -1.463700e+00 8.605100e-01 5.593315e+01 1 5.593315e+01 1 183155471 183164603 1 183155469 -2 183164597 -6 19 9.416763e-01 0 0 63 39 AAAGAATAAGTTTTCCTGTATCTATGCTTTTAAGTTATT 162 1 -1 -183155472 -1 -183164604 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 16 3 1 158692619 3 1 166016119 long_range 7323508 57 0 0 0 26_samples:0 158692615 158692869 255 52 166016123 166016734 612 82 IQCJ IGR: 95Kb before IQCJ(+) BCHE IGR: 461Kb after BCHE(-) - 0 0 0 0 6 1 3 1 -5.550095e-01 1.392184e+00 9.055677e-01 5.161736e+01 1 5.161736e+01 1 158692615 166016123 1 158692619 4 166016119 -4 20 9.920162e-01 1 2 83 0 54 1 158692508 -107 166015921 -202 1 8.624684e-01 1 1 72 0 4 1 1.350000e+01 LUSC-43-3394 18 12 0 44185697 12 0 44187011 inversion 1304 51 0 1 1 BR-MEX-082:1,25_samples:0 44185363 44185707 345 58 44186680 44187011 332 58 TWF1 IGR: 2Kb before TWF1(-) TWF1 IGR: 517bp before TWF1(-) - 0 0 3.000000e-02 2.500000e-01 5 0 2 2 -1.655708e-01 -1.655708e-01 9.975320e-01 5.087413e+01 1 5.087413e+01 1 44185707 44187011 1 44185697 -10 44187011 0 20 9.896758e-01 0 1 65 0 71 1 44185677 -30 44187222 211 4 8.394777e-01 0 10 81 0 16 1 4.437500e+00 LUSC-43-3394 19 3 1 164071722 3 1 164136317 inversion 64577 48 0 0 0 26_samples:0 164071733 164071956 224 30 164136310 164136508 199 32 SI IGR: 625Kb before SI(-) SI IGR: 560Kb before SI(-) - 0 0 0 0 4 0 4 0 -1.982952e+00 -1.853139e+00 1 48 1 48 1 164071733 164136310 1 164071722 -11 164136317 7 20 9.959039e-01 1 3 74 0 33 1 -1 -164071734 -1 -164136311 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 21 2 1 173592863 3 1 168784771 inter_chr NaN 39 0 0 0 26_samples:0 173592858 173592996 139 22 168784858 168785189 332 59 LOC91149 3'-UTR of LOC91149(-): 8Kb after coding stop MECOM IGR: 16Kb before MECOM(-) - 0 0 0 0 3 2 3 0 -2.502203e+00 -1.006643e-01 1 39 1 39 1 173592858 168784858 1 173592863 5 168784771 -87 20 9.964208e-01 1 1 67 0 79 1 -1 -173592859 -1 -168784859 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 22 3 0 170865517 3 1 178468005 long_range 7602479 39 0 0 0 26_samples:0 170865157 170865523 367 61 178468002 178468468 467 75 TNIK Intron of TNIK(-): 7Kb before exon 13 KCNMB2 5'-UTR of KCNMB2(+): 57Kb before coding start - 0 0 0 2.000000e-02 2 0 4 2 2.914858e-02 9.378389e-01 1 39 1 39 1 170865523 178468002 1 170865517 -6 178468005 3 19 9.917091e-01 0 0 62 0 45 1 170865662 139 178467922 -80 1 8.634199e-01 0 0 79 0 7 1 6.428571e+00 LUSC-43-3394 25 2 1 55684649 2 0 61536551 long_range 5851876 37 0 0 0 26_samples:0 55684669 55684948 280 54 61536346 61536545 200 35 CCDC104 IGR: 62Kb before CCDC104(+) USP34 Intron of USP34(-): 2Kb after exon 27 - 0 0 0 2.000000e-02 2 0 3 1 -4.251966e-01 -1.658419e+00 1 37 1 37 1 55684669 61536545 1 55684649 -20 61536551 6 20 9.932285e-01 1 0 82 0 38 1 -1 -55684670 -1 -61536546 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 27 3 1 168784765 11 0 56104404 inter_chr NaN 35 0 0 0 26_samples:0 168784765 168785017 253 43 56104268 56104404 137 18 MECOM IGR: 17Kb before MECOM(-) OR8K1 IGR: 9Kb before OR8K1(+) - 1.000000e-02 0 0 0 3 0 2 1 -1.139168e+00 -2.761829e+00 1 35 1 35 1 168784765 56104404 1 -1 -168784766 -1 -56104405 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -168784766 -1 -56104405 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-43-3394 20 3 0 158692876 3 1 163809066 long_range 5116190 43 0 0 0 26_samples:0 158692642 158692876 235 41 163809066 163809309 244 45 IQCJ IGR: 94Kb before IQCJ(+) SI IGR: 888Kb before SI(-) - 0 0 0 0 6 1 7 1 -1.268981e+00 -1.009355e+00 7.681619e-01 3.303096e+01 1 3.303096e+01 1 158692876 163809066 1 158692874 -2 163809071 5 1 8.571101e-01 0 0 74 58 TGTTTCTCAGAGGCAAACAAGTATTCATTCAAAAGAGGCACTTAAACCTGAATATTAA 64 1 158693077 201 163809200 134 1 7.854480e-01 0 1 77 15 TCCATTTGGAAAATC 14 0 4.571429e+00 LUSC-43-3394 32 3 0 164071737 3 0 164136510 inversion 64809 31 0 0 0 26_samples:0 164071436 164071706 271 46 164136314 164136515 202 36 SI IGR: 625Kb before SI(-) SI IGR: 560Kb before SI(-) - 0 0 0 0 4 0 4 0 -9.444482e-01 -1.593513e+00 1 31 1 31 1 164071706 164136515 1 164071737 31 164136510 -5 20 9.859938e-01 0 6 71 0 56 1 -1 -164071707 -1 -164136516 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 29 3 1 164071435 3 1 166017101 long_range 1945659 33 0 0 0 26_samples:0 164071431 164071714 284 52 166017090 166017420 331 73 SI IGR: 625Kb before SI(-) BCHE IGR: 462Kb after BCHE(-) - 0 0 1.000000e-02 0 4 0 6 0 -5.550095e-01 8.080260e-01 9.351249e-01 3.085912e+01 1 3.085912e+01 1 164071431 166017090 1 164071435 4 166017101 11 20 9.950809e-01 1 5 84 0 71 1 164071545 114 166016886 -204 1 8.193876e-01 1 3 79 0 2 1 3.550000e+01 LUSC-43-3394 31 17 0 21919276 17 1 21921083 deletion 1833 32 0 0 0 26_samples:0 21918976 21919274 299 60 21921107 21921555 449 82 FLJ36000 IGR: 6Kb after FLJ36000(+) FLJ36000 IGR: 17Kb before FLJ36000(+) - 1.000000e-02 3.000000e-02 4.000000e-02 9.000000e-02 1 1 0 0 -3.575788e-02 1.392184e+00 9.431104e-01 3.017953e+01 1 3.017953e+01 1 21919274 21921107 1 21919276 2 21921083 -24 13 9.793533e-01 0 3 74 0 17 1 -1 -21919275 -1 -21921108 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 26 3 1 182815399 3 1 182816908 inversion 1507 36 0 0 0 26_samples:0 182815394 182815731 338 74 182816901 182817275 375 85 MCCC1 Intron of MCCC1(-): 2Kb after exon 1 MCCC1 Intron of MCCC1(-): 239bp after exon 1 Antisense fusion 0 0 0 0 3 0 2 1 8.729325e-01 1.586903e+00 8.318345e-01 2.994604e+01 1 2.994604e+01 1 182815394 182816901 1 182815399 5 182816908 7 20 9.974528e-01 1 3 67 0 75 1 -1 -182815395 -1 -182816902 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 36 1 1 167351406 2 0 176955008 inter_chr NaN 29 0 0 0 26_samples:0 167351407 167351724 318 68 176954632 176955011 380 76 POU2F1 Intron of POU2F1(+): 2Kb before exon 9 HOXD13 Promoter of HOXD13(+): 3Kb from tx start Transcript fusion (HOXD13-POU2F1) 0 0 1.000000e-02 0 2 0 2 0 4.616730e-01 9.233497e-01 1 29 1 29 1 167351407 176955011 1 167351406 -1 176955008 -3 17 9.940779e-01 1 1 68 0 32 1 -1 -167351408 -1 -176955012 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 39 2 0 838917 2 0 52494007 long_range 51655078 28 0 0 0 26_samples:0 838613 838910 298 44 52493653 52493988 336 56 SNTG2 IGR: 108Kb before SNTG2(+) ASB3 IGR: 1Mb before ASB3(-) - 0 0 1.000000e-02 0 2 1 2 0 -9.233571e-01 -2.308420e-01 1 28 1 28 1 838910 52493988 1 838917 7 52494007 19 20 9.946676e-01 0 0 83 0 48 1 -1 -838911 -1 -52493989 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 40 3 1 153062016 3 0 166946990 long_range 13884990 28 0 0 0 26_samples:0 153062008 153062396 389 72 166946714 166946998 285 63 C3orf79 IGR: 140Kb before C3orf79(+) ZBBX IGR: 11Kb before ZBBX(-) - 0 0 0 0 2 1 1 0 6.925113e-01 1.731251e-01 1 28 1 28 1 153062008 166946998 1 153062016 8 166946990 -8 18 9.860986e-01 1 0 79 0 35 1 -1 -153062009 -1 -166946999 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 41 2 1 55665898 2 1 61536344 long_range 5870419 27 0 0 0 26_samples:0 55665924 55666240 317 57 61536343 61536550 208 41 CCDC88A IGR: 19Kb after CCDC88A(-) USP34 Intron of USP34(-): 2Kb after exon 27 - 2.000000e-02 2.000000e-02 0 2.000000e-02 3 0 3 1 -1.731325e-01 -1.096486e+00 1 27 1 27 1 55665924 61536343 1 55665898 -26 61536344 1 20 9.982532e-01 1 2 67 0 47 1 -1 -55665925 -1 -61536344 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 43 3 0 167443510 3 0 190389801 long_range 22946278 27 0 0 0 26_samples:0 167443187 167443514 328 66 190389442 190389792 351 77 PDCD10 5'-UTR of PDCD10(-): 6Kb before coding start IL1RAP IGR: 15Kb after IL1RAP(+) - 0 0 0 0 2 1 1 2 3.462538e-01 9.810593e-01 1 27 1 27 1 167443514 190389792 1 167443510 -4 190389801 9 14 9.882258e-01 0 2 69 0 40 1 167443716 202 190389933 141 2 7.521837e-01 0 3 89 0 4 1 10 LUSC-43-3394 45 3 0 159787448 3 1 167101440 long_range 7313994 24 0 0 0 26_samples:0 159787130 159787451 322 60 167101445 167101765 321 57 IL12A IGR: 81Kb before IL12A(+) ZBBX IGR: 3Kb after ZBBX(-) - 0 0 0 0 2 2 2 1 -3.703560e-06 -1.731325e-01 1 24 1 24 1 159787451 167101445 1 159787448 -3 167101440 -5 20 9.977482e-01 0 0 61 0 30 1 -1 -159787452 -1 -167101446 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 48 19 1 21556829 19 1 24456160 long_range 2899334 24 0 0 0 26_samples:0 21556827 21557162 336 66 24456161 24456558 398 80 ZNF738 5'-UTR of ZNF738(+): 15Kb before coding start LOC100101266 IGR: 111Kb before LOC100101266(-) - 1.000000e-02 0 0 3.000000e-02 1 0 1 1 3.462538e-01 1.154188e+00 9.963477e-01 2.391235e+01 1 2.391235e+01 1 21556827 24456161 1 21556829 2 24456160 -1 14 9.891374e-01 1 8 82 0 25 1 -1 -21556828 -1 -24456162 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 46 3 0 164067418 3 1 164088110 deletion 20738 24 0 0 0 26_samples:0 164067271 164067425 155 20 164088163 164088441 279 41 SI IGR: 629Kb before SI(-) SI IGR: 609Kb before SI(-) - 1.000000e-02 0 0 0 4 0 5 0 -2.308387e+00 -1.096486e+00 9.925267e-01 2.382064e+01 1 2.382064e+01 1 164067425 164088163 1 164067418 -7 164088110 -53 20 1 0 3 68 0 51 1 164067457 32 164087961 -202 1 8.602548e-01 0 2 74 2 AT 1 1 51 LUSC-43-3394 23 3 1 182474309 3 1 182477698 inversion 3387 38 0 0 0 26_samples:0 182474315 182474568 254 56 182477702 182477975 274 58 ATP11B IGR: 37Kb before ATP11B(+) ATP11B IGR: 34Kb before ATP11B(+) - 0 0 1.000000e-02 0 2 0 8 1 -2.953837e-01 -1.655708e-01 6.085751e-01 2.312585e+01 1 2.312585e+01 1 182474315 182477702 1 182474309 -6 182477698 -4 20 9.989899e-01 1 3 77 0 55 1 -1 -182474316 -1 -182477703 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 37 3 1 182374357 3 0 182431850 tandem_dup 57409 29 0 0 0 26_samples:0 182374356 182374497 142 18 182431475 182431765 291 39 ATP11B IGR: 137Kb before ATP11B(+) ATP11B IGR: 80Kb before ATP11B(+) - 0 0 0 0 5 0 7 0 -2.423806e+00 -1.211905e+00 7.728911e-01 2.241384e+01 1 2.241384e+01 1 182374356 182431765 1 182374357 1 182431850 85 20 9.785115e-01 1 3 83 0 125 1 -1 -182374357 -1 -182431766 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 52 3 0 167446093 3 0 191713716 long_range 24267631 22 0 0 0 26_samples:0 167445801 167446093 293 68 191713357 191713724 368 71 PDCD10 5'-UTR of PDCD10(-): 8Kb before coding start FGF12 IGR: 146Kb before FGF12(-) - 0 0 0 0 1 0 3 0 4.616730e-01 6.348017e-01 1 22 1 22 1 167446093 191713724 1 167446093 0 191713716 -8 18 9.735083e-01 0 1 75 0 33 1 -1 -167446094 -1 -191713725 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 54 19 0 5801859 19 0 24323592 long_range 18521717 22 0 0 0 26_samples:0 5801607 5801856 250 45 24323276 24323573 298 59 DUS3L IGR: 17Kb before DUS3L(-) LOC100101266 IGR: 21Kb before LOC100101266(-) - 3.000000e-02 6.000000e-02 0 0 2 0 2 1 -8.656475e-01 -5.771329e-02 1 22 1 22 1 5801856 24323573 1 5801859 3 24323592 19 14 9.840955e-01 0 0 63 0 21 1 -1 -5801857 -1 -24323574 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 55 19 0 29467342 19 0 29501778 inversion 34432 22 0 0 0 26_samples:0 29467104 29467345 242 55 29501472 29501777 306 64 LOC148145 IGR: 7Kb after LOC148145(+) LOC148145 IGR: 46Kb before LOC148145(+) - 0 3.000000e-02 0 0 1 0 2 0 -2.885516e-01 2.308346e-01 1 22 1 22 1 29467345 29501777 1 29467342 -3 29501778 1 10 9.870095e-01 0 2 73 0 37 1 -1 -29467346 -1 -29501778 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 9 3 0 182374348 3 1 182376616 deletion 2260 77 0 0 0 26_samples:0 182374005 182374351 347 60 182376611 182376928 318 58 ATP11B IGR: 137Kb before ATP11B(+) ATP11B IGR: 135Kb before ATP11B(+) - 0 0 0 6.000000e-02 5 1 11 1 -3.575788e-02 -1.655708e-01 2.803873e-01 2.158983e+01 1 2.158983e+01 1 182374351 182376611 1 182374348 -3 182376616 5 20 9.993860e-01 0 2 80 0 165 1 182374493 142 182376409 -202 1 7.503244e-01 0 1 85 2 TT 5 1 33 LUSC-43-3394 56 3 0 154988674 3 1 158251314 long_range 3262654 21 0 0 0 26_samples:0 154988380 154988655 276 62 158251309 158251625 317 62 MME IGR: 191Kb before MME(+) RSRC1 Intron of RSRC1(+): 4Kb before exon 8 - 1.000000e-02 0 1.000000e-02 0 2 1 3 1 1.154155e-01 1.154155e-01 1 21 1 21 1 154988655 158251309 1 154988674 19 158251314 5 14 9.985171e-01 0 2 83 0 33 1 -1 -154988656 -1 -158251310 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 58 5 1 31226832 8 1 28969276 inter_chr NaN 21 0 0 0 26_samples:0 31226847 31227096 250 46 28969274 28969593 320 55 CDH6 5'-UTR of CDH6(+): 41Kb before coding start KIF13B Intron of KIF13B(-): 2Kb before exon 33 Transcript fusion (KIF13B-CDH6) 0 0 0 0 2 1 1 2 -8.079379e-01 -2.885516e-01 1 21 1 21 1 31226847 28969274 1 31226832 -15 28969276 2 18 9.968774e-01 1 1 69 0 25 1 -1 -31226848 -1 -28969275 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 42 3 0 166017441 3 1 182431431 long_range 16413953 27 0 0 0 26_samples:0 166017275 166017476 202 32 182431429 182431597 169 16 BCHE IGR: 462Kb after BCHE(-) ATP11B IGR: 80Kb before ATP11B(+) - 0 0 0 0 5 0 7 0 -1.615872e+00 -2.539225e+00 7.675868e-01 2.072484e+01 1 2.072484e+01 1 166017476 182431429 1 166017441 -35 182431431 2 8 8.317795e-01 0 1 74 1 A 35 1 -1 -166017477 -1 -182431430 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 53 17 0 20807669 17 0 21552094 inversion 744425 22 0 0 0 26_samples:0 20807234 20807672 439 82 21551827 21552097 271 55 CCDC144NL IGR: 41Kb before CCDC144NL(-) C17orf51 IGR: 121Kb before C17orf51(-) - 3.100000e-01 1.800000e-01 1.900000e-01 2.100000e-01 4 4 5 5 1.269607e+00 -2.885516e-01 9.312231e-01 2.048691e+01 1 2.048691e+01 1 20807672 21552097 1 20807669 -3 21552094 -3 15 9.716035e-01 0 0 72 0 50 1 -1 -20807673 -1 -21552098 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 50 3 1 146619349 3 1 161802304 long_range 15182970 22 0 0 0 26_samples:0 146619345 146619641 297 85 161802315 161802697 383 74 PLSCR5 IGR: 316Kb before PLSCR5(-) OTOL1 IGR: 588Kb before OTOL1(+) - 4.000000e-02 3.000000e-02 0 0 2 0 2 1 1.442736e+00 8.079305e-01 9.201469e-01 2.024323e+01 1 2.024323e+01 1 146619345 161802315 1 146619349 4 161802304 -11 13 9.681543e-01 1 0 62 0 19 1 -1 -146619346 -1 -161802316 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 64 3 1 157539941 3 1 157542582 inversion 2637 20 0 0 0 26_samples:0 157539942 157540289 348 65 157542579 157542868 290 58 SHOX2 IGR: 274Kb before SHOX2(-) SHOX2 IGR: 271Kb before SHOX2(-) - 0 0 0 0 1 1 1 1 2.885442e-01 -1.154229e-01 1 20 1 20 1 157539942 157542579 1 157539941 -1 157542582 3 10 1 1 0 70 0 15 1 -1 -157539943 -1 -157542580 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 60 19 0 14723972 19 1 18838762 long_range 4114818 21 0 0 0 26_samples:0 14723707 14723970 264 53 18838788 18839062 275 51 EMR3 IGR: 6Kb before EMR3(-) CRTC1 Intron of CRTC1(+): 15Kb before exon 2 - 3.000000e-02 1.100000e-01 0 8.000000e-02 6 2 5 1 -4.039708e-01 -5.193900e-01 9.122625e-01 1.915751e+01 1 1.915751e+01 1 14723970 18838788 1 14723972 2 18838762 -26 6 9.885458e-01 0 8 123 0 39 1 14724092 122 18838581 -207 6 9.018243e-01 0 9 108 0 10 1 3.900000e+00 LUSC-43-3394 65 3 0 161880783 3 0 167451519 long_range 5570724 19 0 0 0 26_samples:0 161880440 161880786 347 63 167451233 167451510 278 56 OTOL1 IGR: 666Kb before OTOL1(+) PDCD10 5'-UTR of PDCD10(-): 14Kb before coding start - 1.000000e-02 0 1.000000e-02 2.000000e-02 2 0 2 0 1.835730e-01 -1.882770e-01 1 19 1 19 1 161880786 167451510 1 161880783 -3 167451519 9 7 9.974354e-01 0 6 80 0 13 1 -1 -161880787 -1 -167451511 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 66 19 0 14879868 19 1 23147633 long_range 8267783 19 0 0 0 26_samples:0 14879581 14879854 274 59 23147637 23147962 326 69 EMR2 Intron of EMR2(-): 2Kb before exon 6 ZNF99 IGR: 209Kb before ZNF99(-) - 2.000000e-02 3.000000e-02 0 0 1 1 1 1 -2.891270e-02 5.023015e-01 1 19 1 19 1 14879854 23147637 1 14879868 14 23147633 -4 16 9.805688e-01 0 4 68 0 25 1 -1 -14879855 -1 -23147638 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 68 3 0 162406730 3 0 183146488 long_range 20739755 18 0 0 0 26_samples:0 162406431 162406733 303 64 183146214 183146488 275 61 OTOL1 IGR: 1Mb before OTOL1(+) MCF2L2 Promoter of MCF2L2(-): 633bp from tx start - 0 0 0 0 1 0 1 1 2.366944e-01 7.733014e-02 1 18 1 18 1 162406733 183146488 1 162406730 -3 183146488 0 15 9.827712e-01 0 1 62 0 58 1 -1 -162406734 -1 -183146489 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 69 3 0 145902076 3 1 166839838 long_range 20937764 18 0 0 0 26_samples:0 145901739 145902073 335 58 166839837 166840236 400 73 PLSCR4 IGR: 8Kb before PLSCR4(-) ZBBX IGR: 118Kb before ZBBX(-) - 0 2.000000e-02 0 0 2 0 2 1 -8.203412e-02 7.147872e-01 1 18 1 18 1 145902073 166839837 1 145902076 3 166839838 1 12 1 0 3 71 0 16 1 -1 -145902074 -1 -166839838 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 71 19 0 15671640 19 0 22727345 long_range 7055712 18 0 0 0 26_samples:0 15671391 15671643 253 50 22727044 22727355 312 51 CYP4F22 IGR: 52Kb before CYP4F22(+) ZNF492 IGR: 90Kb before ZNF492(+) - 0 0 3.000000e-02 4.000000e-02 1 1 3 1 -5.070055e-01 -4.538841e-01 1 18 1 18 1 15671643 22727355 1 15671640 -3 22727345 -10 17 1 0 2 78 0 25 1 -1 -15671644 -1 -22727356 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 49 3 1 158680189 3 0 166021993 long_range 7341797 23 0 0 0 26_samples:0 158680204 158680445 242 49 166021665 166022001 337 70 IQCJ IGR: 107Kb before IQCJ(+) BCHE IGR: 467Kb after BCHE(-) - 0 0 0 0 7 0 4 0 -6.348091e-01 5.770922e-01 7.627500e-01 1.754325e+01 1 1.754325e+01 1 158680204 166022001 1 158680189 -15 166021993 -8 11 8.685758e-01 1 0 83 0 20 1 -1 -158680205 -1 -166022002 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 73 2 0 57736361 2 0 57751382 inversion 15163 17 0 0 0 26_samples:0 57735958 57736227 270 55 57751170 57751390 221 48 VRK2 IGR: 538Kb before VRK2(+) VRK2 IGR: 522Kb before VRK2(+) - 0 0 1.000000e-02 0 2 2 3 1 -2.413984e-01 -6.132483e-01 1 17 1 17 1 57736227 57751390 1 57736361 134 57751382 -8 3 8.224635e-01 0 1 71 1 C 19 1 -1 -57736228 -1 -57751391 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 74 3 1 145882159 3 0 161847921 long_range 15965768 17 0 0 0 26_samples:0 145882154 145882486 333 61 161847516 161847922 407 75 PLOD2 Promoter of PLOD2(-): 3Kb from tx start OTOL1 IGR: 633Kb before OTOL1(+) - 0 0 0 1.000000e-02 2 1 3 0 7.733014e-02 8.210300e-01 1 17 1 17 1 145882154 161847922 1 145882159 5 161847921 -1 19 9.906056e-01 1 1 78 0 30 1 -1 -145882155 -1 -161847923 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 75 3 0 156286979 3 0 160358687 long_range 4071776 17 0 0 0 26_samples:0 156286592 156286914 323 58 160358287 160358690 404 74 SSR3 IGR: 28Kb before SSR3(-) ARL14 IGR: 36Kb before ARL14(+) - 3.000000e-02 4.000000e-02 0 0 2 2 2 1 -8.203412e-02 7.679086e-01 1 17 1 17 1 156286914 160358690 1 156286979 65 160358687 -3 20 9.922679e-01 0 2 75 0 29 1 -1 -156286915 -1 -160358691 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 76 19 1 17708185 19 0 22723765 long_range 5015572 17 0 0 0 26_samples:0 17708184 17708507 324 53 22723500 22723756 257 77 UNC13A IGR: 4Kb before UNC13A(-) ZNF492 IGR: 93Kb before ZNF492(+) - 9.000000e-02 1.300000e-01 0 0 3 2 2 0 -3.476412e-01 9.272729e-01 1 17 1 17 1 17708184 22723756 1 17708185 1 22723765 9 20 9.822213e-01 1 0 69 0 32 1 -1 -17708185 -1 -22723757 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 47 3 1 181598085 3 0 182288065 tandem_dup 689978 24 0 0 0 26_samples:0 181598092 181598621 530 79 182287906 182288070 165 24 SOX2 IGR: 168Kb before SOX2(+) ATP11B IGR: 223Kb before ATP11B(+) - 0 3.000000e-02 0 0 6 1 7 0 1.096478e+00 -2.077549e+00 7.063610e-01 1.695267e+01 1 1.695267e+01 1 181598092 182288070 1 181598085 -7 182288065 -5 20 9.282420e-01 1 1 72 0 72 1 -1 -181598093 -1 -182288071 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 51 3 0 163809313 3 0 164202827 inversion 393431 22 0 0 0 26_samples:0 163809115 163809314 200 28 164202465 164202745 281 46 SI IGR: 887Kb before SI(-) SI IGR: 494Kb before SI(-) - 0 0 0 0 7 1 3 3 -1.846710e+00 -8.079379e-01 7.602227e-01 1.672490e+01 1 1.672490e+01 1 163809314 164202745 1 163809313 -1 164202827 82 6 8.768212e-01 0 0 73 1 A 21 1 -1 -163809315 -1 -164202746 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 77 2 1 39814271 2 1 39815957 inversion 1706 16 0 0 0 26_samples:0 39814270 39814594 325 68 39815976 39816239 264 63 TMEM178 IGR: 78Kb before TMEM178(+) TMEM178 IGR: 77Kb before TMEM178(+) - 0 2.000000e-02 3.000000e-02 4.000000e-02 1 1 2 1 4.491801e-01 1.835730e-01 1 16 1 16 1 39814270 39815976 1 39814271 1 39815957 -19 6 9.977925e-01 1 3 63 0 17 1 -1 -39814271 -1 -39815977 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 80 3 1 164067270 3 0 164091898 tandem_dup 24633 16 0 0 0 26_samples:0 164067266 164067423 158 28 164091603 164091899 297 55 SI IGR: 629Kb before SI(-) SI IGR: 605Kb before SI(-) - 1.000000e-02 0 0 0 4 0 1 0 -1.675677e+00 -2.413984e-01 1 16 1 16 1 164067266 164091899 1 164067270 4 164091898 -1 14 9.784925e-01 1 3 75 0 23 1 -1 -164067267 -1 -164091900 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 81 3 1 156271129 17 0 21216741 inter_chr NaN 16 0 0 0 26_samples:0 156271132 156271536 405 64 21216465 21216732 268 57 SSR3 Intron of SSR3(-): 312bp after exon 2 MAP2K3 Intron of MAP2K3(+): 72bp before exon 11 Antisense fusion 0 0 0 0 2 1 4 1 2.366944e-01 -1.351555e-01 1 16 1 16 1 156271132 21216732 1 156271129 -3 21216741 9 17 9.961621e-01 1 1 68 0 30 1 -1 -156271133 -1 -21216733 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 82 19 0 17811238 19 0 24509681 long_range 6698419 16 0 0 0 26_samples:0 17810961 17811244 284 59 24509392 24509663 272 48 MAP1S IGR: 19Kb before MAP1S(+) LOC100101266 IGR: 165Kb before LOC100101266(-) - 4.000000e-02 4.000000e-02 4.000000e-02 2.000000e-02 2 1 4 1 -2.891270e-02 -6.132483e-01 1 16 1 16 1 17811244 24509663 1 17811238 -6 24509681 18 20 9.936891e-01 0 1 73 0 29 1 -1 -17811245 -1 -24509664 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 79 3 1 160161513 3 1 163206323 long_range 3044816 16 0 0 0 26_samples:0 160161508 160161807 300 62 163206324 163206652 329 65 TRIM59 5'-UTR of TRIM59(-): 5Kb before coding start SI IGR: 1Mb before SI(-) - 3.000000e-02 1.700000e-01 1.000000e-02 4.000000e-02 4 2 5 2 1.304516e-01 2.898158e-01 9.846154e-01 1.575385e+01 1 1.575385e+01 1 160161508 163206324 1 160161513 5 163206323 -1 14 9.409447e-01 1 3 67 0 20 1 -1 -160161509 -1 -163206325 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 78 3 1 153384592 3 1 191708522 long_range 38323931 16 0 0 0 26_samples:0 153384590 153384943 354 74 191708521 191708950 430 84 C3orf79 IGR: 182Kb before C3orf79(+) FGF12 IGR: 151Kb before FGF12(-) - 0 0 1.000000e-02 0 2 0 1 1 7.679086e-01 1.299123e+00 9.739338e-01 1.558294e+01 1 1.558294e+01 1 153384590 191708521 1 153384592 2 191708522 1 15 9.755260e-01 1 0 70 0 16 1 -1 -153384591 -1 -191708522 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 59 13 1 63756323 13 1 63842957 inversion 86646 21 0 0 0 26_samples:0 63756323 63756680 358 82 63842969 63843403 435 82 OR7E156P IGR: 555Kb before OR7E156P(+) OR7E156P IGR: 469Kb before OR7E156P(+) - 8.000000e-02 8.000000e-02 0 2.000000e-02 4 2 7 2 1.269607e+00 1.269607e+00 7.288424e-01 1.530569e+01 1 1.530569e+01 1 63756323 63842969 1 63756323 0 63842957 -12 20 9.452132e-01 1 1 66 0 64 1 -1 -63756324 -1 -63842970 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 83 2 1 51793266 3 1 178598655 inter_chr NaN 15 0 0 0 26_samples:0 51793267 51793541 275 49 178598662 178598943 282 55 NRXN1 IGR: 2Mb before NRXN1(-) KCNMB2 IGR: 36Kb after KCNMB2(+) - 0 0 0 0 1 1 3 0 -5.601269e-01 -2.413984e-01 1 15 1 15 1 51793267 178598662 1 51793266 -1 178598655 -7 7 9.876812e-01 1 1 70 0 10 1 -1 -51793268 -1 -178598663 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 88 3 1 156385865 3 1 168404006 long_range 12018145 14 0 0 0 26_samples:0 156385858 156386188 331 79 168404003 168404314 312 68 LOC100287227 IGR: 5Kb before LOC100287227(-) NCRNA00259 5'-UTR of NCRNA00259(+): 144Kb before coding start - 0 0 0 3.000000e-02 1 1 3 1 9.912577e-01 4.430308e-01 1 14 1 14 1 156385858 168404003 1 156385865 7 168404006 3 4 1 1 8 77 0 12 1 -1 -156385859 -1 -168404004 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 89 19 1 19779652 19 0 21558299 long_range 1778643 14 0 0 0 26_samples:0 19779649 19780024 376 85 21558026 21558292 267 62 ZNF101 Promoter of ZNF101(+): 14bp from tx start ZNF738 5'-UTR of ZNF738(+): 13Kb before coding start Transcript fusion (ZNF738-ZNF101) 0 0 2.000000e-02 2.000000e-02 1 1 1 1 1.290291e+00 1.439979e-01 9.761217e-01 1.366570e+01 1 1.366570e+01 1 19779649 21558292 1 19779652 3 21558299 7 14 9.745414e-01 1 2 63 0 21 1 -1 -19779650 -1 -21558293 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 44 3 1 154968818 3 0 191028251 long_range 36059417 25 0 0 0 26_samples:0 154968825 154969107 283 49 191027944 191028242 299 51 MME IGR: 171Kb before MME(+) UTS2D 5'-UTR of UTS2D(-): 28Kb before coding start - 0 0 8.000000e-02 2.100000e-01 3 0 8 6 -6.348091e-01 -5.193900e-01 5.275825e-01 1.318956e+01 1 1.318956e+01 1 154968825 191028242 1 154968818 -7 191028251 9 10 1 1 2 74 0 16 1 -1 -154968826 -1 -191028243 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 93 19 1 19777527 19 1 20433426 inversion 655896 13 0 0 0 26_samples:0 19777549 19777810 262 56 20433445 20433702 258 59 ZNF101 Promoter of ZNF101(+): 2Kb from tx start LOC284441 IGR: 63Kb after LOC284441(+) - 3.000000e-02 1.400000e-01 6.000000e-02 3.000000e-02 4 1 1 0 -1.550349e-01 -5.518504e-03 1 13 1 13 1 19777549 20433445 1 19777527 -22 20433426 -19 14 9.763800e-01 1 1 69 0 18 1 -1 -19777550 -1 -20433446 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 67 2 0 83464896 13 1 61461069 inter_chr NaN 18 0 0 0 26_samples:0 83464604 83464860 257 47 61461065 61461437 373 65 LOC1720 IGR: 381Kb before LOC1720(+) TDRD3 IGR: 490Kb before TDRD3(+) - 0 0 0 0 1 0 7 1 -6.663698e-01 2.898158e-01 7.032967e-01 1.265934e+01 1 1.265934e+01 1 83464860 61461065 1 83464896 36 61461069 4 9 9.775883e-01 0 3 76 0 13 1 -1 -83464861 -1 -61461066 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 95 2 0 173592994 11 1 56104280 inter_chr NaN 12 0 0 0 26_samples:0 173592863 173592994 132 15 56104280 56104355 76 10 LOC91149 3'-UTR of LOC91149(-): 8Kb after coding stop OR8K1 IGR: 9Kb before OR8K1(+) - 0 0 0 0 3 2 2 1 -2.198426e+00 -2.447620e+00 1 12 1 12 1 173592994 56104280 1 173592907 -87 56104268 -12 2 8.267302e-01 0 1 76 1 C 7 1 -1 -173592995 -1 -56104281 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-43-3394 101 3 1 146093751 3 0 166809500 long_range 20715693 12 0 0 0 26_samples:0 146093804 146094130 327 63 166809230 166809497 268 50 PLSCR2 IGR: 57Kb before PLSCR2(-) ZBBX IGR: 149Kb before ZBBX(-) - 0 0 0 0 1 1 2 0 1.938367e-01 -4.540678e-01 1 12 1 12 1 146093804 166809497 1 146093751 -53 166809500 3 14 1.000001e+00 1 1 73 0 17 1 -1 -146093805 -1 -166809498 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 102 3 0 146640066 3 1 161847992 long_range 15207915 12 0 0 0 26_samples:0 146639805 146640072 268 59 161847987 161848281 295 58 PLSCR5 IGR: 336Kb before PLSCR5(-) OTOL1 IGR: 633Kb before OTOL1(+) - 0 0 0 2.000000e-02 4 0 1 0 -5.518504e-03 -5.535732e-02 1 12 1 12 1 146640072 161847987 1 146640066 -6 161847992 5 18 9.941899e-01 0 1 81 0 24 1 -1 -146640073 -1 -161847988 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 103 19 1 14880398 19 0 20440539 long_range 5560115 12 0 0 0 26_samples:0 14880424 14880668 245 53 20440185 20440539 355 75 EMR2 Intron of EMR2(-): 3Kb before exon 6 LOC284441 IGR: 72Kb before LOC284441(+) - 4.000000e-02 7.000000e-02 0 0 3 3 4 2 -3.045514e-01 7.919025e-01 1 12 1 12 1 14880424 20440539 1 14880398 -26 20440539 0 6 1 1 2 77 0 12 1 -1 -14880425 -1 -20440540 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 96 3 0 153403907 3 1 167446612 long_range 14042715 12 0 0 0 26_samples:0 153403655 153403908 254 70 167446623 167446940 318 71 C3orf79 IGR: 202Kb before C3orf79(+) PDCD10 5'-UTR of PDCD10(-): 9Kb before coding start - 5.000000e-02 1.400000e-01 0 0 2 2 5 0 5.427084e-01 5.925472e-01 9.846154e-01 1.181538e+01 1 1.181538e+01 1 153403908 167446623 1 153403907 -1 167446612 -11 16 9.779906e-01 0 1 70 0 36 1 -1 -153403909 -1 -167446624 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 97 3 1 166011003 3 1 181627025 long_range 15615915 12 0 0 0 26_samples:0 166011105 166011288 184 24 181627020 181627159 140 11 BCHE IGR: 456Kb after BCHE(-) SOX2 IGR: 197Kb before SOX2(+) - 1.000000e-02 0 0 0 5 1 3 1 -1.749877e+00 -2.397781e+00 9.846154e-01 1.181538e+01 1 1.181538e+01 1 166011105 181627020 1 166011003 -102 181627025 5 20 8.667625e-01 1 1 77 0 33 1 166010901 -204 181627043 23 2 7.845799e-01 1 4 75 0 0 1 Inf LUSC-43-3394 107 3 0 156514992 3 1 191906841 long_range 35391928 11 0 0 0 26_samples:0 156514670 156514965 296 61 191906893 191907104 212 35 PA2G4P4 IGR: 12Kb before PA2G4P4(-) FGF12 Intron of FGF12(-): 18Kb before exon 5 - 0 0 0 0 2 2 1 0 1.035574e-01 -1.110489e+00 1 11 1 11 1 156514965 191906893 1 156514992 27 191906841 -52 7 9.855926e-01 0 3 76 0 25 1 -1 -156514966 -1 -191906894 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 108 3 1 164131381 3 0 164202744 tandem_dup 71256 11 0 0 0 26_samples:0 164131376 164131495 120 12 164202386 164202632 247 51 SI IGR: 565Kb before SI(-) SI IGR: 494Kb before SI(-) - 1.000000e-02 0 0 0 3 1 3 3 -2.184454e+00 -3.633836e-01 1 11 1 11 1 164131376 164202632 1 164131381 5 164202744 112 20 8.931853e-01 1 1 70 0 49 1 -1 -164131377 -1 -164202633 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 111 19 0 20200797 23 1 11952665 inter_chr NaN 11 0 0 0 26_samples:0 20200550 20200783 234 58 11952659 11952950 292 72 ZNF90 Intron of ZNF90(+): 12Kb after exon 1 MSL3 IGR: 175Kb before MSL3(+) - 9.000000e-02 4.000000e-02 0 0 1 3 1 0 -3.652488e-02 6.171926e-01 1 11 1 11 1 20200783 11952659 1 20200797 14 11952665 6 16 9.994832e-01 0 2 67 0 22 1 -1 -20200784 -1 -11952660 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 99 3 1 181598085 3 1 182372272 inversion 774187 12 0 0 0 26_samples:0 181598085 181598349 265 48 182372272 182372376 105 12 SOX2 IGR: 168Kb before SOX2(+) ATP11B IGR: 139Kb before ATP11B(+) - 0 3.000000e-02 0 0 6 1 5 0 -5.537454e-01 -2.347943e+00 8.752137e-01 1.050256e+01 1 1.050256e+01 1 181598085 182372272 1 -1 -181598086 -1 -182372273 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -181598086 -1 -182372273 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-43-3394 105 2 0 63088295 2 0 63095744 inversion 7437 11 0 0 0 26_samples:0 63088106 63088293 188 41 63095439 63095730 292 56 EHBP1 Intron of EHBP1(+): 2Kb after exon 8 EHBP1 Intron of EHBP1(+): 4Kb after exon 9 Antisense fusion 6.000000e-02 3.100000e-01 3.000000e-02 0 1 4 3 2 -8.303247e-01 -1.299131e-01 9.455371e-01 1.040091e+01 1 1.040091e+01 1 63088293 63095730 1 63088295 2 63095744 14 5 8.935534e-01 0 0 78 11 AAAAAAATACC 15 1 -1 -63088294 -1 -63095731 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 33 3 1 164088810 3 1 181627157 long_range 17538403 31 0 0 0 26_samples:0 164088814 164088957 144 33 181627217 181627404 188 22 SI IGR: 608Kb before SI(-) SOX2 IGR: 197Kb before SOX2(+) - 0 0 2.000000e-02 4.000000e-02 9 0 7 1 -1.788232e+00 -2.502203e+00 3.232009e-01 1.001923e+01 1 1.001923e+01 1 164088814 181627217 1 164088810 -4 181627157 -60 16 8.944122e-01 1 0 75 19 AGACCATTTGCCTATTTTA 72 1 164088613 -201 181627027 -190 1 7.501279e-01 1 2 84 6 CCTATA 1 1 72 LUSC-43-3394 115 2 1 176944438 10 1 134749067 inter_chr NaN 10 0 0 0 26_samples:0 176944494 176944668 175 24 134749092 134749240 149 22 EVX2 IGR: 343bp before EVX2(-) C10orf93 Intron of C10orf93(-): 726bp before exon 8 - 0 0 1.600000e-01 1.200000e-01 2 0 1 0 -1.624124e+00 -1.717513e+00 1 10 1 10 1 176944494 134749092 1 176944438 -56 134749067 -25 6 9.722196e-01 1 0 70 0 23 1 176944582 88 134749026 -66 1 7.686515e-01 1 1 67 0 34 1 6.764706e-01 LUSC-43-3394 116 3 0 178522720 3 0 178534609 inversion 11847 10 0 0 0 26_samples:0 178522474 178522718 245 51 178534371 178534565 195 45 KCNMB2 5'-UTR of KCNMB2(+): 2Kb before coding start KCNMB2 Intron of KCNMB2(+): 9Kb before exon 3 Antisense fusion 0 0 0 0 3 1 3 0 -3.633836e-01 -6.435483e-01 1 10 1 10 1 178522718 178534565 1 178522720 2 178534609 44 11 9.784912e-01 0 0 74 0 32 1 -1 -178522719 -1 -178534566 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 117 3 0 180788122 3 0 183222892 long_range 2434760 10 0 0 0 26_samples:0 180787948 180788102 155 20 183222505 183222862 358 74 DNAJC19 IGR: 83Kb before DNAJC19(-) KLHL6 Intron of KLHL6(-): 3Kb after exon 3 - 1.000000e-02 1.000000e-02 1.000000e-02 2.000000e-02 4 1 2 1 -1.810901e+00 7.105808e-01 1 10 1 10 1 180788102 183222862 1 180788122 20 183222892 30 3 9.285132e-01 0 1 80 51 CAGTGGAATTCAGTATGCATATTCTGTATGTAAGACCACCTTCTCAATGAG 65 1 -1 -180788103 -1 -183222863 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 34 3 0 157675121 19 0 28716919 inter_chr NaN 30 0 0 0 26_samples:0 157674543 157675127 585 96 28716583 28716924 342 64 SHOX2 IGR: 139Kb before SHOX2(-) LOC148189 IGR: 436Kb before LOC148189(-) - 1.000000e-02 0 1.000000e-02 0 3 0 1 1 2.300874e+00 2.238679e-01 3.123598e-01 9.370793e+00 1 9.370793e+00 1 157675127 28716924 1 157675121 -6 28716919 -5 20 9.957040e-01 0 3 68 0 65 1 -1 -157675128 -1 -28716925 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 119 2 0 134238785 2 1 134265910 deletion 27125 9 0 0 0 26_samples:0 134238551 134238785 235 54 134265910 134266185 276 59 NCKAP5 Intron of NCKAP5(-): 36Kb after exon 3 NCKAP5 Intron of NCKAP5(-): 9Kb after exon 3 Deletion within intron 0 0 0 0 2 0 1 0 -1.832022e-01 3.832756e-02 1 9 1 9 1 134238785 134265910 1 -1 -134238786 -1 -134265911 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -134238786 -1 -134265911 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-43-3394 124 7 0 150749203 7 1 150763297 deletion 14146 9 0 0 0 26_samples:0 150748889 150749177 289 74 150763323 150763590 268 80 ACCN3 Intron of ACCN3(+): 28bp after exon 8 SLC4A2 Intron of SLC4A2(+): 281bp before exon 6 Protein fusion: out of frame (ACCN3-SLC4A2) 0 0 0 0 2 1 1 0 7.029169e-01 9.687526e-01 1 9 1 9 1 150749177 150763323 1 150749203 26 150763297 -26 12 9.608249e-01 0 2 78 0 20 1 -1 -150749178 -1 -150763324 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 125 11 1 26106063 11 0 26745577 tandem_dup 639468 9 0 0 0 26_samples:0 26106084 26106320 237 45 26745296 26745552 257 54 ANO3 IGR: 248Kb before ANO3(+) SLC5A12 Promoter of SLC5A12(-): 2Kb from tx start - 0 0 0 0 1 2 1 0 -5.819558e-01 -1.832022e-01 1 9 1 9 1 26106084 26745552 1 26106063 -21 26745577 25 15 9.936323e-01 1 3 65 0 16 1 -1 -26106085 -1 -26745553 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 126 14 0 66751600 14 1 66806019 deletion 54407 9 0 0 0 26_samples:0 66751350 66751601 252 61 66806008 66806272 265 71 NCRNA00238 IGR: 202Kb before NCRNA00238(+) NCRNA00238 IGR: 147Kb before NCRNA00238(+) - 0 0 0 0 1 1 1 1 1.269395e-01 5.699990e-01 1 9 1 9 1 66751601 66806008 1 66751600 -1 66806019 11 9 1 0 3 74 0 11 1 -1 -66751602 -1 -66806009 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 128 20 1 30628477 20 0 30791571 tandem_dup 162971 9 0 0 0 26_samples:0 30628591 30628703 113 7 30791308 30791562 255 49 HCK IGR: 11Kb before HCK(+) PLAGL2 5'-UTR of PLAGL2(-): 2Kb before coding start - 0 0 0 0 2 0 1 1 -2.265582e+00 -4.047320e-01 1 9 1 9 1 30628591 30791562 1 30628477 -114 30791571 9 3 9.594242e-01 1 1 71 19 GGATGAGGCTCTGGCCTGG 16 1 -1 -30628592 -1 -30791563 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 122 3 0 182374500 3 1 182431862 deletion 57453 9 0 0 0 26_samples:0 182374360 182374499 140 15 182431952 182432241 290 54 ATP11B IGR: 137Kb before ATP11B(+) ATP11B IGR: 79Kb before ATP11B(+) - 0 0 0 0 5 0 3 1 -1.911134e+00 -1.832022e-01 9.846154e-01 8.861538e+00 1 8.861538e+00 1 182374499 182431952 1 182374500 1 182431862 -90 20 9.809801e-01 0 4 61 0 95 1 -1 -182374500 -1 -182431953 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 123 7 0 110385835 7 1 110665764 deletion 279931 9 0 0 0 26_samples:0 110385556 110385832 277 63 110665763 110666020 258 53 IMMP2L Intron of IMMP2L(-): 82Kb before exon 6 IMMP2L Intron of IMMP2L(-): 62Kb before exon 4 Deletion of 2 exons: out of frame 1.400000e-01 7.000000e-02 0 0 5 1 2 0 2.155514e-01 -2.275082e-01 9.846154e-01 8.861538e+00 1 8.861538e+00 1 110385832 110665763 1 110385835 3 110665764 1 5 9.390992e-01 0 2 73 6 TTAGAG 8 1 -1 -110385833 -1 -110665764 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 28 2 0 63045357 2 1 63055304 deletion 9967 33 0 0 0 26_samples:0 63045074 63045347 274 55 63055314 63055948 635 98 EHBP1 Intron of EHBP1(+): 8Kb before exon 6 EHBP1 Intron of EHBP1(+): 2Kb after exon 6 Deletion of 1 exon: out of frame 0 0 0 0 1 1 3 1 -3.602901e-01 2.430687e+00 2.545549e-01 8.400311e+00 1 8.400311e+00 1 63045347 63055314 1 63045357 10 63055304 -10 11 9.607743e-01 0 0 77 9 TAGTACTAA 24 1 -1 -63045348 -1 -63055315 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 57 3 0 164071954 3 0 164088956 inversion 17096 21 0 0 0 26_samples:0 164071720 164071861 142 14 164088811 164088957 147 13 SI IGR: 625Kb before SI(-) SI IGR: 608Kb before SI(-) - 0 0 0 0 4 0 9 0 -2.654645e+00 -2.712354e+00 3.874522e-01 8.136496e+00 1 8.136496e+00 1 164071861 164088957 1 164071954 93 164088956 -1 11 9.704475e-01 0 4 82 0 47 1 -1 -164071862 -1 -164088958 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 130 2 1 167649560 2 0 167651302 tandem_dup 1753 8 0 0 0 26_samples:0 167649551 167649808 258 58 167651021 167651304 284 66 XIRP2 IGR: 110Kb before XIRP2(+) XIRP2 IGR: 109Kb before XIRP2(+) - 1.000000e-02 2.000000e-02 0 3.000000e-02 0 0 0 2 -5.978398e-03 3.484692e-01 1 8 1 8 1 167649551 167651304 1 167649560 9 167651302 -2 12 9.957534e-01 1 0 62 0 16 1 -1 -167649552 -1 -167651305 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 133 7 1 38722704 7 1 38733058 inversion 10354 8 0 0 0 26_samples:0 38722704 38722986 283 77 38733058 38733280 223 51 FAM183B IGR: 2Kb before FAM183B(-) FAM183B IGR: 6Kb after FAM183B(-) - 0 0 0 0 1 0 2 1 8.358347e-01 -3.161201e-01 1 8 1 8 1 38722704 38733058 1 38722678 -26 38733041 -17 1 1 1 3 71 0 8 1 -1 -38722705 -1 -38733059 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-43-3394 134 17 1 20886354 17 1 22027610 long_range 1141135 8 0 0 0 26_samples:0 20886467 20886695 229 60 22027602 22027751 150 27 USP22 IGR: 16Kb before USP22(-) FLJ36000 IGR: 124Kb before FLJ36000(+) - 0 0 0 0 1 0 1 1 8.263351e-02 -1.379463e+00 1 8 1 8 1 20886467 22027602 1 20886354 -113 22027610 8 8 9.537951e-01 1 1 75 0 11 1 -1 -20886468 -1 -22027603 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 109 3 0 181628020 3 1 182287899 deletion 659879 11 0 0 0 26_samples:0 181627841 181628020 180 32 182287899 182288058 160 22 SOX2 IGR: 198Kb before SOX2(+) ATP11B IGR: 223Kb before ATP11B(+) - 1.000000e-02 0 0 0 3 1 7 0 -1.250572e+00 -1.717513e+00 7.032967e-01 7.736264e+00 1 7.736264e+00 1 181628020 182287899 1 -1 -181628021 -1 -182287900 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -181628021 -1 -182287900 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-43-3394 94 24 0 14555239 24 1 14573271 deletion 18035 13 0 0 0 26_samples:0 14554926 14555240 315 85 14573275 14573650 376 97 GYG2P1 IGR: 37Kb before GYG2P1(-) GYG2P1 IGR: 55Kb before GYG2P1(-) - 0 3.000000e-02 1.100000e-01 1.600000e-01 2 0 3 2 1.290291e+00 1.888356e+00 5.738279e-01 7.459763e+00 1 7.459763e+00 1 14555240 14573275 1 14555239 -1 14573271 -4 12 9.261385e-01 0 0 73 3 AAT 24 1 -1 -14555241 -1 -14573276 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 84 3 0 181628270 3 1 182431430 deletion 803214 15 0 0 0 26_samples:0 181628160 181628276 117 15 182431490 182431732 243 58 SOX2 IGR: 199Kb before SOX2(+) ATP11B IGR: 80Kb before ATP11B(+) - 0 3.000000e-02 0 0 7 1 7 0 -2.366255e+00 -8.203412e-02 4.946263e-01 7.419394e+00 1 7.419394e+00 1 181628276 182431490 1 181628270 -6 182431430 -60 20 9.514014e-01 0 2 75 21 AGGGCGTGGTGGTTCATGCCA 78 1 -1 -181628277 -1 -182431491 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 136 3 0 146317440 3 1 190964154 long_range 44646842 7 0 0 0 26_samples:0 146317158 146317317 160 35 190964159 190964369 211 47 PLSCR5 Intron of PLSCR5(-): 758bp after exon 2 OSTN Intron of OSTN(+): 4Kb before exon 3 - 0 0 2.000000e-02 5.000000e-02 2 2 3 1 -8.834800e-01 -4.065809e-01 1 7 1 7 1 146317317 190964159 1 146317440 123 190964154 -5 11 9.972320e-01 0 2 66 0 32 1 -1 -146317318 -1 -190964160 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 140 6 0 66118949 12 1 60839767 inter_chr NaN 7 0 0 0 26_samples:0 66118660 66118900 241 55 60839761 60840048 288 65 EYS Intron of EYS(-): 4Kb before exon 5 SLC16A7 IGR: 757Kb before SLC16A7(+) - 0 0 0 0 2 1 1 0 -8.864809e-02 3.087679e-01 1 7 1 7 1 66118900 60839761 1 66118949 49 60839767 6 4 1 0 1 77 0 5 1 -1 -66118901 -1 -60839762 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 144 12 1 38084473 12 1 38938073 inversion 853571 7 0 0 0 26_samples:0 38084502 38084741 240 47 38938073 38938302 230 42 ALG10B IGR: 626Kb before ALG10B(+) CPNE8 IGR: 108Kb before CPNE8(-) - 3.000000e-02 9.000000e-02 0 0 4 2 2 0 -4.065809e-01 -6.052888e-01 1 7 1 7 1 38084502 38938073 1 38084473 -29 38938073 0 5 9.655856e-01 1 2 71 0 12 1 -1 -38084503 -1 -38938074 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 145 12 0 41938931 16 1 29652822 inter_chr NaN 7 0 0 0 26_samples:0 41938744 41938906 163 29 29652860 29653072 213 37 PDZRN4 Intron of PDZRN4(+): 8Kb before exon 4 SPN IGR: 21Kb before SPN(+) - 1.000000e-02 0 3.000000e-02 0 1 0 1 1 -1.121930e+00 -8.039968e-01 1 7 1 7 1 41938906 29652860 1 41938931 25 29652822 -38 5 9.943601e-01 0 4 72 0 12 1 -1 -41938907 -1 -29652861 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 147 19 1 4149913 19 0 4155624 tandem_dup 5711 7 0 0 0 26_samples:0 4149913 4150136 224 71 4155369 4155624 256 75 CREB3L3 IGR: 4Kb before CREB3L3(+) CREB3L3 Intron of CREB3L3(+): 600bp after exon 2 - 0 0 8.000000e-02 8.000000e-02 3 0 2 1 5.472174e-01 7.061838e-01 1 7 1 7 1 4149913 4155624 1 4149903 -10 4155637 13 1 8.297947e-01 1 0 68 20 TCTGGGTGTCTGTCTGGGTG 15 1 -1 -4149914 -1 -4155625 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-43-3394 137 3 0 181627969 3 0 182372380 inversion 744411 7 0 0 0 26_samples:0 181627814 181627969 156 19 182372273 182372380 108 4 SOX2 IGR: 198Kb before SOX2(+) ATP11B IGR: 139Kb before ATP11B(+) - 1.000000e-02 0 0 0 3 1 5 0 -1.519346e+00 -2.115469e+00 9.846154e-01 6.892308e+00 1 6.892308e+00 1 181627969 182372380 1 -1 -181627970 -1 -182372381 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -181627970 -1 -182372381 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-43-3394 148 20 0 15078714 20 1 15241022 deletion 162319 7 0 0 0 26_samples:0 15078391 15078699 309 74 15241018 15241350 333 90 MACROD2 Intron of MACROD2(+): 132Kb before exon 6 MACROD2 Intron of MACROD2(+): 30Kb after exon 6 Deletion of 1 exon: out of frame 0 0 0 0 2 1 3 0 6.664422e-01 1.302308e+00 9.731149e-01 6.811804e+00 1 6.811804e+00 1 15078699 15241018 1 15078714 15 15241022 4 2 9.764021e-01 0 2 74 0 5 1 -1 -15078700 -1 -15241019 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 85 19 0 19777364 19 1 24331231 long_range 4553861 15 0 0 0 26_samples:0 19777058 19777367 310 76 24331228 24331672 445 98 ZNF101 Promoter of ZNF101(+): 2Kb from tx start LOC100101266 IGR: 14Kb before LOC100101266(-) - 8.000000e-02 2.800000e-01 1.500000e-01 1.300000e-01 5 0 5 3 8.741515e-01 2.042823e+00 4.478368e-01 6.717552e+00 1 6.717552e+00 1 19777367 24331228 1 19777364 -3 24331231 3 9 9.702420e-01 0 0 72 0 15 1 -1 -19777368 -1 -24331229 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 127 19 1 19777054 19 1 22701800 long_range 2924744 9 0 0 0 26_samples:0 19777050 19777349 300 85 22701794 22702120 327 94 ATP13A1 Promoter of ATP13A1(-): 3Kb from tx start ZNF492 IGR: 115Kb before ZNF492(+) - 8.000000e-02 2.800000e-01 3.000000e-02 3.000000e-02 5 0 6 1 1.190282e+00 1.589036e+00 7.114783e-01 6.403305e+00 1 6.403305e+00 1 19777050 22701794 1 19777054 4 22701800 6 11 9.698573e-01 1 2 79 0 15 1 -1 -19777051 -1 -22701795 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 120 3 0 164071951 3 1 181627157 long_range 17555206 9 0 0 0 26_samples:0 164071782 164071951 170 34 181627157 181627325 169 37 SI IGR: 625Kb before SI(-) SOX2 IGR: 197Kb before SOX2(+) - 0 0 0 2.000000e-02 4 0 7 1 -1.069321e+00 -9.364034e-01 7.032967e-01 6.329670e+00 1 6.329670e+00 1 164071951 181627157 1 -1 -164071952 -1 -181627158 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -164071952 -1 -181627158 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-43-3394 112 1 0 105502977 1 1 116980400 long_range 11477430 10 0 0 0 26_samples:0 105502695 105502977 283 59 116980407 116980685 279 60 AMY1B IGR: 1Mb before AMY1B(+) C1orf203 IGR: 32Kb before C1orf203(-) - 0 0 0 0 3 2 7 6 1.016922e-02 5.686333e-02 6.251526e-01 6.251526e+00 1 6.251526e+00 1 105502977 116980407 1 105502977 0 116980400 -7 12 9.991057e-01 0 2 68 0 15 1 -1 -105502978 -1 -116980408 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 156 2 1 62583911 8 1 43694296 inter_chr NaN 6 0 0 0 26_samples:0 62583913 62584054 142 16 43694403 43694542 140 26 TMEM17 IGR: 143Kb before TMEM17(-) POTEA IGR: 476Kb after POTEA(+) - 0 0 2.000000e-02 2.000000e-02 2 1 2 0 -1.638570e+00 -1.241154e+00 1 6 1 6 1 62583913 43694403 1 62583911 -2 43694296 -107 9 1 1 1 76 0 13 1 62583562 -351 43694547 144 1 7.940699e-01 1 0 70 17 ATTTATTTATTTTAAAG 4 1 3.250000e+00 LUSC-43-3394 157 3 1 164088111 3 0 164091898 tandem_dup 3787 6 0 0 0 26_samples:0 164088111 164088289 179 37 164091724 164091898 175 38 SI IGR: 609Kb before SI(-) SI IGR: 605Kb before SI(-) - 0 0 0 0 4 0 1 0 -8.039968e-01 -7.642552e-01 1 6 1 6 1 164088111 164091898 1 164087754 -357 164092123 225 2 8.289702e-01 1 9 69 0 20 1 -1 -164088112 -1 -164091899 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-43-3394 161 5 0 46143623 9 0 105894778 inter_chr NaN 6 0 0 0 26_samples:0 46143437 46143623 187 36 105894548 105894778 231 48 HCN1 IGR: 447Kb after HCN1(-) CYLC2 IGR: 137Kb before CYLC2(+) - 0 0 2.000000e-02 0 2 2 1 0 -8.437384e-01 -3.668393e-01 1 6 1 6 1 46143623 105894778 1 46143638 15 105894790 12 2 8.494501e-01 0 2 76 0 9 1 46143844 221 105895129 351 1 8.186670e-01 0 0 78 12 TTGGTTCTTTAG 8 0 1.125000e+00 LUSC-43-3394 162 6 0 162822843 6 1 162826302 deletion 3500 6 0 0 0 26_samples:0 162822609 162822832 224 51 162826332 162826535 204 39 PARK2 Intron of PARK2(-): 42Kb after exon 2 PARK2 Intron of PARK2(-): 38Kb after exon 2 Deletion within intron 3.000000e-02 0 0 0 1 2 0 2 -2.476145e-01 -7.245136e-01 1 6 1 6 1 162822832 162826332 1 162822843 11 162826302 -30 7 9.456077e-01 0 0 74 1 A 9 1 -1 -162822833 -1 -162826333 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 164 7 1 133771269 7 0 134151202 tandem_dup 379927 6 0 0 0 26_samples:0 133771278 133771522 245 52 134150969 134151205 237 50 LRGUK IGR: 41Kb before LRGUK(+) AKR1B1 IGR: 7Kb after AKR1B1(-) - 2.000000e-02 1.300000e-01 0 0 1 1 2 0 -2.078729e-01 -2.873561e-01 1 6 1 6 1 133771278 134151205 1 133771269 -9 134151202 -3 2 9.651021e-01 1 0 78 7 TTTCTTT 6 1 133770927 -351 134151131 -74 2 7.701344e-01 1 0 82 2 CG 10 1 6.000000e-01 LUSC-43-3394 165 8 0 93409491 24 1 23951425 inter_chr NaN 6 0 0 0 26_samples:0 93409373 93409491 119 16 23951425 23951642 218 56 RUNX1T1 IGR: 438Kb before RUNX1T1(-) RBMY1A1 IGR: 75Kb before RBMY1A1(-) - 4.000000e-02 8.000000e-02 3.000000e-02 8.000000e-02 3 1 4 4 -1.638570e+00 -4.890650e-02 1 6 1 6 1 93409491 23951425 1 93409640 149 23951428 3 18 8.855241e-01 0 0 69 0 31 1 93409640 149 23951428 3 10 8.832699e-01 0 0 69 0 26 -1 1.192308e+00 LUSC-43-3394 168 12 1 42356826 15 1 60752280 inter_chr NaN 6 0 0 0 26_samples:0 42356824 42357071 248 76 60752290 60752571 282 75 GXYLT1 IGR: 119Kb before GXYLT1(-) NARG2 Intron of NARG2(-): 3Kb before exon 6 - 0 0 0 3.000000e-02 2 0 2 0 7.459254e-01 7.061838e-01 1 6 1 6 1 42356824 60752290 1 42356826 2 60752280 -10 4 8.267243e-01 1 2 75 0 7 1 -1 -42356825 -1 -60752291 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 169 12 1 38401409 20 1 60601544 inter_chr NaN 6 0 0 0 26_samples:0 38401435 38401616 182 37 60601552 60601763 212 70 ALG10B IGR: 309Kb before ALG10B(+) TAF4 Intron of TAF4(-): 12Kb before exon 2 - 0 0 0 0 1 0 2 0 -8.039968e-01 5.074758e-01 1 6 1 6 1 38401435 60601552 1 38401409 -26 60601544 -8 6 9.662364e-01 1 1 72 0 14 1 -1 -38401436 -1 -60601553 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 170 16 1 10242620 16 0 10254839 tandem_dup 12172 6 0 0 0 26_samples:0 10242634 10242819 186 48 10254551 10254806 256 57 GRIN2A Intron of GRIN2A(-): 31Kb after exon 2 GRIN2A Intron of GRIN2A(-): 19Kb after exon 2 Duplication within intron 0 0 0 0 2 1 2 1 -3.668393e-01 -9.164905e-03 1 6 1 6 1 10242634 10254806 1 10242620 -14 10254839 33 3 8.070549e-01 1 1 67 52 CTTGGACAATTAAACACAATTTAATCATTCTTACTCATCCTTTAAGTAAGGA 15 1 -1 -10242635 -1 -10254807 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 172 17 1 39869767 17 0 39915448 tandem_dup 45526 6 0 0 0 26_samples:0 39869926 39870046 121 11 39915237 39915452 216 54 GAST 5'-UTR of GAST(+): 2Kb before coding start JUP Intron of JUP(-): 330bp before exon 9 - 1.000000e-02 2.000000e-02 4.000000e-02 8.000000e-02 3 0 3 2 -1.837278e+00 -1.283897e-01 1 6 1 6 1 39869926 39915452 1 39869767 -159 39915448 -4 13 9.883452e-01 1 4 76 0 30 1 -1 -39869927 -1 -39915453 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 173 18 1 19051872 18 1 19065515 inversion 13643 6 0 0 0 26_samples:0 19051872 19052112 241 58 19065515 19065753 239 57 GREB1L Intron of GREB1L(+): 1Kb before exon 16 GREB1L Intron of GREB1L(+): 66bp before exon 18 - 0 3.000000e-02 0 0 2 0 2 0 3.057669e-02 -9.164905e-03 1 6 1 6 1 19051872 19065515 1 -1 -19051873 -1 -19065516 -1 -1 -1 -1 -1 -1 failed 0 1 19052011 139 19065654 139 1 8.065305e-01 1 1 75 0 3 0 0 LUSC-43-3394 121 3 0 166017472 3 1 181628160 long_range 15610791 9 0 0 0 26_samples:0 166017107 166017367 261 57 181628158 181628271 114 7 BCHE IGR: 462Kb after BCHE(-) SOX2 IGR: 198Kb before SOX2(+) - 1.000000e-02 0 0 3.000000e-02 6 0 7 1 -5.028435e-02 -2.265582e+00 6.251526e-01 5.626374e+00 1 5.626374e+00 1 166017367 181628158 1 166017472 105 181628160 2 7 8.934430e-01 0 1 74 1 G 59 1 -1 -166017368 -1 -181628159 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 154 2 1 178133243 2 0 179148599 long_range 1015236 6 0 0 0 26_samples:0 178133263 178133501 239 53 179148164 179148499 336 93 NFE2L2 IGR: 3Kb after NFE2L2(-) OSBPL6 5'-UTR of OSBPL6(+): 22Kb before coding start - 1.000000e-02 2.000000e-02 1.000000e-02 2.000000e-02 3 0 1 0 -1.681313e-01 1.421533e+00 9.303174e-01 5.581904e+00 1 5.581904e+00 1 178133263 179148499 1 178133243 -20 179148599 100 4 9.851927e-01 1 3 75 0 15 1 178132910 -353 179148799 300 1 8.002388e-01 1 2 70 1 A 6 1 2.500000e+00 LUSC-43-3394 178 1 0 167462475 11 1 70511863 inter_chr NaN 5 0 0 0 26_samples:0 167462176 167462299 124 30 70511861 70511975 115 27 CD247 Intron of CD247(-): 25Kb after exon 1 SHANK2 Intron of SHANK2(-): 4Kb before exon 13 Protein fusion: out of frame (SHANK2-CD247) 7.000000e-02 9.000000e-02 0 0 4 2 3 1 -9.952350e-01 -1.108170e+00 1 5 1 5 1 167462299 70511861 1 167462475 176 70511863 2 10 9.975136e-01 0 2 69 0 19 1 167462547 248 70511507 -354 3 8.289946e-01 0 5 97 0 16 1 1.187500e+00 LUSC-43-3394 180 2 1 55809344 5 1 53634468 inter_chr NaN 5 0 0 0 26_samples:0 55809408 55809595 188 51 53634477 53634663 187 51 SMEK2 Intron of SMEK2(-): 574bp before exon 8 ARL15 IGR: 28Kb after ARL15(-) - 0 0 0 0 2 0 3 1 -2.046928e-01 -2.046928e-01 1 5 1 5 1 55809408 53634477 1 55809344 -64 53634468 -9 4 9.949196e-01 1 1 71 0 9 1 55809551 143 53634126 -351 1 8.001279e-01 1 0 74 13 TTTTTGGCTCCAT 3 1 3 LUSC-43-3394 183 2 1 83464946 13 1 61460459 inter_chr NaN 5 0 0 0 26_samples:0 83464946 83465184 239 51 61460459 61460766 308 81 LOC1720 IGR: 381Kb before LOC1720(+) TDRD3 IGR: 489Kb before TDRD3(+) - 0 0 0 0 2 1 3 0 -2.046928e-01 9.246533e-01 1 5 1 5 1 83464946 61460459 1 -1 -83464947 -1 -61460460 -1 -1 -1 -1 -1 -1 failed 0 1 83464590 -356 61460506 47 2 9.080662e-01 1 5 75 0 5 0 0 LUSC-43-3394 184 2 1 136540705 18 0 6565553 inter_chr NaN 5 0 0 0 26_samples:0 136540705 136540888 184 66 6565372 6565553 182 39 UBXN4 3'-UTR of UBXN4(+): 248bp after coding stop ARHGAP28 IGR: 269Kb before ARHGAP28(+) - 0 0 4.000000e-02 2.000000e-02 1 0 1 1 3.599803e-01 -6.564312e-01 1 5 1 5 1 136540705 6565553 1 136540696 -9 6565618 65 1 9.316380e-01 1 2 80 5 TTTTT 5 1 136540791 86 6565904 351 1 8.518472e-01 1 1 71 27 GTGTGAGTATGCATGCATGTGGGTAAA 11 0 4.545455e-01 LUSC-43-3394 187 3 0 153068219 3 0 158258219 long_range 5190028 5 0 0 0 26_samples:0 153067976 153068194 219 48 158258004 158258222 219 57 C3orf79 IGR: 134Kb before C3orf79(+) RSRC1 Intron of RSRC1(+): 3Kb before exon 9 - 2.000000e-02 4.000000e-02 0 0 2 2 3 0 -3.176274e-01 2.117647e-02 1 5 1 5 1 153068194 158258222 1 153068219 25 158258219 -3 7 9.907848e-01 0 1 81 0 11 1 153068081 -113 158258577 355 3 8.598446e-01 0 5 64 0 6 1 1.833333e+00 LUSC-43-3394 194 4 1 65146193 22 1 29065924 inter_chr NaN 5 0 0 0 26_samples:0 65146239 65146401 163 23 29065946 29066121 176 61 TECRL Intron of TECRL(-): 322bp before exon 12 TTC28 Intron of TTC28(-): 10Kb after exon 1 Antisense fusion 0 0 0 0 2 0 2 1 -1.258749e+00 1.717559e-01 1 5 1 5 1 65146239 29065946 1 65146193 -46 29065924 -22 9 1 1 2 78 0 9 1 -1 -65146240 -1 -29065947 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 196 6 0 108900688 6 1 108987706 deletion 87120 5 0 0 0 26_samples:0 108900458 108900683 226 57 108987803 108987959 157 45 FOXO3 Intron of FOXO3(+): 18Kb after exon 1 FOXO3 3'-UTR of FOXO3(+): 2Kb after coding stop - 0 0 0 7.000000e-02 1 0 1 2 2.117647e-02 -4.305620e-01 1 5 1 5 1 108900683 108987803 1 108900688 5 108987706 -97 2 9.999999e-01 0 2 64 0 8 1 -1 -108900684 -1 -108987804 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 201 7 1 16306280 7 0 16657260 tandem_dup 350980 5 0 0 0 26_samples:0 16306280 16306554 275 68 16657014 16657260 247 57 ISPD Intron of ISPD(-): 8Kb before exon 6 ANKMY2 Intron of ANKMY2(-): 2Kb before exon 5 Protein fusion: out of frame (ISPD-ANKMY2) 3.000000e-02 0 0 0 3 0 3 0 4.352700e-01 2.117647e-02 1 5 1 5 1 16306280 16657260 1 16306165 -115 16657611 351 8 8.643655e-01 1 0 125 3 ACG 26 1 16306165 -115 16657611 351 6 8.712690e-01 1 0 125 3 ACG 17 0 1.529412e+00 LUSC-43-3394 205 9 1 92070134 9 0 93412466 long_range 1342285 5 0 0 0 26_samples:0 92070159 92070344 186 43 93412209 93412444 236 64 SEMA4D 5'-UTR of SEMA4D(-): 50Kb before coding start DIRAS2 IGR: 7Kb after DIRAS2(-) - 0 0 0 0 1 0 1 1 -5.058517e-01 2.846906e-01 1 5 1 5 1 92070159 93412444 1 92070134 -25 93412466 22 5 9.923470e-01 1 2 69 0 11 1 -1 -92070160 -1 -93412445 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 209 10 0 21803748 16 1 7608840 inter_chr NaN 5 0 0 0 26_samples:0 21803455 21803699 245 56 7608852 7609041 190 33 C10orf140 3'-UTR of C10orf140(-): 326bp after coding stop A2BP1 Intron of A2BP1(+): 21Kb before exon 6 - 0 0 0 0 2 0 1 0 -1.646840e-02 -8.823004e-01 1 5 1 5 1 21803699 7608852 1 21803748 49 7608840 -12 2 9.462650e-01 0 1 68 0 5 1 -1 -21803700 -1 -7608853 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 216 18 0 37317868 18 0 37375375 inversion 57523 5 0 0 0 26_samples:0 37317624 37317847 224 48 37375173 37375370 198 39 LOC647946 3'-UTR of LOC647946(-): 14Kb after coding stop LOC647946 IGR: 43Kb after LOC647946(-) - 0 0 0 0 2 2 1 0 -3.176274e-01 -6.564312e-01 1 5 1 5 1 37317847 37375370 1 37317868 21 37375375 5 7 9.632972e-01 0 1 74 8 CTACAACT 16 1 -1 -37317848 -1 -37375371 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 220 23 1 92463394 23 0 92855507 tandem_dup 392105 5 0 0 0 26_samples:0 92463402 92463670 269 69 92855224 92855507 284 71 NAP1L3 IGR: 463Kb before NAP1L3(-) NAP1L3 IGR: 70Kb before NAP1L3(-) - 0 0 5.000000e-02 0 1 0 1 0 4.729149e-01 5.482046e-01 1 5 1 5 1 92463402 92855507 1 92463394 -8 92855507 0 8 9.825876e-01 1 0 96 0 9 1 -1 -92463403 -1 -92855508 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 195 5 0 141218386 5 1 141253258 deletion 34866 5 0 0 0 26_samples:0 141218094 141218390 297 87 141253256 141253551 296 74 PCDH1 IGR: 14Kb before PCDH1(-) PCDH1 Intron of PCDH1(-): 4Kb before exon 2 - 0 0 3.000000e-02 0 2 0 2 1 1.150523e+00 6.611393e-01 9.966012e-01 4.983006e+00 1 4.983006e+00 1 141218390 141253256 1 141218386 -4 141253258 2 5 9.748359e-01 0 0 78 0 8 1 -1 -141218391 -1 -141253257 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 217 19 0 14483374 19 1 23205223 long_range 8721952 5 0 0 0 26_samples:0 14483192 14483341 150 30 23205293 23205474 182 34 CD97 IGR: 9Kb before CD97(+) ZNF99 IGR: 266Kb before ZNF99(-) - 3.100000e-01 2.900000e-01 0 0 1 1 4 0 -9.952350e-01 -8.446555e-01 9.219355e-01 4.609678e+00 1 4.609678e+00 1 14483341 23205293 1 14483374 33 23205223 -70 11 9.725374e-01 0 3 79 0 15 1 -1 -14483342 -1 -23205294 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 30 6 0 66020382 12 0 42743841 inter_chr NaN 32 0 0 0 26_samples:0 66020062 66020379 318 70 42743583 42743836 254 64 EYS Intron of EYS(-): 14Kb before exon 12 PPHLN1 Intron of PPHLN1(+): 2Kb before exon 3 Protein fusion: out of frame (PPHLN1-EYS) 3.000000e-02 7.000000e-02 2.500000e-01 5.800000e-01 7 1 9 2 6.133067e-01 2.238679e-01 1.355277e-01 4.336887e+00 1 4.336887e+00 1 66020379 42743836 1 66020382 3 42743841 5 20 9.447712e-01 0 0 65 0 51 1 -1 -66020380 -1 -42743837 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 35 19 1 22724279 19 0 24340657 long_range 1616390 30 0 0 0 26_samples:0 22724273 22724661 389 71 24340032 24340663 632 104 ZNF492 IGR: 93Kb before ZNF492(+) LOC100101266 IGR: 4Kb before LOC100101266(-) - 0 0 0 2.000000e-02 2 1 1 1 6.782131e-01 2.820126e+00 1.422511e-01 4.267534e+00 1 4.267534e+00 1 22724273 24340663 1 22724279 6 24340657 -6 20 1 1 3 69 0 33 1 -1 -22724274 -1 -24340664 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 174 19 0 19012231 19 0 19013567 inversion 1389 6 0 0 0 26_samples:0 19012004 19012230 227 50 19013314 19013619 306 79 COPE Intron of COPE(-): 972bp before exon 8 COPE Intron of COPE(-): 458bp after exon 7 - 0 0 2.200000e-01 1.100000e-01 3 0 5 7 -2.873561e-01 8.651502e-01 6.924768e-01 4.154861e+00 1 4.154861e+00 1 19012230 19013619 1 19012231 1 19013567 -52 3 9.115738e-01 0 0 49 0 11 1 -1 -19012231 -1 -19013620 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 221 1 1 17694566 1 0 17851873 tandem_dup 157307 4 0 0 0 26_samples:0 17694566 17694700 135 41 17851697 17851873 177 46 PADI6 IGR: 4Kb before PADI6(+) ARHGEF10L IGR: 14Kb before ARHGEF10L(+) - 0 0 0 0 1 0 1 0 -4.883957e-01 -3.168495e-01 1 4 1 4 1 17694566 17851873 1 17694739 173 17852223 350 4 7.790562e-01 1 0 96 1 G 10 1 17694739 173 17852226 353 3 7.868790e-01 1 2 96 0 10 0 1 LUSC-43-3394 227 1 1 206862585 18 1 37296846 inter_chr NaN 4 0 0 0 26_samples:0 206862585 206862782 198 48 37296846 37297018 173 34 MAPKAPK2 Intron of MAPKAPK2(+): 4Kb after exon 1 LOC647946 3'-UTR of LOC647946(-): 35Kb after coding stop - 0 0 0 2.000000e-02 2 1 2 1 -2.482311e-01 -7.285604e-01 1 4 1 4 1 206862585 37296846 1 206862550 -35 37296846 0 1 1.000001e+00 1 3 71 0 6 1 -1 -206862586 -1 -37296847 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-43-3394 229 2 1 1595358 2 0 2446362 tandem_dup 851004 4 0 0 0 26_samples:0 1595358 1595507 150 36 2446210 2446362 153 28 PXDN IGR: 40Kb before PXDN(-) LOC730811 IGR: 123Kb before LOC730811(+) - 0 0 0 0 1 0 1 1 -6.599419e-01 -9.344158e-01 1 4 1 4 1 1595358 2446362 1 -1 -1595359 -1 -2446363 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -1595359 -1 -2446363 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-43-3394 232 2 0 61479797 2 1 61639392 deletion 159653 4 0 0 0 26_samples:0 61479537 61479742 206 48 61639395 61639621 227 52 USP34 Intron of USP34(-): 4Kb after exon 48 USP34 Intron of USP34(-): 6Kb before exon 3 Deletion of 46 exons: in frame 0 0 0 0 2 0 2 1 -2.482311e-01 -1.109941e-01 1 4 1 4 1 61479742 61639395 1 61479797 55 61639392 -3 4 9.845467e-01 0 2 75 0 6 1 -1 -61479743 -1 -61639396 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 236 2 1 176945272 10 0 134749268 inter_chr NaN 4 0 0 0 26_samples:0 176945276 176945507 232 75 134749095 134749254 160 26 EVX2 Exon 3 of EVX2(-) C10orf93 Intron of C10orf93(-): 888bp before exon 8 Protein fusion: mid-exon (EVX2-C10orf93) 0 0 1.600000e-01 1.200000e-01 1 1 2 0 6.781183e-01 -1.003034e+00 1 4 1 4 1 176945276 134749254 1 176945272 -4 134749268 14 2 9.890547e-01 1 2 67 0 54 1 -1 -176945277 -1 -134749255 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 237 2 1 50194835 13 0 61460634 inter_chr NaN 4 0 0 0 26_samples:0 50194835 50194960 126 12 61460465 61460634 170 31 NRXN1 Intron of NRXN1(-): 24Kb before exon 23 TDRD3 IGR: 489Kb before TDRD3(+) - 0 0 0 0 1 0 3 0 -1.483364e+00 -8.314881e-01 1 4 1 4 1 50194835 61460634 1 50194756 -79 61460676 42 1 1 1 5 78 0 10 1 50194790 -45 61460800 166 1 8.172724e-01 1 0 78 0 3 0 3.333333e+00 LUSC-43-3394 241 3 1 164076039 3 0 182442262 long_range 18366031 4 0 0 0 26_samples:0 164076055 164076127 73 13 182441927 182442086 160 26 SI IGR: 621Kb before SI(-) ATP11B IGR: 69Kb before ATP11B(+) - 0 0 0 0 3 0 3 0 -1.449054e+00 -1.003034e+00 1 4 1 4 1 164076055 182442086 1 164076039 -16 182442262 176 20 9.177609e-01 1 1 74 0 117 1 -1 -164076056 -1 -182442087 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 267 6 1 36548341 16 0 3142037 inter_chr NaN 4 0 0 0 26_samples:0 36548348 36548592 245 73 3141790 3142028 239 58 SFRS3 IGR: 14Kb before SFRS3(+) ZSCAN10 Intron of ZSCAN10(-): 22bp after exon 2 - 3.000000e-02 1.700000e-01 0 0 4 2 2 1 6.094998e-01 9.486128e-02 1 4 1 4 1 36548348 3142028 1 36548341 -7 3142037 9 3 9.550444e-01 1 0 78 0 12 1 -1 -36548349 -1 -3142029 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 283 10 0 26309091 10 1 26337446 deletion 28355 4 0 0 0 26_samples:0 26308881 26309091 211 49 26337446 26337676 231 60 MYO3A Intron of MYO3A(+): 1Kb before exon 8 MYO3A Intron of MYO3A(+): 18Kb before exon 11 Deletion of 3 exons: out of frame 0 0 0 0 1 0 1 1 -2.139218e-01 1.634798e-01 1 4 1 4 1 26309091 26337446 1 26309119 28 26337418 -28 6 7.853815e-01 0 0 76 0 12 1 26309238 147 26337092 -354 3 8.646728e-01 0 4 75 0 5 0 2.400000e+00 LUSC-43-3394 288 11 1 84838723 11 0 84845832 tandem_dup 6985 4 0 0 0 26_samples:0 84838812 84839030 219 53 84845641 84845797 157 26 DLG2 Intron of DLG2(-): 16Kb before exon 6 DLG2 Intron of DLG2(-): 20Kb after exon 5 Duplication within intron 0 0 0 0 0 1 1 1 -7.668490e-02 -1.003034e+00 1 4 1 4 1 84838812 84845797 1 84838723 -89 84845832 35 2 9.940994e-01 1 1 65 0 6 1 -1 -84838813 -1 -84845798 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 293 12 0 38910340 12 0 38940301 inversion 29986 4 0 0 0 26_samples:0 38910116 38910310 195 45 38940107 38940296 190 40 CPNE8 IGR: 136Kb before CPNE8(-) CPNE8 IGR: 106Kb before CPNE8(-) - 0 0 1.000000e-02 0 2 0 1 0 -3.511588e-01 -5.227050e-01 1 4 1 4 1 38910310 38940296 1 38910340 30 38940301 5 2 9.892459e-01 0 0 74 0 17 1 -1 -38910311 -1 -38940297 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3394 294 12 1 66310855 12 1 66797827 inversion 486972 4 0 0 0 26_samples:0 66310855 66311126 272 84 66797827 66798029 203 43 HMGA2 Intron of HMGA2(+): 34Kb before exon 4 GRIP1 Intron of GRIP1(-): 2Kb after exon 15 Protein fusion: out of frame (GRIP1-HMGA2) 0 0 0 0 2 1 1 2 9.869014e-01 -4.197773e-01 1 4 1 4 1 66310855 66797827 1 66310821 -34 66797831 4 1 9.619993e-01 1 0 67 14 TTGAAGCATCTTCA 6 1 -1 -66310856 -1 -66797828 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-43-3920 2 4 0 77033488 4 0 77036909 inversion 3425 64 0 0 0 26_samples:0 77033177 77033493 317 63 77036600 77036918 319 61 ART3 Intron of ART3(+): 46bp before exon 10 NUP54 Intron of NUP54(-): 271bp before exon 12 Protein fusion: out of frame (ART3-NUP54) 0 0 0 0 3 0 1 0 1.467156e-01 -2.444337e-04 1 64 1 64 1 77033493 77036918 1 77033488 -5 77036909 -9 20 9.989550e-01 0 2 80 0 76 1 -1 -77033494 -1 -77036919 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 3 2 0 126269056 19 1 3657936 inter_chr NaN 49 0 0 0 26_samples:0 126268885 126269060 176 28 3657942 3658273 332 53 GYPC IGR: 1Mb before GYPC(+) PIP5K1C Intron of PIP5K1C(-): 1Kb before exon 6 - 0 0 0 0 3 0 2 0 -2.425084e+00 -5.880844e-01 1 49 1 49 1 126269060 3657942 1 126269056 -4 3657936 -6 20 9.801102e-01 0 2 65 0 77 1 126268914 -146 3657736 -206 1 7.836866e-01 0 6 81 0 3 1 2.566667e+01 LUSC-43-3920 4 2 1 126268888 19 1 3656539 inter_chr NaN 47 0 0 0 26_samples:0 126268878 126269052 175 26 3656539 3656851 313 53 GYPC IGR: 1Mb before GYPC(+) PIP5K1C Exon 6 of PIP5K1C(-) - 0 0 0 0 3 0 2 0 -2.572044e+00 -5.880844e-01 1 47 1 47 1 126268878 3656539 1 126268888 10 3656539 0 20 9.962536e-01 1 0 68 0 65 1 -1 -126268879 -1 -3656540 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 5 19 0 3750253 19 0 3759382 inversion 9120 45 0 0 0 26_samples:0 3749935 3750262 328 61 3759030 3759382 353 63 TJP3 Intron of TJP3(+): 80bp after exon 19 APBA3 Intron of APBA3(-): 177bp after exon 3 Protein fusion: out of frame (TJP3-APBA3) 0 0 1.000000e-02 3.000000e-02 2 0 1 1 -2.444337e-04 1.467156e-01 1 45 1 45 1 3750262 3759382 1 3750253 -9 3759382 0 20 9.993699e-01 0 0 72 0 66 1 -1 -3750263 -1 -3759383 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 8 4 0 59401985 4 1 64908404 long_range 5506417 40 0 0 0 26_samples:0 59401670 59401983 314 61 64908400 64908722 323 61 IGFBP7 IGR: 2Mb before IGFBP7(-) TECRL IGR: 236Kb before TECRL(-) - 1.000000e-02 0 4.000000e-02 3.000000e-02 6 0 5 1 -2.444337e-04 -2.444337e-04 9.393384e-01 3.757354e+01 1 3.757354e+01 1 59401983 64908400 1 59401985 2 64908404 4 20 9.937561e-01 0 1 78 0 36 1 -1 -59401984 -1 -64908401 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 9 17 0 66842168 17 1 67528265 deletion 686083 39 0 0 0 26_samples:0 66841841 66842180 340 68 67528263 67528612 350 73 ABCA8 IGR: 21Kb before ABCA8(-) MAP2K6 Intron of MAP2K6(+): 4Kb before exon 11 - 2.000000e-02 3.000000e-02 0 0 6 2 4 0 5.141156e-01 8.815156e-01 9.420724e-01 3.674082e+01 1 3.674082e+01 1 66842180 67528263 1 66842168 -12 67528265 2 20 9.979407e-01 0 3 69 0 40 1 -1 -66842181 -1 -67528264 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 10 1 0 98059552 17 0 73792869 inter_chr NaN 36 0 0 0 26_samples:0 98059086 98059547 462 73 73792423 73792873 451 74 DPYD Intron of DPYD(-): 604bp before exon 10 UNK Intron of UNK(+): 12Kb after exon 2 Protein fusion: out of frame (UNK-DPYD) 0 0 0 0 4 1 3 0 8.815156e-01 9.549956e-01 1 36 1 36 1 98059547 73792873 1 98059552 5 73792869 -4 20 8.685908e-01 0 4 76 0 49 1 -1 -98059548 -1 -73792874 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 12 4 0 63941364 20 0 17982617 inter_chr NaN 35 0 0 0 26_samples:0 63940986 63941371 386 66 17982255 17982622 368 73 TECRL IGR: 1Mb before TECRL(-) OVOL2 IGR: 22Kb before OVOL2(-) - 1.000000e-02 0 0 0 4 0 4 0 3.671556e-01 8.815156e-01 1 35 1 35 1 63941371 17982622 1 63941364 -7 17982617 -5 20 9.869512e-01 0 2 84 0 30 1 -1 -63941372 -1 -17982623 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 14 7 0 140662731 7 0 149894127 long_range 9231371 33 0 0 0 26_samples:0 140662464 140662736 273 60 149893830 149894107 278 56 MRPS33 IGR: 43Kb before MRPS33(-) ACTR3C IGR: 50Kb before ACTR3C(-) - 0 3.000000e-02 1.500000e-01 6.000000e-02 3 0 2 0 -7.372443e-02 -3.676444e-01 1 33 1 33 1 140662736 149894107 1 140662731 -5 149894127 20 20 9.918176e-01 0 1 78 0 34 1 -1 -140662737 -1 -149894108 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 15 17 1 68857726 17 0 73429790 long_range 4572065 33 0 0 0 26_samples:0 68857732 68858036 305 45 73429512 73429797 286 54 KCNJ2 IGR: 692Kb before KCNJ2(+) KIAA0195 IGR: 23Kb before KIAA0195(+) - 1.000000e-02 0 0 0 3 0 4 1 -1.175924e+00 -5.146044e-01 1 33 1 33 1 68857732 73429797 1 68857726 -6 73429790 -7 15 9.948379e-01 1 0 68 0 39 1 68857804 72 73430006 209 1 7.714773e-01 1 8 73 0 4 1 9.750000e+00 LUSC-43-3920 16 1 0 3197046 6 1 168535946 inter_chr NaN 32 0 0 0 26_samples:0 3196753 3197051 299 65 168535950 168536253 304 63 PRDM16 Intron of PRDM16(+): 36Kb after exon 3 FRMD1 IGR: 56Kb after FRMD1(-) - 0 0 0 0 2 0 3 1 2.936756e-01 1.467156e-01 1 32 1 32 1 3197051 168535950 1 3197046 -5 168535946 -4 17 9.924750e-01 0 2 67 0 28 1 -1 -3197052 -1 -168535951 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 19 1 1 12483539 1 0 96556308 long_range 84072765 31 0 0 0 26_samples:0 12483545 12483837 293 61 96555952 96556310 359 62 VPS13D Intron of VPS13D(+): 7Kb after exon 65 PTBP2 IGR: 631Kb before PTBP2(+) - 0 0 0 0 3 0 3 0 -2.444337e-04 7.323557e-02 1 31 1 31 1 12483545 96556310 1 12483539 -6 96556308 -2 20 9.915161e-01 1 2 69 0 37 1 12483431 -114 96556511 201 1 7.727683e-01 1 0 75 1 C 3 1 1.233333e+01 LUSC-43-3920 21 4 1 58456242 20 0 16115684 inter_chr NaN 31 0 0 0 26_samples:0 58456240 58456534 295 65 16115383 16115693 311 69 IGFBP7 IGR: 480Kb after IGFBP7(-) KIF16B IGR: 137Kb before KIF16B(-) - 0 0 0 0 2 1 4 1 2.936756e-01 5.875956e-01 1 31 1 31 1 58456240 16115693 1 58456242 2 16115684 -9 20 9.726594e-01 1 1 74 0 44 1 -1 -58456241 -1 -16115694 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 22 7 0 35945796 7 1 40338741 long_range 4392938 31 0 0 0 26_samples:0 35945432 35945798 367 64 40338736 40339119 384 66 SEPT7 IGR: 883bp after SEPT7(+) C7orf10 Intron of C7orf10(+): 18Kb before exon 9 - 0 0 0 0 3 1 4 0 2.201956e-01 3.671556e-01 1 31 1 31 1 35945798 40338736 1 35945796 -2 40338741 5 20 9.958114e-01 0 3 72 0 33 1 -1 -35945799 -1 -40338737 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 23 1 0 239940640 1 1 240287258 deletion 346642 30 0 0 0 26_samples:0 239940270 239940620 351 55 240287262 240287610 349 70 CHRM3 5'-UTR of CHRM3(+): 130Kb before coding start FMN2 Intron of FMN2(+): 617bp after exon 2 Transcript fusion (CHRM3-FMN2) 1.000000e-02 0 0 0 4 1 2 0 -4.411244e-01 6.610756e-01 1 30 1 30 1 239940620 240287262 1 239940640 20 240287258 -4 20 9.757981e-01 0 1 67 0 31 1 -1 -239940621 -1 -240287263 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 24 1 0 223553029 1 1 223554629 deletion 1597 29 0 0 0 26_samples:0 223552741 223553027 287 57 223554624 223554966 343 61 C1orf65 IGR: 14Kb before C1orf65(+) C1orf65 IGR: 12Kb before C1orf65(+) - 0 0 0 0 1 0 1 0 -2.330273e-01 2.585792e-02 1 29 1 29 1 223553027 223554624 1 223553029 2 223554629 5 20 9.498307e-01 0 1 64 0 34 1 -1 -223553028 -1 -223554625 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 27 15 0 91166751 15 1 91173505 deletion 6749 29 0 0 0 26_samples:0 91166368 91166751 384 73 91173500 91173800 301 60 CRTC3 Intron of CRTC3(+): 2Kb before exon 10 CRTC3 Intron of CRTC3(+): 736bp after exon 11 Deletion of 2 exons: out of frame 0 0 0 0 1 2 0 0 8.025135e-01 -3.886337e-02 1 29 1 29 1 91166751 91173500 1 91166751 0 91173505 5 19 9.882520e-01 0 0 76 0 28 1 -1 -91166752 -1 -91173501 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 29 1 1 155569704 1 0 155595461 tandem_dup 25765 28 0 0 0 26_samples:0 155569699 155569959 261 45 155595183 155595464 282 47 MSTO1 IGR: 10Kb before MSTO1(+) MSTO1 IGR: 15Kb before MSTO1(+) - 2.100000e-01 1.500000e-01 1.000000e-02 0 3 1 4 0 -1.009683e+00 -8.802402e-01 1 28 1 28 1 155569699 155595464 1 155569704 5 155595461 -3 14 9.711101e-01 1 1 70 1 T 29 1 -1 -155569700 -1 -155595465 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 30 1 0 185668983 3 1 186374068 inter_chr NaN 28 0 0 0 26_samples:0 185668555 185668989 435 80 186374063 186374376 314 62 HMCN1 IGR: 35Kb before HMCN1(+) FETUB IGR: 3Kb after FETUB(+) - 0 0 0 0 3 0 3 0 1.255563e+00 9.057922e-02 9.835827e-01 2.754031e+01 1 2.754031e+01 1 185668989 186374063 1 185668983 -6 186374068 5 20 9.868181e-01 0 1 77 0 29 1 -1 -185668990 -1 -186374064 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 28 1 1 2908298 1 1 2914265 inversion 5964 28 0 0 0 26_samples:0 2908294 2908745 452 81 2914258 2914602 345 68 ACTRT2 IGR: 30Kb before ACTRT2(+) ACTRT2 IGR: 24Kb before ACTRT2(+) - 0 0 0 0 1 0 3 1 1.320284e+00 4.789070e-01 9.681899e-01 2.710932e+01 1 2.710932e+01 1 2908294 2914258 1 2908298 4 2914265 7 20 9.667572e-01 1 0 73 0 29 1 -1 -2908295 -1 -2914259 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 33 4 1 46386205 4 1 73902884 long_range 27516673 27 0 0 0 26_samples:0 46386213 46386509 297 55 73902886 73903162 277 56 GABRA2 Intron of GABRA2(-): 2Kb after exon 2 COX18 IGR: 18Kb before COX18(-) - 0 0 0 0 3 0 3 0 -3.624699e-01 -2.977486e-01 1 27 1 27 1 46386213 73902886 1 46386205 -8 73902884 -2 20 9.882498e-01 1 2 70 0 35 1 46386084 -129 73902684 -202 1 7.725854e-01 1 1 74 0 3 1 1.166667e+01 LUSC-43-3920 31 7 1 56452531 10 0 43969432 inter_chr NaN 28 0 0 0 26_samples:0 56452546 56452805 260 54 43969174 43969436 263 55 LOC650226 IGR: 39Kb before LOC650226(-) ZNF487 5'-UTR of ZNF487(+): 9Kb before coding start - 2.800000e-01 3.600000e-01 2.000000e-02 0 3 1 4 0 -4.271912e-01 -3.624699e-01 8.775128e-01 2.457036e+01 1 2.457036e+01 1 56452546 43969436 1 56452531 -15 43969432 -4 20 9.927199e-01 1 3 96 0 36 1 -1 -56452547 -1 -43969437 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 40 4 0 58438022 20 1 16279573 inter_chr NaN 24 0 0 0 26_samples:0 58437737 58438020 284 58 16279575 16279842 268 51 IGFBP7 IGR: 461Kb after IGFBP7(-) KIF16B Intron of KIF16B(-): 13Kb after exon 25 - 0 0 0 0 2 0 5 0 -1.683060e-01 -6.213550e-01 9.925267e-01 2.382064e+01 1 2.382064e+01 1 58438020 16279575 1 58438022 2 16279573 -2 17 9.865852e-01 0 1 63 0 23 1 -1 -58438021 -1 -16279576 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 43 4 0 187382105 4 1 187606860 deletion 224736 23 0 0 0 26_samples:0 187381840 187382115 276 51 187606851 187607258 408 69 MTNR1A IGR: 73Kb before MTNR1A(-) FAT1 Intron of FAT1(-): 21Kb after exon 2 - 0 0 0 0 2 1 4 1 -6.213550e-01 5.436283e-01 1 23 1 23 1 187382115 187606851 1 187382105 -10 187606860 9 20 9.989122e-01 0 2 76 0 31 1 -1 -187382116 -1 -187606852 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 46 10 0 85535757 22 0 29066196 inter_chr NaN 23 0 0 0 26_samples:0 85535404 85535755 352 66 29065851 29066188 338 69 GHITM IGR: 363Kb before GHITM(+) TTC28 Intron of TTC28(-): 9Kb after exon 1 - 0 0 0 0 5 0 4 0 3.494644e-01 5.436283e-01 9.922684e-01 2.282217e+01 1 2.282217e+01 1 85535755 29066188 1 85535757 2 29066196 8 15 9.855982e-01 0 1 75 0 25 1 -1 -85535756 -1 -29066189 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 34 8 0 37905379 9 0 21955015 inter_chr NaN 27 0 0 0 26_samples:0 37904915 37905385 471 85 21954717 21955020 304 64 EIF4EBP1 Intron of EIF4EBP1(+): 9Kb before exon 2 C9orf53 IGR: 12Kb before C9orf53(+) - 1.000000e-02 0 4.000000e-02 0 5 1 5 0 1.579169e+00 2.200218e-01 8.260918e-01 2.230448e+01 1 2.230448e+01 1 37905385 21955020 1 37905379 -6 21955015 -5 20 9.898904e-01 0 2 74 0 29 1 -1 -37905386 -1 -21955021 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 38 1 0 20660099 17 1 65582509 inter_chr NaN 24 0 0 0 26_samples:0 20659818 20660107 290 54 65582540 65582841 302 57 VWA5B1 Intron of VWA5B1(+): 663bp after exon 12 PITPNC1 Intron of PITPNC1(+): 8Kb after exon 5 Protein fusion: in frame (VWA5B1-PITPNC1) 1.000000e-02 0 4.000000e-02 7.000000e-02 5 1 6 3 -4.271912e-01 -2.330273e-01 9.169461e-01 2.200671e+01 1 2.200671e+01 1 20660107 65582540 1 20660099 -8 65582509 -31 18 9.639339e-01 0 0 69 0 24 1 -1 -20660108 -1 -65582541 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 49 8 0 90242040 8 1 90275186 deletion 33146 22 0 0 0 26_samples:0 90241828 90242040 213 36 90275186 90275404 219 30 RIPK2 IGR: 528Kb before RIPK2(+) RIPK2 IGR: 495Kb before RIPK2(+) - 3.000000e-02 4.000000e-02 0 0 4 0 4 0 -1.592174e+00 -1.980502e+00 1 22 1 22 1 90242040 90275186 1 -1 -90242041 -1 -90275187 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -90242041 -1 -90275187 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-43-3920 50 9 0 14628127 9 1 14631364 deletion 3237 22 0 0 0 26_samples:0 14627849 14628124 276 55 14631361 14631672 312 57 ZDHHC21 Intron of ZDHHC21(-): 8Kb before exon 9 ZDHHC21 Intron of ZDHHC21(-): 9Kb after exon 8 Deletion within intron 0 0 2.000000e-02 0 2 1 0 0 -3.624699e-01 -2.330273e-01 1 22 1 22 1 14628124 14631361 1 14628127 3 14631364 3 12 9.563234e-01 0 1 77 0 16 1 -1 -14628125 -1 -14631362 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 51 17 0 67530505 17 1 67722764 deletion 192271 22 0 0 0 26_samples:0 67530192 67530504 313 64 67722775 67723055 281 49 MAP2K6 Intron of MAP2K6(+): 2Kb before exon 11 MAP2K6 IGR: 312Kb before MAP2K6(+) - 0 0 0 0 2 0 4 0 2.200218e-01 -7.507976e-01 1 22 1 22 1 67530504 67722775 1 67530505 1 67722764 -11 14 9.784982e-01 0 3 74 0 22 1 67530713 209 67722845 70 3 8.440150e-01 0 8 76 0 12 1 1.833333e+00 LUSC-43-3920 52 23 0 14683207 23 1 14694447 deletion 11243 22 0 0 0 26_samples:0 14682953 14683211 259 44 14694454 14694730 277 47 GLRA2 Intron of GLRA2(+): 26Kb before exon 8 GLRA2 Intron of GLRA2(+): 14Kb before exon 8 Deletion within intron 0 0 0 0 2 0 1 0 -1.074404e+00 -8.802402e-01 1 22 1 22 1 14683211 14694454 1 14683207 -4 14694447 -7 20 9.811269e-01 0 3 64 0 37 1 -1 -14683212 -1 -14694455 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 56 4 0 33234245 4 1 34616843 long_range 1382602 21 0 0 0 26_samples:0 33233980 33234239 260 55 34616841 34617176 336 73 PCDH7 IGR: 3Mb before PCDH7(+) ARAP2 IGR: 1Mb before ARAP2(-) - 0 0 0 0 3 0 3 1 -3.624699e-01 8.025135e-01 1 21 1 21 1 33234239 34616841 1 33234245 6 34616843 2 7 9.754064e-01 0 3 59 0 8 1 -1 -33234240 -1 -34616842 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 57 7 0 149864006 10 1 109547760 inter_chr NaN 21 0 0 0 26_samples:0 149863708 149864004 297 61 109547760 109548033 274 65 ACTR3C IGR: 80Kb before ACTR3C(-) SORCS1 IGR: 1Mb before SORCS1(-) - 2.000000e-02 8.000000e-02 0 0 2 1 2 0 2.585792e-02 2.847431e-01 1 21 1 21 1 149864004 109547760 1 149864006 2 109547760 0 14 9.984431e-01 0 1 75 0 22 1 -1 -149864005 -1 -109547761 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 60 4 1 58476269 4 0 61838086 long_range 3361812 20 0 0 0 26_samples:0 58476270 58476570 301 52 61837803 61838082 280 52 IGFBP7 IGR: 500Kb after IGFBP7(-) LPHN3 IGR: 525Kb before LPHN3(+) - 0 0 3.000000e-02 1.000000e-01 3 0 4 1 -5.566337e-01 -5.566337e-01 1 20 1 20 1 58476270 61838082 1 58476269 -1 61838086 4 15 9.860696e-01 1 0 83 0 19 1 -1 -58476271 -1 -61838083 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 61 7 1 64339718 10 1 108853740 inter_chr NaN 20 0 0 0 26_samples:0 64339707 64339990 284 59 108853746 108854013 268 50 ZNF273 IGR: 24Kb before ZNF273(+) SORCS1 Intron of SORCS1(-): 70Kb after exon 1 - 0 0 0 0 2 1 2 0 -1.035847e-01 -6.860763e-01 1 20 1 20 1 64339707 108853746 1 64339718 11 108853740 -6 18 9.965369e-01 1 3 69 0 23 1 -1 -64339708 -1 -108853747 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 62 17 1 73429545 17 1 73468122 inversion 38577 20 0 0 0 26_samples:0 73429545 73429779 235 53 73468122 73468366 245 47 KIAA0195 IGR: 23Kb before KIAA0195(+) KIAA0195 Intron of KIAA0195(+): 112bp after exon 2 - 0 0 0 0 4 1 4 0 -4.919124e-01 -8.802402e-01 1 20 1 20 1 73429545 73468122 1 73429343 -202 73468059 -63 15 8.051664e-01 1 1 76 0 14 1 73429343 -202 73468059 -63 3 8.032496e-01 1 1 76 0 3 0 4.666667e+00 LUSC-43-3920 63 19 0 2077349 19 1 2118220 deletion 40875 20 0 0 0 26_samples:0 2077062 2077346 285 60 2118221 2118568 348 67 MOBKL2A Intron of MOBKL2A(-): 334bp before exon 4 AP3D1 Intron of AP3D1(-): 379bp after exon 15 Protein fusion: out of frame (AP3D1-MOBKL2A) 0 0 0 0 1 0 2 0 -3.886337e-02 4.141857e-01 1 20 1 20 1 2077346 2118221 1 2077349 3 2118220 -1 20 9.841697e-01 0 3 75 0 31 1 2077269 -77 2118019 -202 6 8.468866e-01 0 8 127 0 15 1 2.066667e+00 LUSC-43-3920 59 2 1 53004389 2 0 57802051 long_range 4797651 20 0 0 0 26_samples:0 53004382 53004657 276 64 57801740 57802033 294 59 ASB3 IGR: 893Kb before ASB3(-) VRK2 IGR: 472Kb before VRK2(+) - 0 0 0 0 5 1 4 0 2.200218e-01 -1.035847e-01 9.914585e-01 1.982917e+01 1 1.982917e+01 1 53004382 57802033 1 53004389 7 57802051 18 20 9.986550e-01 1 2 79 0 29 1 -1 -53004383 -1 -57802034 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 54 4 1 45793036 4 1 68445579 long_range 22652540 21 0 0 0 26_samples:0 45793047 45793357 311 58 68445587 68445940 354 69 GABRG1 IGR: 245Kb before GABRG1(-) STAP1 Intron of STAP1(+): 1Kb before exon 5 - 3.000000e-02 0 0 5.000000e-02 6 1 4 2 -1.683060e-01 5.436283e-01 9.198658e-01 1.931718e+01 1 1.931718e+01 1 45793047 68445587 1 45793036 -11 68445579 -8 20 9.853230e-01 1 3 78 0 27 1 -1 -45793048 -1 -68445588 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 44 6 0 126581330 6 1 126582836 deletion 1496 23 0 0 0 26_samples:0 126580998 126581335 338 71 126582831 126583205 375 85 CENPW IGR: 80Kb before CENPW(+) CENPW IGR: 78Kb before CENPW(+) - 0 0 0 0 3 1 1 0 6.730709e-01 1.579169e+00 8.373284e-01 1.925855e+01 1 1.925855e+01 1 126581335 126582831 1 126581330 -5 126582836 5 20 9.731116e-01 0 4 78 0 35 1 -1 -126581336 -1 -126582832 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 64 17 0 73468366 17 1 74161082 deletion 692710 19 0 0 0 26_samples:0 73468139 73468372 234 39 74161082 74161351 270 57 KIAA0195 Intron of KIAA0195(+): 362bp after exon 2 RNF157 Intron of RNF157(-): 206bp before exon 8 Antisense fusion 0 0 0 0 4 0 4 1 -1.262913e+00 -1.895795e-01 1 19 1 19 1 73468372 74161082 1 73468366 -6 74161082 0 13 9.993790e-01 0 1 64 0 34 1 -1 -73468373 -1 -74161083 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 65 20 0 5751953 20 1 5754996 deletion 3036 19 0 0 0 26_samples:0 5751655 5751958 304 77 5754994 5755294 301 69 C20orf196 5'-UTR of C20orf196(+): 2Kb before coding start C20orf196 Intron of C20orf196(+): 1Kb after exon 2 Deletion within transcript 0 0 0 0 2 0 3 0 1.003014e+00 5.259763e-01 1.000000e+00 1.900000e+01 1 1.900000e+01 1 5751958 5754994 1 5751953 -5 5754996 2 19 9.689584e-01 0 4 79 0 32 1 5752170 212 5755115 121 2 8.125213e-01 0 11 82 0 3 1 1.066667e+01 LUSC-43-3920 66 1 1 36508339 2 0 58290111 inter_chr NaN 18 0 0 0 26_samples:0 36508337 36508599 263 57 58289818 58290107 290 67 EIF2C3 Intron of EIF2C3(+): 711bp before exon 15 VRK2 Intron of VRK2(+): 14Kb after exon 2 Protein fusion: out of frame (VRK2-EIF2C3) 0 0 0 0 2 0 2 0 -1.895795e-01 4.067170e-01 1 18 1 18 1 36508337 58290107 1 36508339 2 58290111 4 20 9.763285e-01 1 2 68 0 33 1 -1 -36508338 -1 -58290108 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 68 4 1 72717351 5 0 49563186 inter_chr NaN 18 0 0 0 26_samples:0 72717434 72717652 219 35 49563020 49563194 175 29 GC IGR: 110Kb before GC(-) EMB IGR: 129Kb before EMB(-) - 1.000000e-02 0 0 0 2 1 4 1 -1.501432e+00 -1.859210e+00 1 18 1 18 1 72717434 49563194 1 72717351 -83 49563186 -8 20 9.988184e-01 1 1 78 0 38 1 -1 -72717435 -1 -49563195 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 69 18 0 63653188 20 1 14318700 inter_chr NaN 18 0 0 0 26_samples:0 63652902 63653197 296 62 14318698 14318976 279 53 CDH7 IGR: 235Kb before CDH7(+) MACROD2 Intron of MACROD2(+): 155Kb before exon 4 - 0 0 2.000000e-02 5.000000e-02 4 2 3 1 1.085688e-01 -4.280981e-01 1 18 1 18 1 63653197 14318698 1 63653188 -9 14318700 2 15 1 0 0 72 0 20 1 -1 -63653198 -1 -14318699 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 70 19 0 11055210 19 0 11057890 inversion 2680 18 0 0 0 26_samples:0 11054961 11055212 252 58 11057627 11057892 266 57 C19orf52 IGR: 16Kb before C19orf52(+) SMARCA4 IGR: 14Kb before SMARCA4(+) - 3.000000e-02 8.000000e-02 2.000000e-02 0 2 2 3 1 -1.299498e-01 -1.895795e-01 1 18 1 18 1 11055212 11057892 1 11055210 -2 11057890 -2 9 9.895020e-01 0 0 69 0 19 1 -1 -11055213 -1 -11057893 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 26 7 1 26749114 7 1 35581436 long_range 8832333 29 0 0 0 26_samples:0 26749116 26749388 273 55 35581449 35581663 215 42 SKAP2 Intron of SKAP2(-): 16Kb after exon 9 HERPUD2 IGR: 91Kb before HERPUD2(-) - 0 3.000000e-02 4.000000e-02 1.200000e-01 7 0 7 1 -3.624699e-01 -1.203847e+00 6.049184e-01 1.754263e+01 1 1.754263e+01 1 26749116 35581449 1 26749114 -2 35581436 -13 8 9.588807e-01 1 2 74 20 TGGGAGGCCAATTCAGGCGG 20 1 -1 -26749117 -1 -35581450 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 6 1 0 143408292 8 0 41136943 inter_chr NaN 41 0 0 0 26_samples:0 143408056 143408248 193 24 41136723 41136938 216 29 LOC100130000 IGR: 279Kb before LOC100130000(+) SFRP1 Intron of SFRP1(-): 14Kb before exon 3 - 4.900000e-01 3.500000e-01 0 0 6 2 7 1 -2.719004e+00 -2.351604e+00 4.206549e-01 1.724685e+01 1 1.724685e+01 1 143408248 41136938 1 143408292 44 41136943 5 20 9.905145e-01 0 3 68 0 40 1 -1 -143408249 -1 -41136939 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 71 1 0 91572085 1 1 95095739 long_range 3523644 17 0 0 0 26_samples:0 91571835 91572091 257 54 95095735 95096029 295 56 HFM1 IGR: 154Kb before HFM1(-) F3 IGR: 101Kb before F3(-) - 1.000000e-02 3.000000e-02 0 0 3 1 4 0 -3.684685e-01 -2.492091e-01 1 17 1 17 1 91572091 95095735 1 91572085 -6 95095739 4 18 9.867650e-01 0 0 65 0 21 1 -1 -91572092 -1 -95095736 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 75 2 1 229488463 9 1 28447908 inter_chr NaN 17 0 0 0 26_samples:0 229488481 229488806 326 60 28447900 28448258 359 59 PID1 IGR: 400Kb before PID1(-) LINGO2 5'-UTR of LINGO2(-): 497Kb before coding start - 0 0 0 0 2 0 3 0 -1.069053e-02 -7.032019e-02 1 17 1 17 1 229488481 28447900 1 229488463 -18 28447908 8 20 9.632112e-01 1 2 71 0 28 1 -1 -229488482 -1 -28447901 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 78 7 1 30088216 7 1 31286815 long_range 1198629 17 0 0 0 26_samples:0 30088213 30088467 255 57 31286842 31287129 288 70 PLEKHA8 Intron of PLEKHA8(+): 627bp before exon 5 NEUROD6 IGR: 90Kb before NEUROD6(-) - 0 0 0 0 4 0 3 0 -1.895795e-01 5.856060e-01 1 17 1 17 1 30088213 31286842 1 30088216 3 31286815 -27 16 1 1 2 74 0 26 1 -1 -30088214 -1 -31286843 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 80 7 1 140713808 10 0 43732377 inter_chr NaN 17 0 0 0 26_samples:0 140713806 140713967 162 18 43732084 43732384 301 50 MRPS33 5'-UTR of MRPS33(-): 3Kb before coding start RASGEF1A 5'-UTR of RASGEF1A(-): 31Kb before coding start Transcript fusion (MRPS33-RASGEF1A) 0 0 0 0 4 0 2 1 -2.515136e+00 -6.069871e-01 1 17 1 17 1 140713806 43732384 1 140713808 2 43732377 -7 19 9.744472e-01 1 1 74 0 23 1 -1 -140713807 -1 -43732385 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 82 22 0 29528746 22 1 29531553 deletion 2828 17 0 0 0 26_samples:0 29528465 29528751 287 53 29531579 29531867 289 53 KREMEN1 Intron of KREMEN1(+): 5Kb before exon 6 KREMEN1 Intron of KREMEN1(+): 2Kb before exon 6 Deletion within intron 0 0 0 0 1 0 2 0 -4.280981e-01 -4.280981e-01 1 17 1 17 1 29528751 29531579 1 29528746 -5 29531553 -26 8 9.517059e-01 0 0 68 0 19 1 -1 -29528752 -1 -29531580 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 76 4 1 44685540 4 1 46133762 long_range 1448216 17 0 0 0 26_samples:0 44685550 44685787 238 48 46133766 46134152 387 77 GUF1 Intron of GUF1(+): 215bp after exon 6 GABRG1 IGR: 8Kb after GABRG1(-) - 0 0 2.000000e-02 0 3 0 2 1 -7.262464e-01 1.003014e+00 1.000000e+00 1.700000e+01 1 1.700000e+01 1 44685550 46133766 1 44685540 -10 46133762 -4 15 9.973409e-01 1 3 70 0 18 1 -1 -44685551 -1 -46133767 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 81 16 0 85631807 16 1 85636554 deletion 4757 17 0 0 0 26_samples:0 85631516 85631798 283 66 85636555 85636915 361 76 KIAA0182 IGR: 13Kb before KIAA0182(+) KIAA0182 IGR: 8Kb before KIAA0182(+) - 8.000000e-02 3.000000e-02 0 0 5 4 3 0 3.470874e-01 9.433839e-01 9.846154e-01 1.673846e+01 1 1.673846e+01 1 85631798 85636555 1 85631807 9 85636554 -1 3 1 0 0 71 0 15 1 -1 -85631799 -1 -85636556 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 84 2 1 37949747 2 0 37982676 tandem_dup 32916 16 0 0 0 26_samples:0 37949750 37950007 258 59 37982394 37982666 273 61 CDC42EP3 IGR: 50Kb after CDC42EP3(-) CDC42EP3 IGR: 112Kb before CDC42EP3(-) - 0 0 1.000000e-02 0 4 0 4 0 -7.032019e-02 4.893912e-02 1 16 1 16 1 37949750 37982666 1 37949747 -3 37982676 10 13 9.713786e-01 1 1 82 0 18 1 -1 -37949751 -1 -37982667 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 85 4 1 169439482 4 0 169566088 tandem_dup 126609 16 0 0 0 26_samples:0 169439478 169439739 262 46 169565795 169566087 293 55 PALLD Intron of PALLD(+): 6Kb after exon 2 PALLD Intron of PALLD(+): 23Kb before exon 3 Duplication within intron 0 0 0 0 3 1 2 2 -8.455057e-01 -3.088388e-01 1 16 1 16 1 169439478 169566087 1 169439482 4 169566088 1 14 9.906507e-01 1 5 67 0 22 1 -1 -169439479 -1 -169566088 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 87 7 0 82717811 7 1 117084457 long_range 34366643 16 0 0 0 26_samples:0 82717537 82717813 277 54 117084456 117084838 383 68 PCLO Intron of PCLO(-): 46Kb after exon 3 CFTR IGR: 36Kb before CFTR(+) - 0 0 0 0 4 0 4 0 -3.684685e-01 4.663467e-01 1 16 1 16 1 82717813 117084456 1 82717811 -2 117084457 1 9 9.934290e-01 0 3 79 0 12 1 -1 -82717814 -1 -117084457 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 88 7 0 3079027 17 1 32158629 inter_chr NaN 16 0 0 0 26_samples:0 3078755 3079010 256 44 32158624 32158939 316 53 CARD11 5'-UTR of CARD11(-): 81Kb before coding start ACCN1 Intron of ACCN1(-): 324Kb after exon 1 Transcript fusion (ACCN1-CARD11) 2.000000e-02 7.000000e-02 0 0 4 1 3 1 -9.647650e-01 -4.280981e-01 1 16 1 16 1 3079010 32158624 1 3079027 17 32158629 5 12 9.946291e-01 0 2 71 0 18 1 -1 -3079011 -1 -32158625 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 89 15 1 88939765 20 1 8775274 inter_chr NaN 16 0 0 0 26_samples:0 88939816 88940067 252 54 8775268 8775457 190 35 MRPL46 IGR: 63Kb before MRPL46(-) PLCB1 Intron of PLCB1(+): 4Kb after exon 31 - 0 0 0 0 2 0 4 0 -3.684685e-01 -1.501432e+00 1 16 1 16 1 88939816 8775268 1 88939765 -51 8775274 6 20 9.856928e-01 1 2 67 0 24 1 -1 -88939817 -1 -8775269 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 92 19 0 4365459 19 0 5219447 inversion 853986 16 0 0 0 26_samples:0 4365183 4365459 277 46 5219184 5219445 262 56 SH3GL1 Intron of SH3GL1(-): 20bp after exon 4 PTPRS Exon 15 of PTPRS(-) - 0 0 0 0 1 0 1 0 -8.455057e-01 -2.492091e-01 1 16 1 16 1 4365459 5219445 1 4365459 0 5219447 2 12 9.732995e-01 0 1 82 0 29 1 4365289 -170 5219646 201 1 8.423813e-01 0 0 75 29 AGTGGCTGGAGCAGAGAAGGGAATGGGGA 5 1 5.800000e+00 LUSC-43-3920 93 19 0 22959112 19 0 47147812 long_range 24188702 16 0 0 0 26_samples:0 22958822 22959111 290 61 47147521 47147813 293 68 ZNF99 IGR: 6Kb after ZNF99(-) DACT3 IGR: 3Kb before DACT3(-) - 5.000000e-02 6.000000e-02 2.000000e-02 6.000000e-02 3 1 4 3 4.893912e-02 4.663467e-01 1 16 1 16 1 22959111 47147813 1 22959112 1 47147812 -1 13 9.961113e-01 0 2 61 0 19 1 -1 -22959112 -1 -47147814 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 94 19 1 44530416 19 0 44672622 tandem_dup 142192 16 0 0 0 26_samples:0 44530426 44530713 288 55 44672332 44672618 287 57 ZNF222 Intron of ZNF222(+): 188bp after exon 2 ZNF226 5'-UTR of ZNF226(+): 2Kb before coding start Transcript fusion (ZNF226-ZNF222) 2.000000e-02 0 0 0 3 1 2 1 -3.088388e-01 -1.895795e-01 1 16 1 16 1 44530426 44672618 1 44530416 -10 44672622 4 7 9.646577e-01 1 2 74 0 10 1 -1 -44530427 -1 -44672619 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 90 17 0 72201697 17 0 72687689 inversion 486034 16 0 0 0 26_samples:0 72201253 72201657 405 79 72687446 72687691 246 55 RPL38 Intron of RPL38(+): 1Kb after exon 3 RAB37 Intron of RAB37(+): 20Kb after exon 1 Antisense fusion 0 0 0 0 3 0 3 0 1.122273e+00 -3.088388e-01 9.981753e-01 1.597080e+01 1 1.597080e+01 1 72201657 72687691 1 72201697 40 72687689 -2 13 9.392747e-01 0 1 69 13 CCTCCCTACATCT 52 1 72201858 201 72687606 -85 2 8.604677e-01 0 0 78 21 GTGTTTTAAAAGGGTGGTGGT 14 1 3.714286e+00 LUSC-43-3920 100 4 1 58472496 4 1 59611031 long_range 1138482 15 0 0 0 26_samples:0 58472547 58472780 234 52 59611029 59611236 208 35 IGFBP7 IGR: 496Kb after IGFBP7(-) IGFBP7 IGR: 2Mb before IGFBP7(-) - 1.000000e-02 0 0 0 3 1 3 0 -4.877278e-01 -1.501432e+00 1 15 1 15 1 58472547 59611029 1 58472496 -51 59611031 2 20 9.949648e-01 1 6 58 0 28 1 -1 -58472548 -1 -59611030 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 102 4 0 190571780 17 0 20784054 inter_chr NaN 15 0 0 0 26_samples:0 190571529 190571718 190 34 20783857 20784009 153 19 FRG1 IGR: 290Kb before FRG1(+) CCDC144NL Intron of CCDC144NL(-): 13Kb after exon 2 - 0 0 7.000000e-02 5.000000e-02 4 2 4 1 -1.561062e+00 -2.455506e+00 1 15 1 15 1 190571718 20784009 1 190571780 62 20784054 45 20 8.628516e-01 0 0 72 0 49 1 -1 -190571719 -1 -20784010 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 103 17 0 33693889 17 0 33741707 inversion 47811 15 0 0 0 26_samples:0 33693596 33693893 298 68 33741440 33741704 265 62 SLFN11 5'-UTR of SLFN11(-): 3Kb before coding start SLFN12 Intron of SLFN12(-): 3Kb before exon 4 - 0 3.000000e-02 0 0 2 0 3 1 4.663467e-01 1.085688e-01 1 15 1 15 1 33693893 33741704 1 33693889 -4 33741707 3 8 9.511070e-01 0 3 75 0 12 1 -1 -33693894 -1 -33741705 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 104 19 1 3656542 19 1 3657936 inversion 1394 15 0 0 0 26_samples:0 3656542 3656767 226 53 3657936 3658231 296 71 PIP5K1C Exon 6 of PIP5K1C(-) PIP5K1C Intron of PIP5K1C(-): 1Kb before exon 6 Antisense fusion 0 0 0 0 2 0 2 0 -4.280981e-01 6.452357e-01 1 15 1 15 1 3656542 3657936 1 -1 -3656543 -1 -3657937 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -3656543 -1 -3657937 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-43-3920 86 4 0 63946011 18 1 63945944 inter_chr NaN 16 0 0 0 26_samples:0 63945711 63946017 307 84 63945939 63946248 310 78 TECRL IGR: 1Mb before TECRL(-) CDH19 IGR: 225Kb before CDH19(-) - 1.000000e-02 0 0 0 4 0 5 0 1.420421e+00 1.062643e+00 9.162834e-01 1.466053e+01 1 1.466053e+01 1 63946017 63945939 1 63946011 -6 63945944 5 20 9.979957e-01 0 0 60 0 28 1 -1 -63946018 -1 -63945940 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 106 2 1 58942644 2 1 63773014 long_range 4830377 14 0 0 0 26_samples:0 58942647 58942932 286 50 63773024 63773412 389 70 FANCL IGR: 474Kb after FANCL(-) C2orf86 Intron of C2orf86(-): 42Kb after exon 1 - 0 0 0 0 2 1 3 1 -5.497443e-01 5.666425e-01 1 14 1 14 1 58942647 63773024 1 58942644 -3 63773014 -10 7 9.663290e-01 1 1 67 0 9 1 -1 -58942648 -1 -63773025 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 105 1 1 168918688 1 1 168920189 inversion 1487 14 0 0 0 26_samples:0 168918698 168918967 270 51 168920185 168920609 425 82 ATP1B1 IGR: 157Kb before ATP1B1(+) ATP1B1 IGR: 156Kb before ATP1B1(+) - 0 0 0 0 1 0 3 0 -4.939250e-01 1.236475e+00 9.869489e-01 1.381728e+01 1 1.381728e+01 1 168918698 168920185 1 168918688 -10 168920189 4 5 9.885495e-01 1 2 77 0 11 1 -1 -168918699 -1 -168920186 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 108 2 0 151663163 23 0 71508275 inter_chr NaN 14 0 0 0 26_samples:0 151662710 151663150 441 85 71508013 71508272 260 59 RND3 IGR: 338Kb before RND3(-) CITED1 IGR: 13Kb before CITED1(-) - 0 0 1.000000e-02 1.100000e-01 4 1 3 1 1.403933e+00 -4.737028e-02 9.381688e-01 1.313436e+01 1 1.313436e+01 1 151663150 71508272 1 151663163 13 71508275 3 8 9.878143e-01 0 2 69 0 19 1 -1 -151663151 -1 -71508273 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 119 7 1 31845332 7 1 31847737 inversion 2404 13 0 0 0 26_samples:0 31845330 31845622 293 77 31847734 31848044 311 63 PDE1C Intron of PDE1C(-): 3Kb after exon 17 PDE1C Intron of PDE1C(-): 911bp after exon 17 Antisense fusion 0 0 0 0 3 1 1 1 9.573778e-01 1.759071e-01 1 13 1 13 1 31845330 31847734 1 31845332 2 31847737 3 10 9.957054e-01 1 3 65 0 16 1 -1 -31845331 -1 -31847735 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 121 7 0 53297346 10 0 108951546 inter_chr NaN 13 0 0 0 26_samples:0 53297048 53297350 303 57 108951265 108951544 280 62 POM121L12 IGR: 194Kb before POM121L12(+) SORCS1 IGR: 27Kb after SORCS1(-) - 0 0 0 0 3 0 1 0 -1.590090e-01 1.200877e-01 1 13 1 13 1 53297350 108951544 1 53297346 -4 108951546 2 11 9.804437e-01 0 2 77 0 19 1 -1 -53297351 -1 -108951545 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 124 17 1 80556139 17 0 80560792 tandem_dup 4637 13 0 0 0 26_samples:0 80556160 80556501 342 66 80560534 80560797 264 52 FOXK2 Intron of FOXK2(+): 3Kb before exon 9 FOXK2 3'-UTR of FOXK2(+): 1Kb after coding stop - 0 0 0 0 1 1 0 0 3.433651e-01 -4.381057e-01 1 13 1 13 1 80556160 80560797 1 80556139 -21 80560792 -5 2 1.000001e+00 1 6 83 0 10 1 -1 -80556161 -1 -80560798 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 101 4 1 190650879 7 0 35704688 inter_chr NaN 15 0 0 0 26_samples:0 190650877 190651224 348 85 35704428 35704698 271 49 FRG1 IGR: 211Kb before FRG1(+) HERPUD2 Intron of HERPUD2(-): 2Kb after exon 5 - 0 0 3.000000e-02 4.000000e-02 6 1 4 0 1.480051e+00 -6.666167e-01 8.003486e-01 1.200523e+01 1 1.200523e+01 1 190650877 35704698 1 190650879 2 35704688 -10 7 9.769229e-01 1 5 76 0 21 1 -1 -190650878 -1 -35704699 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 125 1 1 48799809 1 0 49128669 tandem_dup 328840 12 0 0 0 26_samples:0 48799805 48800095 291 65 49128396 49128645 250 48 SPATA6 Intron of SPATA6(-): 22Kb after exon 11 AGBL4 Intron of AGBL4(-): 179bp after exon 7 Protein fusion: out of frame (SPATA6-AGBL4) 0 3.000000e-02 1.000000e-02 0 4 1 3 0 2.875458e-01 -6.613830e-01 1 12 1 12 1 48799805 49128645 1 48799809 4 49128669 24 13 9.953573e-01 1 1 81 0 24 1 -1 -48799806 -1 -49128646 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 130 3 1 123594397 4 1 190644199 inter_chr NaN 12 0 0 0 26_samples:0 123594394 123594633 240 47 190644196 190644455 260 53 MYLK 5'-UTR of MYLK(-): 82Kb before coding start FRG1 IGR: 218Kb before FRG1(+) - 0 0 0 0 1 1 4 0 -7.172024e-01 -3.822863e-01 1 12 1 12 1 123594394 190644196 1 123594397 3 190644199 3 6 9.042126e-01 1 7 70 0 10 1 -1 -123594395 -1 -190644197 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 132 6 1 108765162 22 0 36677682 inter_chr NaN 12 0 0 0 26_samples:0 108765166 108765436 271 57 36677400 36677668 269 53 LACE1 Intron of LACE1(+): 3Kb before exon 8 MYH9 3'-UTR of MYH9(-): 1Kb after coding stop - 2.000000e-02 0 0 0 2 0 3 0 -1.590090e-01 -3.822863e-01 1 12 1 12 1 108765166 36677668 1 108765162 -4 36677682 14 8 9.987745e-01 1 0 65 0 12 1 -1 -108765167 -1 -36677669 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 134 7 1 32847396 7 1 35319814 long_range 2472443 12 0 0 0 26_samples:0 32847404 32847650 247 45 35319847 35320081 235 45 KBTBD2 IGR: 60Kb before KBTBD2(-) TBX20 IGR: 49Kb before TBX20(-) - 0 0 0 0 2 0 2 0 -8.288410e-01 -8.288410e-01 1 12 1 12 1 32847404 35319847 1 32847396 -8 35319814 -33 18 9.964731e-01 1 2 69 0 29 1 -1 -32847405 -1 -35319848 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 135 7 0 67945759 7 1 108939339 long_range 40993606 12 0 0 0 26_samples:0 67945445 67945761 317 79 108939367 108939629 263 53 AUTS2 IGR: 1Mb before AUTS2(+) C7orf66 IGR: 415Kb before C7orf66(-) - 0 0 1.000000e-02 3.000000e-02 1 0 2 1 1.069017e+00 -3.822863e-01 9.996714e-01 1.199606e+01 1 1.199606e+01 1 67945761 108939367 1 67945759 -2 108939339 -28 12 9.957318e-01 0 4 73 0 21 1 -1 -67945762 -1 -108939368 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 129 2 0 229488427 12 0 6813873 inter_chr NaN 12 0 0 0 26_samples:0 229488126 229488425 300 81 6813541 6813869 329 68 PID1 IGR: 400Kb before PID1(-) C12orf53 IGR: 4Kb after C12orf53(-) - 0 0 1.000000e-02 3.000000e-02 4 0 1 1 1.180655e+00 4.550038e-01 9.941386e-01 1.192966e+01 1 1.192966e+01 1 229488425 6813869 1 229488427 2 6813873 4 9 9.970478e-01 0 2 61 0 21 1 -1 -229488426 -1 -6813870 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 136 7 0 103333310 7 0 117038704 long_range 13705397 12 0 0 0 26_samples:0 103332974 103333315 342 83 117038379 117038712 334 80 RELN Intron of RELN(-): 5Kb after exon 10 ASZ1 Intron of ASZ1(-): 13Kb before exon 5 - 0 0 1.000000e-02 0 1 0 2 0 1.292294e+00 1.124836e+00 9.737417e-01 1.168490e+01 1 1.168490e+01 1 103333315 117038712 1 103333310 -5 117038704 -8 16 9.989905e-01 0 2 77 0 29 1 -1 -103333316 -1 -117038713 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 116 4 0 45820742 4 0 46152504 inversion 331744 13 0 0 0 26_samples:0 45820493 45820733 241 49 46152217 46152477 261 50 GABRG1 IGR: 217Kb before GABRG1(-) GABRG1 IGR: 26Kb after GABRG1(-) - 8.000000e-02 3.000000e-02 2.000000e-02 0 4 1 6 0 -6.055637e-01 -5.497443e-01 8.888889e-01 1.155556e+01 1 1.155556e+01 1 45820733 46152477 1 45820742 9 46152504 27 13 9.866903e-01 0 1 71 1 T 17 1 -1 -45820734 -1 -46152478 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 142 1 1 94802722 17 1 71637156 inter_chr NaN 11 0 0 0 26_samples:0 94802729 94802994 266 51 71637166 71637411 246 48 ABCD3 IGR: 81Kb before ABCD3(+) SDK2 Intron of SDK2(-): 3Kb after exon 1 - 0 0 0 0 2 1 4 0 -4.471865e-01 -6.043124e-01 1 11 1 11 1 94802729 71637166 1 94802722 -7 71637156 -10 6 9.889860e-01 1 2 75 0 19 1 -1 -94802730 -1 -71637167 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 144 2 0 136784475 2 1 201337550 long_range 64553129 11 0 0 0 26_samples:0 136784222 136784424 203 38 201337553 201337759 207 37 DARS IGR: 41Kb after DARS(-) SPATS2L Intron of SPATS2L(+): 2bp before exon 11 - 3.000000e-02 0 0 0 3 1 2 0 -1.128065e+00 -1.180441e+00 1 11 1 11 1 136784424 201337553 1 136784475 51 201337550 -3 8 9.008355e-01 0 0 83 1 A 13 1 -1 -136784425 -1 -201337554 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 146 3 1 41570842 3 0 41576374 tandem_dup 5522 11 0 0 0 26_samples:0 41570853 41571120 268 56 41576121 41576375 255 72 ULK4 Intron of ULK4(-): 37Kb after exon 32 ULK4 Intron of ULK4(-): 31Kb after exon 32 Duplication within intron 4.000000e-02 0 0 0 1 1 1 2 -1.853100e-01 6.526949e-01 1 11 1 11 1 41570853 41576375 1 41570842 -11 41576374 -1 11 9.568748e-01 1 3 72 0 14 1 -1 -41570854 -1 -41576376 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 152 7 0 140713965 10 1 43780399 inter_chr NaN 11 0 0 0 26_samples:0 140713836 140713971 136 15 43780532 43780700 169 23 MRPS33 5'-UTR of MRPS33(-): 4Kb before coding start RASGEF1A IGR: 18Kb after RASGEF1A(-) - 0 0 0 0 4 0 3 1 -2.332697e+00 -1.913695e+00 1 11 1 11 1 140713971 43780532 1 140713965 -6 43780399 -133 15 9.690808e-01 0 1 78 0 24 1 -1 -140713972 -1 -43780533 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 153 7 0 40941953 20 0 15027022 inter_chr NaN 11 0 0 0 26_samples:0 40941544 40941909 366 71 15026821 15027022 202 33 C7orf10 IGR: 42Kb after C7orf10(+) MACROD2 Intron of MACROD2(+): 184Kb before exon 6 - 0 0 0 0 4 0 2 0 6.003196e-01 -1.389942e+00 1 11 1 11 1 40941909 15027022 1 40941953 44 15027022 0 9 9.928196e-01 0 0 67 0 24 1 -1 -40941910 -1 -15027023 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 154 8 0 3737073 8 1 3855573 deletion 118515 11 0 0 0 26_samples:0 3736792 3737055 264 67 3855570 3855868 299 77 CSMD1 Intron of CSMD1(-): 118Kb after exon 5 CSMD1 Exon 5 of CSMD1(-) Deletion within transcript: mid-exon 0 0 0 0 1 0 1 0 3.908183e-01 9.145714e-01 1 11 1 11 1 3737055 3855570 1 3737073 18 3855573 3 18 9.426697e-01 0 2 61 0 22 1 -1 -3737056 -1 -3855571 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 158 11 1 12944232 11 1 120851747 long_range 107907533 11 0 0 0 26_samples:0 12944226 12944468 243 48 120851759 120851992 234 54 TEAD1 Intron of TEAD1(+): 2Kb before exon 11 GRIK4 Intron of GRIK4(+): 1Kb before exon 18 - 3.000000e-02 0 0 0 3 0 1 0 -6.043124e-01 -2.900606e-01 1 11 1 11 1 12944226 120851759 1 12944232 6 120851747 -12 7 9.907935e-01 1 1 80 0 11 1 -1 -12944227 -1 -120851760 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 148 4 0 74012886 6 1 30692946 inter_chr NaN 11 0 0 0 26_samples:0 74012564 74012865 302 51 30692950 30693163 214 36 ANKRD17 Intron of ANKRD17(-): 93bp after exon 9 TUBB 3'-UTR of TUBB(+): 776bp after coding stop - 1.000000e-02 0 7.000000e-02 1.200000e-01 5 0 3 1 -4.471865e-01 -1.232816e+00 9.846154e-01 1.083077e+01 1 1.083077e+01 1 74012865 30692950 1 74012886 21 30692946 -4 12 9.595469e-01 0 2 73 0 21 1 -1 -74012866 -1 -30692951 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 151 7 0 110768711 7 0 117046880 long_range 6278172 11 0 0 0 26_samples:0 110768382 110768711 330 78 117046556 117046883 328 79 IMMP2L Intron of IMMP2L(-): 165Kb before exon 4 ASZ1 Intron of ASZ1(-): 13Kb after exon 4 - 0 0 1.000000e-02 4.000000e-02 5 1 5 0 9.669467e-01 1.019322e+00 9.694605e-01 1.066407e+01 1 1.066407e+01 1 110768711 117046883 1 110768711 0 117046880 -3 13 9.914744e-01 0 1 60 0 29 1 -1 -110768712 -1 -117046884 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 95 1 0 10213964 1 1 10227639 deletion 13681 15 0 0 0 26_samples:0 10213666 10213967 302 59 10227648 10227920 273 58 UBE4B Intron of UBE4B(+): 2Kb after exon 21 UBE4B Intron of UBE4B(+): 546bp before exon 24 Deletion of 2 exons: out of frame 2.000000e-02 5.000000e-02 7.000000e-02 9.000000e-02 7 2 3 0 -7.032019e-02 -1.299498e-01 7.032967e-01 1.054945e+01 1 1.054945e+01 1 10213967 10227648 1 10213964 -3 10227639 -9 9 9.124140e-01 0 1 73 0 15 1 10214103 136 10227446 -202 3 8.846194e-01 0 14 120 0 19 1 7.894737e-01 LUSC-43-3920 166 7 0 103223154 7 1 103281211 deletion 58066 10 0 0 0 26_samples:0 103222849 103223139 291 70 103281205 103281495 291 66 RELN Intron of RELN(-): 7Kb after exon 28 RELN Intron of RELN(-): 149bp before exon 17 Deletion of 12 exons: out of frame 0 0 0 0 2 0 3 0 5.479443e-01 3.384430e-01 1 10 1 10 1 103223139 103281205 1 103223154 15 103281211 6 14 9.882884e-01 0 0 79 0 20 1 -1 -103223140 -1 -103281206 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 171 17 0 33714295 17 1 33732762 deletion 18502 10 0 0 0 26_samples:0 33714016 33714264 249 48 33732766 33732996 231 46 SLFN12 IGR: 24Kb before SLFN12(-) SLFN12 IGR: 5Kb before SLFN12(-) - 0 2.000000e-02 0 0 2 0 2 2 -6.043124e-01 -7.090630e-01 1 10 1 10 1 33714264 33732766 1 33714295 31 33732762 -4 9 9.804661e-01 0 1 71 0 12 1 -1 -33714265 -1 -33732767 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 172 19 1 23027555 19 1 47117333 long_range 24089771 10 0 0 0 26_samples:0 23027559 23027837 279 55 47117330 47117605 276 73 ZNF99 IGR: 89Kb before ZNF99(-) PTGIR IGR: 6Kb before PTGIR(-) - 1.500000e-01 1.400000e-01 0 0 2 1 2 1 -2.376853e-01 7.050702e-01 1 10 1 10 1 23027559 47117330 1 23027555 -4 47117333 3 15 9.955535e-01 1 0 78 0 20 1 -1 -23027560 -1 -47117331 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 47 2 0 36570137 9 0 122566711 inter_chr NaN 22 0 0 0 26_samples:0 36569873 36570141 269 52 122566453 122566717 265 51 CRIM1 IGR: 13Kb before CRIM1(+) MIR147 IGR: 441Kb before MIR147(-) - 3.000000e-02 0 0 0 7 5 8 0 -5.566337e-01 -6.213550e-01 4.235049e-01 9.317108e+00 1 9.317108e+00 1 36570141 122566717 1 36570137 -4 122566711 -6 20 9.977531e-01 0 2 67 0 29 1 -1 -36570142 -1 -122566718 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 114 3 1 99735840 4 0 76871222 inter_chr NaN 13 0 0 0 26_samples:0 99735909 99736096 188 27 76871067 76871220 154 17 C3orf26 Intron of C3orf26(+): 130Kb before exon 2 SDAD1 3'-UTR of SDAD1(-): 683bp after coding stop - 0 0 3.000000e-02 0 1 0 7 1 -1.833589e+00 -2.391783e+00 7.032967e-01 9.142857e+00 1 9.142857e+00 1 99735909 76871220 1 99735840 -69 76871222 2 9 9.969884e-01 1 2 67 0 19 1 -1 -99735910 -1 -76871221 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 175 1 0 48566537 1 0 48808336 inversion 241830 9 0 0 0 26_samples:0 48566244 48566488 245 47 48808114 48808318 205 56 SKINTL IGR: 899bp before SKINTL(-) SPATA6 Intron of SPATA6(-): 13Kb after exon 11 - 0 0 2.000000e-02 5.000000e-02 3 1 3 0 -5.848370e-01 -1.459869e-01 1 9 1 9 1 48566488 48808318 1 48566537 49 48808336 18 12 9.783883e-01 0 1 68 0 23 1 -1 -48566489 -1 -48808319 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 184 2 0 151627913 23 1 71495740 inter_chr NaN 9 0 0 0 26_samples:0 151627505 151627835 331 70 71495755 71495947 193 42 RND3 IGR: 303Kb before RND3(-) RPS4X Intron of RPS4X(-): 181bp before exon 3 - 0 0 0 0 2 0 1 0 5.366687e-01 -8.286426e-01 1 9 1 9 1 151627835 71495755 1 151627913 78 71495740 -15 3 9.635191e-01 0 1 70 0 5 1 -1 -151627836 -1 -71495756 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 192 6 0 119855962 6 1 119903641 deletion 47727 9 0 0 0 26_samples:0 119855661 119855956 296 59 119903683 119903914 232 42 MAN1A1 IGR: 357Kb before MAN1A1(-) MAN1A1 IGR: 404Kb before MAN1A1(-) - 0 0 0 0 2 0 2 0 2.964036e-04 -8.286426e-01 1 9 1 9 1 119855956 119903683 1 119855962 6 119903641 -42 14 9.996150e-01 0 3 76 0 15 1 -1 -119855957 -1 -119903684 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 204 11 0 35932761 11 1 36068251 deletion 135490 9 0 0 0 26_samples:0 35932549 35932761 213 39 36068251 36068476 226 49 LDLRAD3 IGR: 33Kb before LDLRAD3(+) LDLRAD3 Intron of LDLRAD3(+): 10Kb after exon 2 - 3.000000e-02 0 0 0 3 0 2 0 -9.749259e-01 -4.873148e-01 1 9 1 9 1 35932761 36068251 1 35932772 11 36068208 -43 1 9.673906e-01 0 2 78 1 A 12 1 -1 -35932762 -1 -36068252 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-43-3920 207 17 0 68009437 19 0 9354954 inter_chr NaN 9 0 0 0 26_samples:0 68009117 68009423 307 68 9354782 9354959 178 35 KCNJ16 IGR: 62Kb before KCNJ16(+) OR7E24 IGR: 7Kb before OR7E24(+) - 0 0 0 0 3 0 2 0 4.391465e-01 -1.169970e+00 1 9 1 9 1 68009423 9354959 1 68009437 14 9354954 -5 12 9.786293e-01 0 4 71 0 18 1 -1 -68009424 -1 -9354960 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 209 18 1 65216168 18 0 65223571 tandem_dup 7375 9 0 0 0 26_samples:0 65216191 65216454 264 67 65223297 65223566 270 57 DSEL IGR: 42Kb before DSEL(-) DSEL IGR: 50Kb before DSEL(-) - 0 0 1.000000e-02 0 1 0 3 1 3.903853e-01 -9.722583e-02 1 9 1 9 1 65216191 65223566 1 65216168 -23 65223571 5 10 1 1 6 81 0 13 1 65215998 -193 65223768 202 1 7.519492e-01 1 1 76 1 T 1 1 13 LUSC-43-3920 211 22 1 42266003 22 0 42269684 tandem_dup 3634 9 0 0 0 26_samples:0 42266032 42266301 270 53 42269430 42269666 237 58 SREBF2 Intron of SREBF2(+): 861bp before exon 4 SREBF2 Intron of SREBF2(+): 136bp before exon 5 Duplication of 1 exon: in frame 1.000000e-02 4.000000e-02 0 0 1 2 0 0 -2.922703e-01 -4.846471e-02 1 9 1 9 1 42266032 42269666 1 42266003 -29 42269684 18 6 9.613355e-01 1 1 68 0 14 1 -1 -42266033 -1 -42269667 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 185 4 0 43310478 4 1 43345743 deletion 35286 9 0 0 0 26_samples:0 43310253 43310463 211 33 43345749 43346022 274 57 GRXCR1 IGR: 415Kb before GRXCR1(+) GRXCR1 IGR: 450Kb before GRXCR1(+) - 0 0 3.000000e-02 5.000000e-02 2 1 5 1 -1.267493e+00 -9.722583e-02 9.846154e-01 8.861538e+00 1 8.861538e+00 1 43310463 43345749 1 43310478 15 43345743 -6 12 9.827865e-01 0 3 68 0 18 1 43310526 63 43345548 -201 1 7.500045e-01 0 0 69 1 T 1 1 18 LUSC-43-3920 227 2 0 43887607 5 0 3653136 inter_chr NaN 8 0 0 0 26_samples:0 43887494 43887605 112 32 3652776 3653016 241 49 PLEKHH2 Intron of PLEKHH2(+): 16Kb after exon 2 IRX1 IGR: 57Kb before IRX1(+) - 0 0 0 0 2 0 2 0 -1.316254e+00 -4.873148e-01 1 8 1 8 1 43887605 3653016 1 43887607 2 3653136 120 8 9.549905e-01 0 2 73 0 19 1 -1 -43887606 -1 -3653017 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 239 7 1 14472137 7 1 14474540 inversion 2403 8 0 0 0 26_samples:0 14472137 14472410 274 71 14474540 14474745 206 45 DGKB Intron of DGKB(-): 46Kb after exon 20 DGKB Intron of DGKB(-): 43Kb after exon 20 Antisense fusion 0 0 0 0 1 1 2 1 5.854298e-01 -6.823592e-01 1 8 1 8 1 14472137 14474540 1 14472139 2 14474500 -40 1 1.000001e+00 1 1 71 0 3 1 -1 -14472138 -1 -14474541 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-43-3920 241 8 0 90242049 8 1 90257825 deletion 15900 8 0 0 0 26_samples:0 90241730 90241882 153 19 90257782 90257900 119 5 RIPK2 IGR: 528Kb before RIPK2(+) RIPK2 IGR: 512Kb before RIPK2(+) - 2.000000e-02 0 0 0 3 0 3 0 -1.950148e+00 -2.632804e+00 1 8 1 8 1 90241882 90257782 1 90242049 167 90257825 43 14 9.911111e-01 0 9 104 0 29 1 90241801 -81 90257579 -203 2 8.072616e-01 0 5 104 0 10 1 2.900000e+00 LUSC-43-3920 246 10 1 125856548 10 0 125864771 tandem_dup 8192 8 0 0 0 26_samples:0 125856550 125856825 276 62 125864445 125864742 298 78 CHST15 IGR: 50Kb after CHST15(-) CHST15 IGR: 59Kb after CHST15(-) - 0 0 0 0 0 0 2 0 1.465798e-01 9.267576e-01 1 8 1 8 1 125856550 125864742 1 125856548 -2 125864771 29 10 9.774422e-01 1 2 81 0 23 1 -1 -125856551 -1 -125864743 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 67 4 0 44691251 4 0 46399678 long_range 1708423 18 0 0 0 26_samples:0 44690869 44691256 388 70 46399211 46399679 469 91 GUF1 Intron of GUF1(+): 47bp before exon 10 GABRA2 IGR: 8Kb after GABRA2(-) - 0 0 0 0 7 0 4 0 5.856060e-01 1.837829e+00 4.428487e-01 7.971276e+00 1 7.971276e+00 1 44691256 46399679 1 44691251 -5 46399678 -1 13 9.700399e-01 0 2 74 0 16 1 -1 -44691257 -1 -46399680 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 260 21 1 32283056 23 0 123743855 inter_chr NaN 8 0 0 0 26_samples:0 32283059 32283341 283 75 123743543 123743852 310 83 KRTAP11-1 IGR: 30Kb before KRTAP11-1(-) ODZ1 Intron of ODZ1(-): 32Kb after exon 11 - 0 0 0 0 1 0 1 0 7.804743e-01 1.170563e+00 9.950625e-01 7.960500e+00 1 7.960500e+00 1 32283059 123743852 1 32283056 -3 123743855 3 6 9.744960e-01 1 0 79 0 8 1 32283052 -7 123744053 201 1 9.257351e-01 1 0 80 1 G 2 1 4 LUSC-43-3920 226 2 1 58948506 2 0 63773013 long_range 4824507 8 0 0 0 26_samples:0 58948506 58948763 258 60 63772772 63773013 242 62 FANCL IGR: 480Kb after FANCL(-) C2orf86 Intron of C2orf86(-): 42Kb after exon 1 - 0 0 0 0 2 0 5 1 4.905752e-02 1.465798e-01 9.846154e-01 7.876923e+00 1 7.876923e+00 1 58948506 63773013 1 58948466 -40 63773006 -7 1 9.883393e-01 1 4 66 0 12 1 58948530 24 63773214 201 1 8.018455e-01 1 1 78 15 AATATTGTGGGATAC 6 0 2 LUSC-43-3920 254 11 0 57100596 11 1 57101934 deletion 1338 8 0 0 0 26_samples:0 57100444 57100596 153 35 57101934 57102077 144 22 SSRP1 Exon 5 of SSRP1(-) SSRP1 Intron of SSRP1(-): 3bp after exon 3 Deletion within transcript: mid-exon 0 0 0 0 1 0 5 0 -1.169970e+00 -1.803865e+00 9.846154e-01 7.876923e+00 1 7.876923e+00 1 57100596 57101934 1 -1 -57100597 -1 -57101935 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -57100597 -1 -57101935 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-43-3920 220 1 1 94420128 14 1 22329076 inter_chr NaN 8 0 0 0 26_samples:0 94420131 94420447 317 66 22329067 22329269 203 37 ABCA4 IGR: 38Kb before ABCA4(-) OR4E2 IGR: 196Kb before OR4E2(+) - 1.000000e-02 0 0 0 5 0 5 0 3.416242e-01 -1.072448e+00 9.694675e-01 7.755740e+00 1 7.755740e+00 1 94420131 22329067 1 94420128 -3 22329076 9 16 9.956092e-01 1 0 76 0 23 1 -1 -94420132 -1 -22329068 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 55 4 0 58459373 4 1 63941374 long_range 5481993 21 0 0 0 26_samples:0 58459064 58459374 311 68 63941367 63941875 509 95 IGFBP7 IGR: 483Kb after IGFBP7(-) TECRL IGR: 1Mb before TECRL(-) - 0 0 3.000000e-02 0 2 0 3 1 4.789070e-01 2.226382e+00 3.515563e-01 7.382683e+00 1 7.382683e+00 1 58459374 63941367 1 58459373 -1 63941374 7 20 9.870360e-01 0 1 78 0 32 1 -1 -58459375 -1 -63941368 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 290 5 0 11489929 10 0 87123990 inter_chr NaN 7 0 0 0 26_samples:0 11489704 11489938 235 44 87123727 87123945 219 42 CTNND2 Intron of CTNND2(-): 75Kb after exon 3 GRID1 IGR: 235Kb before GRID1(-) - 0 0 0 0 2 1 1 0 -6.166423e-01 -7.037228e-01 1 7 1 7 1 11489938 87123945 1 11489929 -9 87123990 45 10 1 0 2 73 0 11 1 -1 -11489939 -1 -87123946 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 298 7 1 22777924 7 0 27560588 long_range 4782609 7 0 0 0 26_samples:0 22777947 22778158 212 41 27560336 27560556 221 37 IL6 IGR: 6Kb after IL6(+) HIBADH IGR: 5Kb before HIBADH(-) - 6.000000e-02 0 0 0 4 0 3 0 -7.472630e-01 -9.214239e-01 1 7 1 7 1 22777947 27560556 1 22777924 -23 27560588 32 2 9.569761e-01 1 1 81 0 16 1 -1 -22777948 -1 -27560557 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 301 7 1 123352284 11 1 62313025 inter_chr NaN 7 0 0 0 26_samples:0 123352415 123352649 235 46 62313023 62313143 121 8 WASL Intron of WASL(-): 3Kb before exon 2 AHNAK 5'-UTR of AHNAK(-): 9Kb before coding start Antisense fusion 0 0 0 0 4 1 1 0 -5.295619e-01 -2.184090e+00 1 7 1 7 1 123352415 62313023 1 123352284 -131 62313025 2 19 9.947873e-01 1 0 61 0 24 1 -1 -123352416 -1 -62313024 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 319 10 1 13959934 10 0 13964135 tandem_dup 4158 7 0 0 0 26_samples:0 13959969 13960182 214 58 13963889 13964127 239 63 FRMD4A Intron of FRMD4A(-): 59Kb before exon 3 FRMD4A Intron of FRMD4A(-): 63Kb before exon 3 Duplication within intron 0 0 0 0 1 0 1 1 -7.079214e-03 2.106219e-01 1 7 1 7 1 13959969 13964127 1 13959934 -35 13964135 8 7 1 1 0 77 0 14 1 -1 -13959970 -1 -13964128 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 327 11 1 13454447 11 1 30636652 long_range 17182205 7 0 0 0 26_samples:0 13454447 13454625 179 38 30636652 30636848 197 39 BTBD10 Intron of BTBD10(-): 11Kb before exon 3 MPPED2 IGR: 29Kb after MPPED2(-) - 0 0 0 0 3 1 4 1 -8.778837e-01 -8.343435e-01 1 7 1 7 1 13454447 30636652 1 13454438 -9 30636548 -104 1 1 1 3 85 0 3 1 -1 -13454448 -1 -30636653 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-43-3920 328 11 1 30638693 11 0 32619847 long_range 1981090 7 0 0 0 26_samples:0 30638688 30638936 249 62 32619525 32619778 254 72 MPPED2 IGR: 31Kb after MPPED2(-) EIF3M Intron of EIF3M(+): 2Kb after exon 8 - 0 0 0 0 4 0 3 0 1.670817e-01 6.024839e-01 1 7 1 7 1 30638688 32619778 1 30638693 5 32619847 69 5 9.818297e-01 1 4 77 0 10 1 -1 -30638689 -1 -32619779 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 330 11 0 107946732 11 1 107952650 deletion 5994 7 0 0 0 26_samples:0 107946513 107946707 195 30 107952701 107952927 227 41 CUL5 Intron of CUL5(+): 2Kb before exon 11 CUL5 Intron of CUL5(+): 4Kb after exon 11 Deletion of 1 exon: out of frame 0 3.000000e-02 0 0 1 1 0 0 -1.226205e+00 -7.472630e-01 1 7 1 7 1 107946707 107952701 1 107946732 25 107952650 -51 8 1 0 2 79 0 14 1 -1 -107946708 -1 -107952702 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 334 17 1 4491211 17 0 4506341 tandem_dup 15108 7 0 0 0 26_samples:0 4491220 4491457 238 64 4506061 4506328 268 57 SMTNL2 Intron of SMTNL2(+): 3Kb after exon 1 SMTNL2 Intron of SMTNL2(+): 4Kb before exon 8 Duplication of 6 exons: out of frame 0 0 0 0 1 0 2 1 2.541621e-01 -5.061944e-02 1 7 1 7 1 4491220 4506328 1 4491211 -9 4506341 13 4 9.956718e-01 1 3 84 0 11 1 -1 -4491221 -1 -4506329 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 340 20 1 60563723 23 0 71513278 inter_chr NaN 7 0 0 0 26_samples:0 60563753 60563993 241 62 71513038 71513279 242 47 TAF4 Intron of TAF4(-): 9Kb after exon 14 CITED1 IGR: 8Kb before CITED1(-) - 0 0 0 0 3 0 1 0 1.670817e-01 -4.860217e-01 1 7 1 7 1 60563753 71513279 1 60563723 -30 71513278 -1 9 8.693163e-01 1 0 63 0 13 1 -1 -60563754 -1 -71513280 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 186 4 0 43364626 4 0 68722217 long_range 25357530 9 0 0 0 26_samples:0 43364423 43364617 195 33 68721946 68722147 202 42 GRXCR1 IGR: 469Kb before GRXCR1(+) TMPRSS11D Intron of TMPRSS11D(-): 2Kb before exon 3 - 0 0 0 0 3 0 7 1 -1.267493e+00 -8.286426e-01 7.032967e-01 6.329670e+00 1 6.329670e+00 1 43364617 68722147 1 43364626 9 68722217 70 13 9.828878e-01 0 4 78 0 15 1 -1 -43364618 -1 -68722148 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 297 7 1 82729651 7 0 120720893 long_range 37991168 7 0 0 0 26_samples:0 82729685 82729911 227 46 120720665 120720853 189 35 PCLO Intron of PCLO(-): 34Kb after exon 3 C7orf58 Intron of C7orf58(+): 16Kb after exon 4 Antisense fusion 2.000000e-02 6.000000e-02 0 0 4 1 6 1 -5.295619e-01 -1.008504e+00 8.888889e-01 6.222222e+00 1 6.222222e+00 1 82729685 120720853 1 82729651 -34 120720893 40 9 9.968885e-01 1 1 72 0 16 1 82729480 -205 120720961 108 1 7.973828e-01 1 4 74 0 5 1 3.200000e+00 LUSC-43-3920 133 7 0 29693511 7 0 32146759 long_range 2453269 12 0 0 0 26_samples:0 29693266 29693480 215 38 32146517 32146749 233 47 LOC646762 3'-UTR of LOC646762(-): 31Kb after coding stop PDE1C IGR: 36Kb after PDE1C(-) - 1.000000e-02 0 1.000000e-02 0 2 0 8 0 -1.219576e+00 -7.172024e-01 5.000000e-01 6 1 6 1 29693480 32146749 1 29693511 31 32146759 10 10 1 0 1 68 0 12 1 -1 -29693481 -1 -32146750 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 408 5 0 29273811 23 1 11952048 inter_chr NaN 6 0 0 0 26_samples:0 29273551 29273795 245 59 11952079 11952326 248 59 CDH6 IGR: 2Mb before CDH6(+) MSL3 IGR: 174Kb before MSL3(+) - 1.000000e-02 0 0 0 4 1 2 0 3.646101e-02 3.646101e-02 1 6 1 6 1 29273795 11952079 1 29273811 16 11952048 -31 14 9.821607e-01 0 2 65 0 14 1 -1 -29273796 -1 -11952080 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 419 7 1 103538972 7 1 122441990 long_range 18902999 6 0 0 0 26_samples:0 103539002 103539216 215 48 122442001 122442258 258 60 RELN Intron of RELN(-): 19Kb after exon 2 CADPS2 Intron of CADPS2(-): 65Kb before exon 2 Antisense fusion 0 0 0 0 1 0 2 0 -4.424815e-01 8.000123e-02 1 6 1 6 1 103539002 122442001 1 103538972 -30 122441990 -11 7 9.969282e-01 1 2 71 0 9 1 -1 -103539003 -1 -122442002 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 430 7 1 123352814 11 0 62313150 inter_chr NaN 6 0 0 0 26_samples:0 123352863 123353189 327 76 62313033 62313153 121 9 WASL Intron of WASL(-): 4Kb before exon 2 AHNAK 5'-UTR of AHNAK(-): 10Kb before coding start Transcript fusion (WASL-AHNAK) 0 0 0 0 3 0 1 0 7.766448e-01 -2.140550e+00 1 6 1 6 1 123352863 62313153 1 123352814 -49 62313150 -3 7 9.588767e-01 1 1 69 13 TAAGAAAACTAAG 20 1 -1 -123352864 -1 -62313154 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 449 10 1 87122550 10 1 87123991 inversion 1431 6 0 0 0 26_samples:0 87122564 87122800 237 58 87123995 87124236 242 48 GRID1 IGR: 237Kb before GRID1(-) GRID1 IGR: 235Kb before GRID1(-) - 0 0 0 0 2 0 2 1 -7.079214e-03 -4.424815e-01 1 6 1 6 1 87122564 87123995 1 87122550 -14 87123991 -4 11 9.863473e-01 1 1 79 0 13 1 -1 -87122565 -1 -87123996 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 486 17 1 39775691 17 1 72681788 long_range 32906097 6 0 0 0 26_samples:0 39775691 39775944 254 60 72681788 72681989 202 44 KRT17 IGR: 1bp before KRT17(-) RAB37 Intron of RAB37(+): 14Kb after exon 1 - 1.000000e-02 3.000000e-02 0 0 2 1 2 1 8.000123e-02 -6.166423e-01 1 6 1 6 1 39775691 72681788 1 39775688 -3 72681753 -35 1 9.008088e-01 1 0 47 1 T 12 1 -1 -39775692 -1 -72681789 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-43-3920 372 2 1 151652589 2 1 151669197 inversion 16601 6 0 0 0 26_samples:0 151652618 151652881 264 69 151669219 151669524 306 83 RND3 IGR: 328Kb before RND3(-) RND3 IGR: 345Kb before RND3(-) - 1.000000e-02 5.000000e-02 0 0 4 2 2 0 4.718632e-01 1.081426e+00 9.994604e-01 5.996762e+00 1 5.996762e+00 1 151652618 151669219 1 151652589 -29 151669197 -22 3 9.902280e-01 1 2 85 0 5 1 -1 -151652619 -1 -151669220 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 437 8 1 37586744 8 0 37599723 tandem_dup 12931 6 0 0 0 26_samples:0 37586768 37587001 234 56 37599382 37599699 318 86 ERLIN2 IGR: 7Kb before ERLIN2(+) ERLIN2 Intron of ERLIN2(+): 363bp after exon 4 - 0 3.000000e-02 0 3.000000e-02 3 0 3 2 -9.415966e-02 1.212047e+00 9.905556e-01 5.943333e+00 1 5.943333e+00 1 37586768 37599699 1 37586744 -24 37599723 24 7 9.969949e-01 1 3 72 0 16 1 -1 -37586769 -1 -37599700 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 462 10 1 85535751 22 0 29066402 inter_chr NaN 6 0 0 0 26_samples:0 85535751 85535964 214 38 29066261 29066402 142 18 GHITM IGR: 363Kb before GHITM(+) TTC28 Intron of TTC28(-): 9Kb after exon 1 - 3.000000e-02 0 0 0 3 0 5 0 -8.778837e-01 -1.748688e+00 9.846154e-01 5.907692e+00 1 5.907692e+00 1 85535751 29066402 1 -1 -85535752 -1 -29066403 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -85535752 -1 -29066403 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-43-3920 42 1 0 46640464 1 1 66654391 long_range 20013931 23 0 0 0 26_samples:0 46640159 46640463 305 67 66654394 66654947 554 92 TSPAN1 Promoter of TSPAN1(+): 286bp from tx start PDE4B Intron of PDE4B(+): 59Kb before exon 4 Transcript fusion (TSPAN1-PDE4B) 1.000000e-02 0 2.100000e-01 3.400000e-01 3 0 8 4 4.141857e-01 2.032218e+00 2.461169e-01 5.660689e+00 1 5.660689e+00 1 46640463 66654394 1 46640464 1 66654391 -3 20 9.976079e-01 0 0 59 0 30 1 -1 -46640464 -1 -66654395 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 432 7 0 4431076 14 0 45438192 inter_chr NaN 6 0 0 0 26_samples:0 4430962 4431076 115 6 45437997 45438192 196 38 SDK1 IGR: 262Kb before SDK1(+) FAM179B Intron of FAM179B(+): 5Kb after exon 1 - 4.000000e-02 4.000000e-02 0 0 6 2 4 2 -2.271171e+00 -8.778837e-01 8.888889e-01 5.333333e+00 1 5.333333e+00 1 4431076 45438192 1 4431065 -11 45438351 159 7 9.907348e-01 0 51 108 0 32 1 4431065 -11 45438351 159 6 9.879147e-01 0 51 108 0 12 -1 2.666667e+00 LUSC-43-3920 494 20 0 61563390 23 0 71508128 inter_chr NaN 6 0 0 0 26_samples:0 61563194 61563390 197 34 71507937 71508128 192 33 DIDO1 5'-UTR of DIDO1(-): 20Kb before coding start CITED1 IGR: 13Kb before CITED1(-) - 0 0 0 7.000000e-02 6 0 3 0 -1.052045e+00 -1.095585e+00 8.888889e-01 5.333333e+00 1 5.333333e+00 1 61563390 71508128 1 -1 -61563391 -1 -71508129 -1 -1 -1 -1 -1 -1 failed 0 1 61563521 131 71508480 352 2 8.326693e-01 0 1 76 20 CGGCCTATTAGATCGTTTTC 10 0 0 LUSC-43-3920 750 11 0 13432902 11 1 30167986 long_range 16735084 5 0 0 0 26_samples:0 13432719 13432902 184 39 30167986 30168235 250 60 BTBD10 Intron of BTBD10(-): 2Kb after exon 6 FSHB IGR: 85Kb before FSHB(+) - 0 0 0 0 3 1 2 0 -7.554780e-01 1.034813e-01 1 5 1 5 1 13432902 30167986 1 13432955 53 30167932 -54 1 1 0 4 71 0 1 1 -1 -13432903 -1 -30167987 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-43-3920 779 17 0 39778766 17 1 39780397 deletion 1631 5 0 0 0 26_samples:0 39778607 39778766 160 43 39780397 39780539 143 37 KRT17 Intron of KRT17(-): 3bp before exon 3 KRT17 Exon 1 of KRT17(-) Deletion within transcript: mid-exon 4.000000e-02 0 2.000000e-02 3.000000e-02 0 0 0 0 -5.918667e-01 -8.372836e-01 1 5 1 5 1 39778766 39780397 1 -1 -39778767 -1 -39780398 -1 -1 -1 -1 -1 -1 failed 0 1 39778669 -97 39780046 -351 1 7.969592e-01 0 0 86 1 C 5 0 0 LUSC-43-3920 618 3 1 42826177 5 0 17178426 inter_chr NaN 5 0 0 0 26_samples:0 42826201 42826500 300 74 17178180 17178426 247 88 HIGD1A 3'-UTR of HIGD1A(-): 562bp after coding stop LOC285696 3'-UTR of LOC285696(-): 39Kb after coding stop - 2.000000e-01 0 0 0 3 0 1 0 6.761209e-01 1.248760e+00 9.848397e-01 4.924198e+00 1 4.924198e+00 1 42826201 17178426 1 42826177 -24 17178426 0 10 9.940329e-01 1 3 70 0 20 1 -1 -42826202 -1 -17178427 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 758 12 1 44726066 12 0 44743630 tandem_dup 17523 5 0 0 0 26_samples:0 44726088 44726409 322 89 44743398 44743611 214 41 TMEM117 Intron of TMEM117(+): 33Kb after exon 6 TMEM117 Intron of TMEM117(+): 27Kb before exon 7 Duplication within intron 0 0 0 0 2 0 2 1 1.289663e+00 -6.736723e-01 9.762725e-01 4.881363e+00 1 4.881363e+00 1 44726088 44743611 1 44726066 -22 44743630 19 4 9.924589e-01 1 3 81 0 10 1 -1 -44726089 -1 -44743612 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 480 13 1 19541915 21 1 10605075 inter_chr NaN 6 0 0 0 26_samples:0 19541930 19542276 347 95 10605147 10605334 188 40 LOC348021 IGR: 40Kb before LOC348021(+) TPTE IGR: 302Kb before TPTE(-) - 0 0 1.600000e-01 1.400000e-01 3 1 5 1 1.603909e+00 -7.908032e-01 8.068969e-01 4.841381e+00 1 4.841381e+00 1 19541930 10605147 1 19541915 -15 10605075 -72 17 9.944075e-01 1 1 73 0 22 1 -1 -19541931 -1 -10605148 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 110 17 0 65287095 17 1 65582437 deletion 295336 14 0 0 0 26_samples:0 65286695 65287098 404 99 65582434 65582714 281 47 PSMD12 IGR: 50Kb before PSMD12(-) PITPNC1 Intron of PITPNC1(+): 8Kb after exon 5 - 0 0 4.000000e-02 7.000000e-02 2 0 6 3 2.185403e+00 -7.172024e-01 3.334534e-01 4.668348e+00 1 4.668348e+00 1 65287098 65582434 1 65287095 -3 65582437 3 12 9.797307e-01 0 4 61 0 18 1 -1 -65287099 -1 -65582435 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 786 18 1 39392883 18 0 39398377 tandem_dup 5486 5 0 0 0 26_samples:0 39392897 39393202 306 93 39398070 39398383 314 77 PIK3C3 IGR: 142Kb before PIK3C3(+) PIK3C3 IGR: 137Kb before PIK3C3(+) - 2.000000e-02 3.000000e-02 0 0 2 1 1 0 1.453275e+00 7.988293e-01 9.148053e-01 4.574027e+00 1 4.574027e+00 1 39392897 39398383 1 39392883 -14 39398377 -6 4 1 1 2 64 0 12 1 -1 -39392898 -1 -39398384 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 792 20 0 60564134 23 0 70709767 inter_chr NaN 5 0 0 0 26_samples:0 60563805 60564130 326 90 70709463 70709752 290 92 TAF4 Intron of TAF4(-): 8Kb after exon 14 BCYRN1 3'-UTR of BCYRN1(-): 239Kb after coding stop - 0 0 0 0 3 1 5 0 1.330566e+00 1.412372e+00 8.880175e-01 4.440088e+00 1 4.440088e+00 1 60564130 70709752 1 60564134 4 70709767 15 6 9.577667e-01 0 0 73 0 15 1 -1 -60564131 -1 -70709753 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 35 1 0 6257821 1 1 95423035 long_range 89165316 25 0 0 0 26_samples:0 6257709 6257823 115 18 95423139 95423303 165 23 RPL22 Intron of RPL22(-): 7bp before exon 2 ALG14 IGR: 25Kb before ALG14(-) - 2.000000e-02 0 0 0 3 0 11 6 -2.757158e+00 -2.433551e+00 1.745268e-01 4.363169e+00 1 4.363169e+00 1 6257823 95423139 1 6257821 -2 95423035 -104 14 8.524375e-01 0 0 64 29 GAGCCATGGCGGCAGCGGAGTTAGAAAGG 115 1 6257821 -2 95423037 -102 3 8.870729e-01 0 0 64 31 GAGCCATGGCGGCAGCGGAGTTAGAAAGGGC 15 1 7.666667e+00 LUSC-43-3920 389 3 0 99735844 4 1 76871067 inter_chr NaN 6 0 0 0 26_samples:0 99735555 99735844 290 64 76871067 76871210 144 18 C3orf26 Intron of C3orf26(+): 130Kb before exon 2 SDAD1 IGR: 2bp before SDAD1(-) - 0 0 3.000000e-02 0 3 0 7 1 2.541621e-01 -1.748688e+00 7.032967e-01 4.219780e+00 1 4.219780e+00 1 99735844 76871067 1 99735875 31 76871067 0 1 8.924733e-01 0 0 62 0 16 1 -1 -99735845 -1 -76871068 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-43-3920 387 2 1 80157339 19 0 6865382 inter_chr NaN 6 0 0 0 26_samples:0 80157339 80157449 111 4 6865236 6865382 147 24 CTNNA2 Intron of CTNNA2(+): 20Kb after exon 7 EMR1 IGR: 22Kb before EMR1(+) - 6.000000e-02 1.200000e-01 5.000000e-02 5.000000e-02 5 1 7 1 -2.358251e+00 -1.487447e+00 6.924768e-01 4.154861e+00 1 4.154861e+00 1 80157339 6865382 1 80157380 41 6865572 190 10 9.509577e-01 1 2 106 0 36 1 80157410 71 6865582 200 3 9.175704e-01 1 3 82 0 13 -1 2.769231e+00 LUSC-43-3920 296 7 0 57163129 7 0 106719526 long_range 49556426 7 0 0 0 26_samples:0 57162862 57163098 237 47 106719253 106719524 272 58 ZNF479 IGR: 24Kb before ZNF479(-) PRKAR2B Intron of PRKAR2B(+): 9Kb after exon 2 - 4.200000e-01 3.500000e-01 0 0 4 1 3 0 -4.860217e-01 -7.079214e-03 5.894892e-01 4.126424e+00 1 4.126424e+00 1 57163098 106719524 1 57163129 31 106719526 2 8 9.686131e-01 0 0 75 0 21 1 -1 -57163099 -1 -106719525 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 661 6 0 63655010 6 1 123849590 long_range 60194602 5 0 0 0 26_samples:0 63654654 63654992 339 97 123849594 123849857 264 67 LGSN IGR: 331Kb before LGSN(-) TRDN Intron of TRDN(-): 2Kb after exon 5 - 0 0 0 0 2 1 2 0 1.616886e+00 3.898011e-01 8.098774e-01 4.049387e+00 1 4.049387e+00 1 63654992 123849594 1 63655010 18 123849590 -4 4 9.608244e-01 0 2 72 0 9 1 -1 -63654993 -1 -123849595 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 804 1 1 18085801 1 0 18120450 tandem_dup 34611 4 0 0 0 26_samples:0 18085833 18086103 271 76 18120191 18120444 254 80 ACTL8 5'-UTR of ACTL8(+): 64Kb before coding start ACTL8 5'-UTR of ACTL8(+): 29Kb before coding start Duplication within transcript 0 0 0 0 2 1 2 1 7.261716e-01 8.738029e-01 1 4 1 4 1 18085833 18120444 1 18085801 -32 18120450 6 2 1 1 5 87 0 26 1 -1 -18085834 -1 -18120445 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 1025 3 0 115825715 3 1 116008398 deletion 182717 4 0 0 0 26_samples:0 115825504 115825690 187 48 116008407 116008644 238 81 LSAMP Intron of LSAMP(-): 20Kb before exon 2 LSAMP Intron of LSAMP(-): 155Kb after exon 1 Deletion within intron 3.000000e-02 6.000000e-02 0 0 1 0 4 0 -3.072479e-01 9.107108e-01 1 4 1 4 1 115825690 116008407 1 115825715 25 116008398 -9 3 1 0 2 75 0 7 1 -1 -115825691 -1 -116008408 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 1103 5 1 31490237 5 0 31495535 tandem_dup 5264 4 0 0 0 26_samples:0 31490275 31490527 253 70 31495275 31495539 265 76 RNASEN Intron of RNASEN(-): 3Kb after exon 12 RNASEN Intron of RNASEN(-): 60bp before exon 11 Duplication of 2 exons: in frame 1.000000e-02 0 0 0 4 0 3 0 5.047246e-01 7.261716e-01 1 4 1 4 1 31490275 31495539 1 31490237 -38 31495535 -4 3 9.547476e-01 1 0 63 0 11 1 31490370 95 31495863 324 1 8.386852e-01 1 0 79 0 2 1 5.500000e+00 LUSC-43-3920 1123 6 1 138854720 6 0 138873664 tandem_dup 18921 4 0 0 0 26_samples:0 138854742 138854964 223 60 138873404 138873663 260 75 NHSL1 Intron of NHSL1(-): 37Kb before exon 2 NHSL1 Intron of NHSL1(-): 19Kb after exon 1 Duplication within intron 0 0 1.000000e-02 2.000000e-02 4 0 2 0 1.356462e-01 6.892637e-01 1 4 1 4 1 138854742 138873663 1 138854720 -22 138873664 1 2 9.139732e-01 1 0 62 0 6 1 -1 -138854743 -1 -138873664 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 1153 7 0 62727351 7 0 106719526 long_range 43992033 4 0 0 0 26_samples:0 62727245 62727358 114 6 106719262 106719391 130 13 LOC643955 IGR: 24Kb before LOC643955(-) PRKAR2B Intron of PRKAR2B(+): 9Kb after exon 2 - 1.400000e-01 1.200000e-01 0 0 2 1 3 0 -1.857377e+00 -1.599022e+00 1 4 1 4 1 62727358 106719391 1 62727351 -7 106719526 135 3 1 0 0 75 0 11 1 -1 -62727359 -1 -106719392 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 1196 7 0 40940778 20 1 15026778 inter_chr NaN 4 0 0 0 26_samples:0 40940497 40940732 236 63 15026791 15027012 222 50 C7orf10 IGR: 40Kb after C7orf10(+) MACROD2 Intron of MACROD2(+): 184Kb before exon 6 - 0 0 0 0 4 2 2 0 2.463697e-01 -2.334322e-01 1 4 1 4 1 40940732 15026791 1 40940778 46 15026778 -13 3 9.610160e-01 0 3 79 16 AATATAGAATAAATTG 8 1 -1 -40940733 -1 -15026792 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 1211 9 1 122462595 9 0 122469161 tandem_dup 6497 4 0 0 0 26_samples:0 122462666 122462887 222 60 122468965 122469163 199 72 DBC1 IGR: 331Kb after DBC1(-) DBC1 IGR: 337Kb after DBC1(-) - 0 0 0 0 0 0 2 0 1.356462e-01 5.785402e-01 1 4 1 4 1 122462666 122469163 1 122462595 -71 122469161 -2 4 9.880809e-01 1 0 71 0 8 1 -1 -122462667 -1 -122469164 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 1312 11 0 13391824 11 1 121935309 long_range 108543616 4 0 0 0 26_samples:0 13391667 13391808 142 33 121935424 121935588 165 29 ARNTL Intron of ARNTL(+): 494bp after exon 12 LOC399959 IGR: 24Kb before LOC399959(-) - 0 0 0 0 1 0 2 1 -8.608655e-01 -1.008497e+00 1 4 1 4 1 13391808 121935424 1 13391824 16 121935309 -115 2 9.891307e-01 0 0 73 1 C 12 1 -1 -13391809 -1 -121935425 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 1315 11 0 70935471 11 1 121933577 long_range 50998231 4 0 0 0 26_samples:0 70935215 70935360 146 19 121933591 121933706 116 34 SHANK2 5'-UTR of SHANK2(-): 77Kb before coding start LOC399959 IGR: 26Kb before LOC399959(-) - 0 0 0 0 1 0 2 0 -1.377575e+00 -8.239576e-01 1 4 1 4 1 70935360 121933591 1 70935471 111 121933577 -14 7 9.931798e-01 0 0 68 0 13 1 -1 -70935361 -1 -121933592 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 1317 11 0 121933767 11 0 121935784 inversion 2049 4 0 0 0 26_samples:0 121933577 121933695 119 8 121935627 121935744 118 9 LOC399959 IGR: 26Kb before LOC399959(-) LOC399959 IGR: 24Kb before LOC399959(-) - 0 0 0 0 2 0 2 0 -1.783561e+00 -1.746654e+00 1 4 1 4 1 121933695 121935744 1 121933767 72 121935784 40 7 9.405304e-01 0 1 64 26 TAGCCAGGAAGACTTCCTGAAAGAAG 13 1 -1 -121933696 -1 -121935745 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 1318 11 1 27610814 11 1 30637886 long_range 3027097 4 0 0 0 26_samples:0 27610816 27611041 226 53 30637913 30638116 204 50 BDNFOS 5'-UTR of BDNFOS(+): 89Kb before coding start MPPED2 IGR: 30Kb after MPPED2(-) - 3.000000e-02 0 0 0 4 1 4 0 -1.227087e-01 -2.334322e-01 1 4 1 4 1 27610816 30637913 1 27610814 -2 30637886 -27 5 9.605126e-01 1 3 82 17 GCAGTGTATTATAAGGA 8 1 -1 -27610817 -1 -30637914 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 1354 14 1 83956212 14 0 83964566 tandem_dup 8289 4 0 0 0 26_samples:0 83956231 83956470 240 67 83964330 83964520 191 44 SEL1L IGR: 2Mb before SEL1L(-) SEL1L IGR: 2Mb before SEL1L(-) - 0 0 0 0 3 0 1 1 3.940010e-01 -4.548792e-01 1 4 1 4 1 83956231 83964520 1 83956212 -19 83964566 46 2 1 1 5 83 0 6 1 -1 -83956232 -1 -83964521 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-43-3920 1365 15 0 88939715 20 0 8775441 inter_chr NaN 4 0 0 0 26_samples:0 88939527 88939715 189 40 8775283 8775441 159 28 MRPL46 IGR: 63Kb before MRPL46(-) PLCB1 Intron of PLCB1(+): 5Kb after exon 31 - 0 0 0 0 3 0 4 0 -6.025106e-01 -1.045405e+00 1 4 1 4 1 88939715 8775441 1 -1 -88939716 -1 -8775442 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -88939716 -1 -8775442 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-43-3920 1396 18 0 65216441 18 1 65223340 deletion 7003 4 0 0 0 26_samples:0 65216189 65216340 152 24 65223343 65223536 194 40 DSEL IGR: 43Kb before DSEL(-) DSEL IGR: 50Kb before DSEL(-) - 0 0 1.000000e-02 0 1 0 3 0 -1.193036e+00 -6.025106e-01 1 4 1 4 1 65216340 65223343 1 65216441 101 65223340 -3 4 1 0 4 75 0 8 1 65216691 351 65223031 -312 2 8.181267e-01 0 1 80 1 C 4 1 2 LUSC-43-3920 1414 20 0 61563158 23 1 71507870 inter_chr NaN 4 0 0 0 26_samples:0 61563022 61563164 143 20 71507901 71508019 119 9 DIDO1 5'-UTR of DIDO1(-): 20Kb before coding start CITED1 IGR: 14Kb before CITED1(-) - 0 0 0 9.000000e-02 3 0 3 2 -1.340667e+00 -1.746654e+00 1 4 1 4 1 61563164 71507901 1 61563158 -6 71507870 -31 3 9.000856e-01 0 1 74 60 TCTCACTCCAGTCAGAATGGCGATTATTAAAAAGTCAGGAAACAATAGATGGTGGCGAGG 15 1 -1 -61563165 -1 -71507902 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 1 11 1 13769189 11 1 14240046 inversion 470857 198 0 0 0 26_samples:0 13769186 13769652 467 63 14240043 14240612 570 71 FAR1 IGR: 15Kb after FAR1(+) SPON1 Intron of SPON1(+): 25Kb before exon 7 - 0 0 0 0 1 1 2 0 9.079334e-03 5.495695e-01 1 198 1 198 1 13769186 14240043 1 13769189 3 14240046 3 20 9.809222e-01 1 1 68 0 250 1 -1 -13769187 -1 -14240044 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 2 3 1 123958207 3 1 125897569 long_range 1939367 151 0 0 0 26_samples:0 123958202 123958666 465 68 125897569 125897980 412 55 KALRN Intron of KALRN(+): 4Kb after exon 3 ALDH1L1 5'-UTR of ALDH1L1(-): 18Kb before coding start Transcript fusion (ALDH1L1-KALRN) 1.000000e-02 0 2.000000e-02 0 4 1 2 0 3.468857e-01 -5.314109e-01 1 151 1 151 1 123958202 125897569 1 123958207 5 125897569 0 20 9.490893e-01 1 3 73 0 111 1 -1 -123958203 -1 -125897570 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 3 3 0 127206882 3 0 177774057 long_range 50567175 147 0 0 0 26_samples:0 127206590 127206888 299 56 177773569 177774063 495 61 TPRA1 IGR: 85Kb before TPRA1(-) KCNMB2 IGR: 480Kb before KCNMB2(+) - 0 0 1.000000e-02 0 2 0 2 1 -4.638496e-01 -1.260432e-01 1 147 1 147 1 127206888 177774063 1 127206882 -6 177774057 -6 20 9.743626e-01 0 0 75 0 184 1 -1 -127206889 -1 -177774064 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 5 3 0 126241097 3 0 185241979 long_range 59000879 134 0 0 0 26_samples:0 126240599 126241104 506 75 185241636 185241983 348 63 CHST13 Promoter of CHST13(+): 2Kb from tx start LIPH Intron of LIPH(-): 35bp before exon 5 Transcript fusion (CHST13-LIPH) 4.000000e-02 0 2.000000e-02 0 4 0 3 1 8.198147e-01 9.079334e-03 1 134 1 134 1 126241104 185241983 1 126241097 -7 185241979 -4 20 9.852973e-01 0 1 67 0 159 1 -1 -126241105 -1 -185241984 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 4 3 0 123998226 3 1 126832853 long_range 2834612 136 0 0 0 26_samples:0 123997649 123998240 592 83 126832852 126833289 438 66 KALRN Intron of KALRN(+): 10Kb after exon 5 PLXNA1 IGR: 125Kb before PLXNA1(+) - 2.000000e-02 0 0 0 3 0 2 1 1.360305e+00 2.117632e-01 9.553155e-01 1.299229e+02 1 1.299229e+02 1 123998240 126832852 1 123998226 -14 126832853 1 20 9.880361e-01 0 1 76 0 155 1 -1 -123998241 -1 -126832853 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 6 3 1 182009695 11 0 14835444 inter_chr NaN 124 0 0 0 26_samples:0 182009693 182010196 504 77 14835032 14835449 418 69 ATP11B IGR: 502Kb before ATP11B(+) PDE3B Intron of PDE3B(+): 4Kb before exon 6 - 1.000000e-02 0 0 0 3 0 3 0 9.549372e-01 4.144470e-01 1 124 1 124 1 182009693 14835449 1 182009695 2 14835444 -5 20 9.962891e-01 1 1 78 0 154 1 -1 -182009694 -1 -14835450 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 7 3 0 127181806 3 1 177743376 long_range 50561554 110 0 0 0 26_samples:0 127181366 127181814 449 64 177743368 177743688 321 59 TPRA1 IGR: 110Kb before TPRA1(-) KCNMB2 IGR: 511Kb before KCNMB2(+) - 0 0 0 0 2 1 2 0 7.664061e-02 -2.611658e-01 1 110 1 110 1 127181814 177743368 1 127181806 -8 177743376 8 20 9.924973e-01 0 1 71 0 96 1 -1 -127181815 -1 -177743369 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 8 11 0 13849071 11 0 43470644 long_range 29621576 92 0 0 0 26_samples:0 13848502 13849075 574 69 43470458 43470651 194 41 SPON1 IGR: 135Kb before SPON1(+) TTC17 Intron of TTC17(+): 979bp after exon 19 - 0 0 0 0 4 0 2 0 4.144470e-01 -1.477269e+00 1 92 1 92 1 13849075 43470651 1 13849071 -4 43470644 -7 20 8.973177e-01 0 3 61 0 58 1 -1 -13849076 -1 -43470652 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 9 11 0 15407884 11 1 26635866 long_range 11227974 68 0 0 0 26_samples:0 15407485 15407888 404 66 26635862 26636192 331 63 INSC IGR: 271Kb before INSC(+) ANO3 Intron of ANO3(+): 10Kb before exon 18 - 0 0 0 3.000000e-02 4 0 2 1 2.117632e-01 9.079334e-03 1 68 1 68 1 15407888 26635862 1 15407884 -4 26635866 4 20 9.969515e-01 0 3 78 0 82 1 -1 -15407889 -1 -26635863 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 11 3 0 182109542 3 0 182890125 inversion 780581 56 0 0 0 26_samples:0 182109221 182109549 329 63 182889869 182890130 262 60 ATP11B IGR: 402Kb before ATP11B(+) MCF2L2 IGR: 6Kb before MCF2L2(-) - 0 0 0 0 4 0 1 0 9.079334e-03 -1.936045e-01 1 56 1 56 1 182109549 182890130 1 182109542 -7 182890125 -5 20 9.948045e-01 0 3 78 0 63 1 -1 -182109550 -1 -182890131 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 12 3 1 182098440 3 1 182963366 inversion 864949 55 0 0 0 26_samples:0 182098421 182098807 387 69 182963370 182963690 321 56 ATP11B IGR: 413Kb before ATP11B(+) MCF2L2 Intron of MCF2L2(-): 15Kb before exon 16 - 0 0 0 0 5 0 2 0 4.144470e-01 -4.638496e-01 9.979917e-01 5.488955e+01 1 5.488955e+01 1 182098421 182963370 1 182098440 19 182963366 -4 20 9.584455e-01 1 1 72 0 90 1 -1 -182098422 -1 -182963371 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 13 11 0 14623910 11 0 14625015 inversion 1106 53 0 1 1 BR-MEX-106:1,25_samples:0 14623578 14623911 334 62 14624710 14625017 308 63 PSMA1 Intron of PSMA1(-): 9Kb after exon 2 PSMA1 Intron of PSMA1(-): 7Kb after exon 2 - 0 0 0 0 1 0 3 1 -5.848194e-02 9.079334e-03 1 53 1 53 1 14623911 14625017 1 14623910 -1 14625015 -2 20 9.848338e-01 0 0 76 1 G 68 1 -1 -14623912 -1 -14625018 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 14 11 1 15408813 11 0 22808582 long_range 7399779 52 0 0 0 26_samples:0 15408808 15409251 444 67 22808249 22808587 339 59 INSC IGR: 272Kb before INSC(+) GAS2 Intron of GAS2(+): 25Kb before exon 8 - 0 0 0 0 4 1 2 0 2.793244e-01 -2.611658e-01 1 52 1 52 1 15408808 22808587 1 15408813 5 22808582 -5 20 9.917818e-01 1 0 73 0 59 1 -1 -15408809 -1 -22808588 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 15 2 1 238491011 7 0 105670687 inter_chr NaN 51 0 0 0 26_samples:0 238491005 238491231 227 49 105670326 105670694 369 63 RAB17 Intron of RAB17(-): 4Kb after exon 2 CDHR3 Intron of CDHR3(+): 544bp before exon 18 Antisense fusion 0 0 0 0 1 1 2 0 -9.367785e-01 9.079334e-03 1 51 1 51 1 238491005 105670694 1 238491011 6 105670687 -7 15 9.542585e-01 1 0 74 1 T 54 1 -1 -238491006 -1 -105670695 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 16 8 1 125619083 21 0 35716053 inter_chr NaN 50 0 0 0 26_samples:0 125619081 125619411 331 60 35715703 35716059 357 69 MTSS1 Intron of MTSS1(-): 16Kb before exon 4 KCNE2 IGR: 20Kb before KCNE2(+) - 0 0 0 0 1 0 1 1 -1.936045e-01 4.144470e-01 1 50 1 50 1 125619081 35716059 1 125619083 2 35716053 -6 20 9.915171e-01 1 0 76 0 51 1 -1 -125619082 -1 -35716060 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 17 8 0 146124267 19 1 53207435 inter_chr NaN 48 0 0 0 26_samples:0 146123864 146124277 414 70 53207427 53207851 425 77 ZNF250 5'-UTR of ZNF250(-): 9Kb before coding start ZNF611 3'-UTR of ZNF611(-): 763bp after coding stop - 0 0 2.000000e-02 4.000000e-02 4 1 3 0 4.820083e-01 9.549372e-01 1 48 1 48 1 146124277 53207427 1 146124267 -10 53207435 8 20 1 0 5 76 0 49 1 -1 -146124278 -1 -53207428 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 18 3 1 160198054 3 1 162219777 long_range 2021721 42 0 0 0 26_samples:0 160198054 160198430 377 69 162219775 162220118 344 63 KPNA4 IGR: 20Kb before KPNA4(-) OTOL1 IGR: 1Mb before OTOL1(+) - 0 4.000000e-02 0 2.000000e-02 2 1 1 0 4.144470e-01 9.079334e-03 1 42 1 42 1 160198054 162219775 1 160198054 0 162219777 2 20 9.989442e-01 1 0 69 0 54 1 -1 -160198055 -1 -162219776 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 19 3 0 182938374 11 0 26839847 inter_chr NaN 41 0 0 0 26_samples:0 182937917 182938374 458 81 26839550 26839847 298 52 MCF2L2 Intron of MCF2L2(-): 662bp before exon 21 SLC5A12 IGR: 151Kb before SLC5A12(-) - 2.000000e-02 0 1.000000e-02 0 2 1 2 0 1.225182e+00 -7.340947e-01 9.887106e-01 4.053713e+01 1 4.053713e+01 1 182938374 26839847 1 182938374 0 26839847 0 20 9.815879e-01 0 3 70 0 44 1 -1 -182938375 -1 -26839848 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 21 3 1 162499575 3 1 162501473 inversion 1892 37 0 0 0 26_samples:0 162499576 162499902 327 52 162501468 162501828 361 59 OTOL1 IGR: 1Mb before OTOL1(+) OTOL1 IGR: 1Mb before OTOL1(+) - 0 0 0 0 3 0 3 1 -7.340947e-01 -2.611658e-01 1 37 1 37 1 162499576 162501468 1 162499575 -1 162501473 5 20 9.788205e-01 1 4 73 0 39 1 -1 -162499577 -1 -162501469 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 23 8 0 56174038 8 1 59023746 long_range 2849695 34 0 0 0 26_samples:0 56173700 56174044 345 69 59023739 59024126 388 76 XKR4 Intron of XKR4(+): 96Kb before exon 2 FAM110B 5'-UTR of FAM110B(+): 35Kb before coding start Transcript fusion (XKR4-FAM110B) 0 0 0 0 2 0 2 0 4.144470e-01 8.873759e-01 1 34 1 34 1 56174044 59023739 1 56174038 -6 59023746 7 20 9.956675e-01 0 0 72 0 29 1 -1 -56174045 -1 -59023740 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 24 7 0 127550950 7 1 127573825 deletion 22870 33 0 0 0 26_samples:0 127550595 127550956 362 66 127573826 127574116 291 56 SND1 Intron of SND1(+): 6Kb after exon 14 SND1 Intron of SND1(+): 4Kb after exon 15 Deletion of 1 exon: out of frame 0 0 0 0 2 0 1 1 2.117632e-01 -4.638496e-01 1 33 1 33 1 127550956 127573826 1 127550950 -6 127573825 -1 18 9.838835e-01 0 2 79 0 26 1 -1 -127550957 -1 -127573827 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 26 11 0 13850965 11 1 43470462 long_range 29619485 33 0 0 0 26_samples:0 13850628 13850967 340 53 43470452 43470648 197 45 SPON1 IGR: 133Kb before SPON1(+) TTC17 Intron of TTC17(+): 780bp after exon 19 - 0 0 0 0 1 0 2 0 -6.665334e-01 -1.207024e+00 1 33 1 33 1 13850967 43470452 1 13850965 -2 43470462 10 20 9.978340e-01 0 1 64 0 48 1 -1 -13850968 -1 -43470453 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 28 11 0 15426134 11 1 24754433 long_range 9328292 33 0 0 0 26_samples:0 15425823 15426144 322 61 24754436 24754702 267 54 INSC IGR: 290Kb before INSC(+) LUZP2 Intron of LUZP2(+): 702bp after exon 3 - 0 0 0 0 1 0 3 0 -1.260432e-01 -5.989722e-01 1 33 1 33 1 15426144 24754436 1 15426134 -10 24754433 -3 20 9.933499e-01 0 1 83 0 43 1 -1 -15426145 -1 -24754437 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 31 12 0 46081591 12 1 89514594 long_range 43433016 31 0 0 0 26_samples:0 46081266 46081593 328 59 89514609 89514883 275 50 LOC400027 IGR: 38Kb before LOC400027(-) DUSP6 IGR: 227Kb before DUSP6(-) - 1.000000e-02 0 0 0 1 0 1 0 -2.611658e-01 -8.692173e-01 1 31 1 31 1 46081593 89514609 1 46081591 -2 89514594 -15 20 9.903527e-01 0 1 68 0 33 1 -1 -46081594 -1 -89514610 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 27 11 1 14276049 11 0 22802365 long_range 8526318 33 0 0 0 26_samples:0 14276049 14276427 379 61 22801992 22802367 376 59 SPON1 Intron of SPON1(+): 25bp before exon 8 GAS2 Intron of GAS2(+): 25Kb after exon 7 Protein fusion: out of frame (GAS2-SPON1) 0 0 3.000000e-02 4.000000e-02 6 0 4 1 -1.260432e-01 -2.611658e-01 9.351249e-01 3.085912e+01 1 3.085912e+01 1 14276049 22802367 1 14276049 0 22802365 -2 20 9.941037e-01 1 2 76 0 62 1 -1 -14276050 -1 -22802368 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 32 2 1 53495631 3 1 126131196 inter_chr NaN 30 0 0 0 26_samples:0 53495644 53495909 266 47 126131193 126131471 279 49 ASB3 IGR: 401Kb before ASB3(-) CCDC37 Intron of CCDC37(+): 2Kb before exon 4 - 0 0 0 0 2 0 2 0 -1.071901e+00 -9.367785e-01 1 30 1 30 1 53495644 126131193 1 53495631 -13 126131196 3 20 9.989722e-01 1 0 74 0 32 1 -1 -53495645 -1 -126131194 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 34 4 0 84161991 4 0 154803614 long_range 70641609 28 0 0 0 26_samples:0 84161657 84161999 343 64 154803250 154803608 359 69 COQ2 IGR: 23Kb before COQ2(-) SFRP2 IGR: 102Kb before SFRP2(-) - 0 2.000000e-02 2.000000e-02 2.000000e-02 2 0 2 1 9.920094e-02 3.967183e-01 1 28 1 28 1 84161999 154803608 1 84161991 -8 154803614 6 18 9.986621e-01 0 2 73 0 25 1 -1 -84162000 -1 -154803609 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 36 12 0 22945483 12 0 80565153 long_range 57619667 26 0 0 0 26_samples:0 22945182 22945485 304 80 80564797 80565152 356 80 ETNK1 IGR: 167Kb before ETNK1(+) C12orf64 IGR: 38Kb before C12orf64(+) - 0 0 2.000000e-02 3.000000e-02 2 0 3 0 1.051256e+00 1.051256e+00 9.997307e-01 2.599300e+01 1 2.599300e+01 1 22945485 80565152 1 22945483 -2 80565153 1 15 9.824542e-01 0 2 74 0 26 1 -1 -22945486 -1 -80565153 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 37 4 0 190632818 4 1 190637488 deletion 4660 25 0 0 0 26_samples:0 190632466 190632824 359 68 190637484 190637776 293 61 FRG1 IGR: 229Kb before FRG1(+) FRG1 IGR: 224Kb before FRG1(+) - 0 0 0 1.000000e-02 1 1 1 1 3.372148e-01 -7.930944e-02 1 25 1 25 1 190632824 190637484 1 190632818 -6 190637488 4 20 9.872273e-01 0 6 78 0 44 1 190633028 204 190637480 -4 1 7.566785e-01 0 3 68 0 17 1 2.588235e+00 LUSC-56-1622 39 12 1 71718780 12 0 89522305 long_range 17803535 25 0 0 0 26_samples:0 71718774 71719086 313 69 89522052 89522309 258 55 LGR5 IGR: 115Kb before LGR5(+) DUSP6 IGR: 220Kb before DUSP6(-) - 2.000000e-02 0 0 0 4 1 2 2 3.967183e-01 -4.363302e-01 1 25 1 25 1 71718774 89522309 1 71718780 6 89522305 -4 20 9.910869e-01 1 3 64 0 38 1 -1 -71718775 -1 -89522310 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 40 12 1 83268914 12 0 83271192 tandem_dup 2278 25 0 0 0 26_samples:0 83268910 83269265 356 55 83270851 83271188 338 44 TMTC2 Intron of TMTC2(+): 18Kb after exon 2 TMTC2 Intron of TMTC2(+): 18Kb before exon 3 Duplication within intron 0 0 0 0 0 1 1 1 -4.363302e-01 -1.090868e+00 1 25 1 25 1 83268910 83271188 1 83268914 4 83271192 4 12 1 1 0 88 0 17 1 -1 -83268911 -1 -83271189 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 29 8 0 53450363 8 1 56054000 long_range 2603675 31 0 0 0 26_samples:0 53449970 53450326 357 58 56054001 56054226 226 50 FAM150A 3'-UTR of FAM150A(-): 677bp after coding stop XKR4 Intron of XKR4(+): 38Kb after exon 1 - 1.000000e-02 0 4.000000e-02 4.000000e-02 7 2 5 4 -3.287270e-01 -8.692173e-01 7.781517e-01 2.412270e+01 1 2.412270e+01 1 53450326 56054001 1 53450363 37 56054000 -1 20 9.844848e-01 0 1 55 0 47 1 53450527 201 56054002 1 1 7.543190e-01 0 1 76 1 T 5 1 9.400000e+00 LUSC-56-1622 38 11 0 32707777 11 1 32715480 deletion 7725 25 0 0 0 26_samples:0 32707539 32707777 239 58 32715502 32715793 292 58 CCDC73 Intron of CCDC73(-): 3Kb before exon 7 CCDC73 Intron of CCDC73(-): 5Kb after exon 6 Deletion within intron 4.000000e-02 2.000000e-02 3.200000e-01 1.600000e-01 4 2 5 3 -2.578198e-01 -2.578198e-01 9.459890e-01 2.364973e+01 1 2.364973e+01 1 32707777 32715502 1 32707777 0 32715480 -22 4 9.036835e-01 0 1 70 0 20 1 -1 -32707778 -1 -32715503 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 41 10 0 89518272 10 1 89654302 deletion 136027 23 0 0 0 26_samples:0 89517917 89518263 347 61 89654290 89654727 438 79 ATAD1 Intron of ATAD1(-): 2Kb before exon 9 PTEN Intron of PTEN(+): 424bp after exon 2 - 0 0 0 0 2 0 2 0 -7.930944e-02 9.917529e-01 1 23 1 23 1 89518263 89654290 1 89518272 9 89654302 12 20 9.915629e-01 0 3 76 0 31 1 -1 -89518264 -1 -89654291 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 20 8 1 34156891 8 1 37599362 long_range 3442468 39 0 0 0 26_samples:0 34156887 34157395 509 83 37599355 37599657 303 57 DUSP26 IGR: 708Kb before DUSP26(-) ERLIN2 Intron of ERLIN2(+): 19bp after exon 4 - 7.000000e-02 4.000000e-02 5.000000e-02 3.000000e-02 4 2 8 0 1.360305e+00 -3.962883e-01 5.842305e-01 2.278499e+01 1 2.278499e+01 1 34156887 37599355 1 34156891 4 37599362 7 20 9.826932e-01 1 2 63 0 41 1 -1 -34156888 -1 -37599356 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 43 2 0 105393660 23 0 28665677 inter_chr NaN 22 0 0 0 26_samples:0 105393358 105393664 307 56 28665393 28665679 287 56 POU3F3 IGR: 78Kb before POU3F3(+) IL1RAPL1 5'-UTR of IL1RAPL1(+): 142Kb before coding start - 0 0 0 0 3 0 3 1 -3.768267e-01 -3.768267e-01 1 22 1 22 1 105393664 28665679 1 105393660 -4 28665677 -2 20 9.989574e-01 0 0 75 0 34 1 -1 -105393665 -1 -28665680 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 44 3 0 161726752 3 0 161782642 inversion 55885 22 0 0 0 26_samples:0 161726440 161726755 316 65 161782352 161782640 289 61 OTOL1 IGR: 512Kb before OTOL1(+) OTOL1 IGR: 568Kb before OTOL1(+) - 0 0 0 0 3 0 3 0 1.587044e-01 -7.930944e-02 1 22 1 22 1 161726755 161782640 1 161726752 -3 161782642 2 18 9.988069e-01 0 5 78 0 28 1 -1 -161726756 -1 -161782641 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 45 3 0 163661629 3 0 172426098 long_range 8764478 22 0 0 0 26_samples:0 163661358 163661625 268 58 172425739 172426103 365 69 SI IGR: 1Mb before SI(-) NCEH1 Intron of NCEH1(-): 3Kb after exon 1 - 0 0 0 0 3 0 3 2 -2.578198e-01 3.967183e-01 1 22 1 22 1 163661625 172426103 1 163661629 4 172426098 -5 18 9.932026e-01 0 7 81 0 30 1 -1 -163661626 -1 -172426104 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 46 10 0 90013982 10 1 90245921 deletion 231924 22 0 0 0 26_samples:0 90013677 90013989 313 54 90245913 90246263 351 55 RNLS IGR: 20Kb before RNLS(-) RNLS Intron of RNLS(-): 87Kb after exon 4 - 0 0 3.000000e-02 6.000000e-02 3 0 3 2 -4.958337e-01 -4.363302e-01 1 22 1 22 1 90013989 90245913 1 90013982 -7 90245921 8 17 9.986173e-01 0 2 73 0 18 1 -1 -90013990 -1 -90245914 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 47 12 0 45198307 12 1 47845301 long_range 2647009 22 0 0 0 26_samples:0 45197987 45198304 318 57 47845313 47845550 238 42 NELL2 Intron of NELL2(-): 11Kb after exon 4 RPAP3 IGR: 210Kb before RPAP3(-) - 0 0 0 0 1 0 3 0 -3.173233e-01 -1.209875e+00 1 22 1 22 1 45198304 47845313 1 45198307 3 47845301 -12 20 9.842358e-01 0 0 67 0 33 1 -1 -45198305 -1 -47845314 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 48 19 1 52988447 22 0 41755308 inter_chr NaN 22 0 0 0 26_samples:0 52988454 52988714 261 48 41754924 41755282 359 62 ZNF578 5'-UTR of ZNF578(+): 17Kb before coding start ZC3H7B 3'-UTR of ZC3H7B(+): 2Kb after coding stop - 3.000000e-02 2.000000e-02 0 0 1 1 1 0 -8.528544e-01 -1.980598e-02 1 22 1 22 1 52988454 41755282 1 52988447 -7 41755308 26 11 9.781448e-01 1 0 78 1 C 27 1 -1 -52988455 -1 -41755283 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 49 2 0 238491227 7 0 105672033 inter_chr NaN 21 0 0 0 26_samples:0 238491013 238491225 213 35 105671679 105672027 349 65 RAB17 Intron of RAB17(-): 3Kb after exon 2 CDHR3 Intron of CDHR3(+): 741bp after exon 18 Protein fusion: in frame (CDHR3-RAB17) 0 0 0 0 1 1 1 1 -1.626399e+00 1.587044e-01 1 21 1 21 1 238491225 105672027 1 238491227 2 105672033 6 13 8.341530e-01 0 0 80 0 38 1 -1 -238491226 -1 -105672028 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 50 6 0 54649512 6 1 54660630 deletion 11108 21 0 0 0 26_samples:0 54649208 54649517 310 57 54660625 54660905 281 53 FAM83B IGR: 62Kb before FAM83B(+) FAM83B IGR: 51Kb before FAM83B(+) - 0 0 2.000000e-02 4.000000e-02 2 0 2 0 -3.173233e-01 -5.553371e-01 1 21 1 21 1 54649517 54660625 1 54649512 -5 54660630 5 19 9.570986e-01 0 1 74 19 GAAGTCCTTGCCCATACCT 23 1 -1 -54649518 -1 -54660626 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 51 11 1 14272326 11 1 24217789 long_range 9945493 21 0 0 0 26_samples:0 14272327 14272694 368 73 24217820 24218230 411 84 SPON1 Intron of SPON1(+): 4Kb before exon 8 LUZP2 IGR: 301Kb before LUZP2(+) - 0 0 0 0 2 0 3 0 6.347321e-01 1.289270e+00 9.763667e-01 2.050370e+01 1 2.050370e+01 1 14272327 24217820 1 14272326 -1 24217789 -31 20 9.989638e-01 1 1 71 0 70 1 -1 -14272328 -1 -24217821 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 52 4 1 116012563 4 0 118043119 long_range 2030557 20 0 0 0 26_samples:0 116012559 116012950 392 80 118042839 118043116 278 57 NDST4 5'-UTR of NDST4(-): 14Kb before coding start TRAM1L1 IGR: 38Kb before TRAM1L1(-) - 0 0 0 0 2 0 4 0 1.051256e+00 -3.173233e-01 9.998654e-01 1.999731e+01 1 1.999731e+01 1 116012559 118043116 1 116012563 4 118043119 3 13 9.980610e-01 1 2 72 0 15 1 -1 -116012560 -1 -118043117 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 25 8 1 29124337 8 0 34158243 long_range 5033918 33 0 0 0 26_samples:0 29124330 29124669 340 59 34157758 34158248 491 73 KIF13B IGR: 4Kb after KIF13B(-) DUSP26 IGR: 709Kb before DUSP26(-) - 1.000000e-01 8.000000e-02 3.000000e-02 8.000000e-02 5 2 8 2 -2.611658e-01 6.846921e-01 5.905256e-01 1.948734e+01 1 1.948734e+01 1 29124330 34158248 1 29124337 7 34158243 -5 20 1 1 2 71 0 37 1 -1 -29124331 -1 -34158249 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 56 14 0 29880832 14 1 29952732 deletion 71901 19 0 0 0 26_samples:0 29880558 29880834 277 61 29952735 29953033 299 63 PRKD1 IGR: 165Kb before PRKD1(-) PRKD1 IGR: 93Kb before PRKD1(-) - 0 0 5.000000e-02 3.000000e-02 1 0 2 1 -4.693789e-02 6.185045e-02 1 19 1 19 1 29880834 29952735 1 29880832 -2 29952732 -3 17 1 0 0 76 0 24 1 -1 -29880835 -1 -29952736 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 57 4 1 84044761 4 1 116840752 long_range 32795996 18 0 0 0 26_samples:0 84044757 84045057 301 65 116840753 116841065 313 67 PLAC8 IGR: 29Kb before PLAC8(-) MIR1973 IGR: 380Kb before MIR1973(+) - 2.000000e-02 0 0 0 2 0 1 1 1.706388e-01 2.794272e-01 1 18 1 18 1 84044757 116840753 1 84044761 4 116840752 -1 15 9.967255e-01 1 2 76 0 22 1 -1 -84044758 -1 -116840754 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 59 12 0 6222434 12 1 6441364 deletion 218939 18 0 0 0 26_samples:0 6222145 6222423 279 67 6441362 6441687 326 74 VWF Intron of VWF(-): 2Kb before exon 4 TNFRSF1A Intron of TNFRSF1A(-): 873bp after exon 5 Protein fusion: out of frame (TNFRSF1A-VWF) 0 0 3.000000e-02 4.000000e-02 3 2 3 3 2.794272e-01 6.601864e-01 1 18 1 18 1 6222423 6441362 1 6222434 11 6441364 2 10 9.577714e-01 0 0 65 1 A 21 1 -1 -6222424 -1 -6441363 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 58 8 0 112346592 22 1 29065610 inter_chr NaN 18 0 0 0 26_samples:0 112346294 112346590 297 52 29065611 29065887 277 53 CSMD3 IGR: 889Kb before CSMD3(-) TTC28 Intron of TTC28(-): 10Kb after exon 1 - 0 0 0 0 2 0 5 0 -5.364855e-01 -4.820913e-01 9.846154e-01 1.772308e+01 1 1.772308e+01 1 112346590 29065611 1 112346592 2 29065610 -1 7 9.130108e-01 0 1 66 24 ACAAAGATCTTCCCTTTGACCAGT 22 1 -1 -112346591 -1 -29065612 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 61 12 1 31929147 12 0 71051030 long_range 39121864 17 0 0 0 26_samples:0 31929137 31929351 215 41 71050722 71051001 280 49 H3F3C IGR: 15Kb before H3F3C(-) PTPRR Intron of PTPRR(-): 404bp before exon 13 - 0 0 2.000000e-02 0 3 0 2 1 -1.134821e+00 -6.996680e-01 1 17 1 17 1 31929137 71051001 1 31929147 10 71051030 29 11 9.867959e-01 1 3 67 0 29 1 -1 -31929138 -1 -71051002 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 62 12 0 31929351 12 1 71795580 long_range 39866259 17 0 0 0 26_samples:0 31929143 31929343 201 46 71795602 71795902 301 53 H3F3C IGR: 15Kb before H3F3C(-) LGR5 IGR: 38Kb before LGR5(+) - 0 0 0 0 3 0 2 1 -8.628505e-01 -4.820913e-01 1 17 1 17 1 31929343 71795602 1 31929351 8 71795580 -22 17 9.736051e-01 0 0 76 0 25 1 -1 -31929344 -1 -71795603 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 64 3 0 169210462 3 0 171691024 long_range 2480556 16 0 0 0 26_samples:0 169210197 169210463 267 48 171690643 171691019 377 67 MECOM Intron of MECOM(-): 111Kb before exon 2 FNDC3B IGR: 66Kb before FNDC3B(+) - 0 4.000000e-02 0 0 3 0 2 2 -7.540622e-01 2.794272e-01 1 16 1 16 1 169210463 171691019 1 169210462 -1 171691024 5 15 9.979943e-01 0 1 74 0 43 1 -1 -169210464 -1 -171691020 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 65 3 0 174768597 11 0 424753 inter_chr NaN 16 0 0 0 26_samples:0 174768297 174768607 311 67 424484 424753 270 55 NAALADL2 Intron of NAALADL2(+): 46Kb before exon 2 ANO9 Intron of ANO9(-): 3Kb after exon 15 Protein fusion: out of frame (NAALADL2-ANO9) 0 0 0 0 3 0 2 0 2.794272e-01 -3.733029e-01 1 16 1 16 1 174768607 424753 1 174768597 -10 424753 0 20 9.975416e-01 0 1 71 0 27 1 -1 -174768608 -1 -424754 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 66 4 0 84045148 4 1 84162163 deletion 117056 16 0 0 0 26_samples:0 84044874 84045123 250 51 84162179 84162552 374 74 PLAC8 IGR: 30Kb before PLAC8(-) COQ2 IGR: 23Kb before COQ2(-) - 2.000000e-02 0 3.000000e-02 4.000000e-02 2 0 1 0 -5.908796e-01 6.601864e-01 1 16 1 16 1 84045123 84162179 1 84045148 25 84162163 -16 17 9.947089e-01 0 1 74 0 21 1 -1 -84045124 -1 -84162180 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 71 4 0 116653229 4 1 154803604 long_range 38150414 15 0 0 0 26_samples:0 116652855 116653218 364 72 154803632 154803862 231 39 MIR1973 IGR: 568Kb before MIR1973(+) SFRP2 IGR: 102Kb before SFRP2(-) - 7.000000e-02 9.000000e-02 0 0 4 4 3 0 5.513980e-01 -1.243610e+00 1 15 1 15 1 116653218 154803632 1 116653229 11 154803604 -28 11 9.393768e-01 0 0 67 0 10 1 -1 -116653219 -1 -154803633 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 72 8 0 3849138 8 1 4146142 deletion 297016 15 0 0 0 26_samples:0 3848837 3849118 282 65 4146134 4146401 268 62 CSMD1 Intron of CSMD1(-): 6Kb after exon 5 CSMD1 Intron of CSMD1(-): 131Kb after exon 3 Deletion of 2 exons: out of frame 0 0 0 0 1 0 1 1 1.706388e-01 7.456280e-03 1 15 1 15 1 3849118 4146134 1 3849138 20 4146142 8 5 9.917394e-01 0 3 71 0 10 1 -1 -3849119 -1 -4146135 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 73 23 0 36852315 23 1 36855100 deletion 2789 15 0 0 0 26_samples:0 36851966 36852313 348 70 36855102 36855389 288 62 FAM47C IGR: 174Kb before FAM47C(+) FAM47C IGR: 171Kb before FAM47C(+) - 0 0 0 0 0 0 0 0 4.426097e-01 7.456280e-03 1 15 1 15 1 36852313 36855102 1 36852315 2 36855100 -2 20 9.971390e-01 0 0 74 0 22 1 -1 -36852314 -1 -36855103 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 74 3 0 164202424 3 1 164206545 deletion 4181 14 0 0 0 26_samples:0 164202205 164202396 192 42 164206577 164206831 255 50 SI IGR: 494Kb before SI(-) SI IGR: 490Kb before SI(-) - 0 0 1.000000e-02 0 2 0 2 0 -9.824697e-01 -5.783432e-01 1 14 1 14 1 164202396 164206577 1 164202424 28 164206545 -32 10 9.930221e-01 0 3 68 0 21 1 -1 -164202397 -1 -164206578 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 79 8 0 75934462 8 1 76104164 deletion 169696 14 0 0 0 26_samples:0 75934153 75934467 315 73 76104163 76104464 302 64 CRISPLD1 Intron of CRISPLD1(+): 2Kb after exon 12 CRISPLD1 IGR: 207Kb before CRISPLD1(+) - 0 0 0 0 2 0 2 1 5.835204e-01 1.288781e-01 1 14 1 14 1 75934467 76104163 1 75934462 -5 76104164 1 9 9.909342e-01 0 3 74 0 11 1 -1 -75934468 -1 -76104164 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 80 8 0 125507720 21 1 35716072 inter_chr NaN 14 0 0 0 26_samples:0 125507349 125507706 358 67 35716065 35716312 248 62 TATDN1 Intron of TATDN1(-): 7bp after exon 10 KCNE2 IGR: 20Kb before KCNE2(+) - 0 0 0 0 3 0 1 0 2.804255e-01 2.784649e-02 1 14 1 14 1 125507706 35716065 1 125507720 14 35716072 7 6 9.858516e-01 0 0 58 0 10 1 -1 -125507707 -1 -35716066 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 81 12 1 25113733 12 1 79488381 long_range 54374680 14 0 0 0 26_samples:0 25113734 25113952 219 51 79488414 79488678 265 64 C12orf77 IGR: 33Kb before C12orf77(-) SYT1 5'-UTR of SYT1(+): 123Kb before coding start - 0 0 0 0 4 1 3 1 -5.278274e-01 1.288781e-01 1 14 1 14 1 25113734 79488414 1 25113733 -1 79488381 -33 19 9.504960e-01 1 1 68 0 25 1 -1 -25113735 -1 -79488415 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 76 3 0 174463360 3 1 174635626 deletion 172264 14 0 0 0 26_samples:0 174463052 174463359 308 61 174635623 174635965 343 72 NAALADL2 IGR: 114Kb before NAALADL2(+) NAALADL2 Intron of NAALADL2(+): 58Kb after exon 1 - 2.000000e-02 2.000000e-02 0 0 5 0 1 2 -2.266932e-02 5.330046e-01 9.846154e-01 1.378462e+01 1 1.378462e+01 1 174463359 174635623 1 174463360 1 174635626 3 19 9.938805e-01 0 2 74 0 31 1 -1 -174463360 -1 -174635624 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 60 4 0 84359575 4 1 115979843 long_range 31620289 17 0 0 0 26_samples:0 84359229 84359570 342 64 115979859 115980341 483 92 HELQ Intron of HELQ(-): 1Kb before exon 9 NDST4 Intron of NDST4(-): 17Kb after exon 2 Protein fusion: out of frame (NDST4-HELQ) 0 0 0 2.000000e-02 2 1 3 1 1.162446e-01 1.639282e+00 7.928566e-01 1.347856e+01 1 1.347856e+01 1 84359570 115979859 1 84359575 5 115979843 -16 14 9.940471e-01 0 0 79 0 14 1 -1 -84359571 -1 -115979860 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 70 4 1 84477386 4 1 155178309 long_range 70700962 15 0 0 0 26_samples:0 84477384 84477720 337 81 155178346 155178584 239 44 AGPAT9 Intron of AGPAT9(+): 12Kb after exon 2 DCHS2 Intron of DCHS2(-): 2Kb before exon 21 Protein fusion: out of frame (DCHS2-AGPAT9) 2.000000e-02 4.000000e-02 2.000000e-02 0 3 1 6 2 1.040946e+00 -9.716389e-01 8.888279e-01 1.333242e+01 1 1.333242e+01 1 84477384 155178346 1 84477386 2 155178309 -37 12 9.812381e-01 1 1 70 0 16 1 -1 -84477385 -1 -155178347 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 82 3 1 178631686 3 0 178688119 tandem_dup 56432 13 0 0 0 26_samples:0 178631692 178631980 289 68 178687721 178688124 404 75 ZMAT3 IGR: 103Kb before ZMAT3(-) ZMAT3 IGR: 47Kb before ZMAT3(-) - 0 0 0 3.000000e-02 3 0 3 1 3.309414e-01 6.845520e-01 1 13 1 13 1 178631692 178688124 1 178631686 -6 178688119 -5 15 9.883418e-01 1 1 73 0 26 1 -1 -178631693 -1 -178688125 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 84 4 1 84359595 4 0 118043482 long_range 33683889 13 0 0 0 26_samples:0 84359598 84359883 286 54 118043251 118043487 237 55 HELQ Intron of HELQ(-): 1Kb before exon 9 TRAM1L1 IGR: 39Kb before TRAM1L1(-) - 2.000000e-02 0 0 0 3 4 4 0 -3.762800e-01 -3.257642e-01 1 13 1 13 1 84359598 118043487 1 84359595 -3 118043482 -5 9 9.871471e-01 1 3 74 0 17 1 -1 -84359599 -1 -118043488 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 85 12 0 47847038 12 1 82128622 long_range 34281591 13 0 0 0 26_samples:0 47846717 47847037 321 78 82128628 82128883 256 57 RPAP3 IGR: 209Kb before RPAP3(-) PPFIA2 Intron of PPFIA2(-): 19Kb after exon 3 - 0 0 0 0 1 0 2 0 8.360995e-01 -2.247326e-01 1 13 1 13 1 47847037 82128628 1 47847038 1 82128622 -6 9 9.653412e-01 0 1 72 0 13 1 -1 -47847038 -1 -82128629 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 77 4 0 84477716 4 0 155178707 long_range 70701016 14 0 0 0 26_samples:0 84477409 84477688 280 68 155178441 155178704 264 63 AGPAT9 Intron of AGPAT9(+): 12Kb after exon 2 DCHS2 Intron of DCHS2(-): 2Kb before exon 21 Protein fusion: out of frame (AGPAT9-DCHS2) 2.000000e-02 4.000000e-02 0 0 3 1 6 2 3.309414e-01 7.836230e-02 8.888889e-01 1.244444e+01 1 1.244444e+01 1 84477688 155178704 1 84477716 28 155178707 3 20 9.872791e-01 0 0 66 0 38 1 -1 -84477689 -1 -155178705 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 42 11 0 16071183 11 1 16412530 deletion 341364 23 0 0 0 26_samples:0 16070764 16071188 425 86 16412552 16412853 302 64 SOX6 Intron of SOX6(-): 71bp after exon 10 SOX6 Intron of SOX6(-): 12Kb after exon 1 Deletion of 9 exons: out of frame 0 0 4.000000e-02 6.000000e-02 8 0 3 4 1.408277e+00 9.920094e-02 5.284944e-01 1.215537e+01 1 1.215537e+01 1 16071188 16412552 1 16071183 -5 16412530 -22 20 9.919581e-01 0 3 67 0 34 1 -1 -16071189 -1 -16412553 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 87 5 0 18481645 22 1 29065925 inter_chr NaN 12 0 0 0 26_samples:0 18481376 18481596 221 43 29065929 29066123 195 67 CDH18 IGR: 992Kb before CDH18(-) TTC28 Intron of TTC28(-): 10Kb after exon 1 - 0 0 0 0 3 0 3 0 -9.319539e-01 2.804255e-01 1 12 1 12 1 18481596 29065929 1 18481645 49 29065925 -4 6 9.901867e-01 0 0 77 0 14 1 18481747 151 29065725 -204 1 8.703402e-01 0 3 85 0 3 1 4.666667e+00 LUSC-56-1622 88 9 0 21974863 9 1 21981189 deletion 6351 12 0 0 0 26_samples:0 21974481 21974843 363 81 21981194 21981518 325 59 CDKN2A Intron of CDKN2A(-): 4Kb before exon 2 CDKN2A Intron of CDKN2A(-): 10Kb before exon 2 Deletion within intron 0 0 0 0 1 1 0 1 9.876469e-01 -1.237009e-01 1 12 1 12 1 21974843 21981194 1 21974863 20 21981189 -5 9 9.583288e-01 0 1 48 0 11 1 -1 -21974844 -1 -21981195 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 89 11 0 131756378 11 1 134236412 long_range 2480044 12 0 0 0 26_samples:0 131756093 131756374 282 75 134236418 134236724 307 70 NTM Intron of NTM(+): 25Kb before exon 2 GLB1L2 Intron of GLB1L2(+): 733bp before exon 9 Protein fusion: out of frame (NTM-GLB1L2) 0 0 0 0 1 0 2 0 6.845520e-01 4.319730e-01 1 12 1 12 1 131756374 134236418 1 131756378 4 134236412 -6 5 9.777267e-01 0 1 75 0 21 1 -1 -131756375 -1 -134236419 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 68 11 0 25001123 11 1 25003130 deletion 2002 16 0 0 0 26_samples:0 25000639 25001128 490 94 25003130 25003399 270 58 LUZP2 Intron of LUZP2(+): 3Kb after exon 8 LUZP2 Intron of LUZP2(+): 2Kb before exon 9 Deletion within intron 0 0 1.000000e-02 2.000000e-02 0 0 1 0 1.748070e+00 -2.101204e-01 7.049073e-01 1.127852e+01 1 1.127852e+01 1 25001128 25003130 1 25001123 -5 25003130 0 19 9.960193e-01 0 2 78 0 23 1 -1 -25001129 -1 -25003131 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 67 4 1 155152441 4 1 155177813 inversion 25345 16 0 0 0 26_samples:0 155152473 155152688 216 33 155177818 155178159 342 71 DCHS2 IGR: 3Kb before DCHS2(-) DCHS2 Intron of DCHS2(-): 996bp before exon 21 - 0 0 0 2.000000e-02 2 1 7 1 -1.569975e+00 4.970038e-01 7.032967e-01 1.125275e+01 1 1.125275e+01 1 155152473 155177818 1 155152441 -32 155177813 -5 19 1 1 1 67 0 24 1 -1 -155152474 -1 -155177819 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 90 6 0 151153750 6 1 151195943 deletion 42242 11 0 0 0 26_samples:0 151153459 151153750 292 60 151195992 151196205 214 59 PLEKHG1 Intron of PLEKHG1(+): 409bp after exon 16 MTHFD1L Intron of MTHFD1L(+): 1Kb before exon 2 Protein fusion: out of frame (PLEKHG1-MTHFD1L) 0 0 4.000000e-02 3.000000e-02 4 1 2 1 -5.050681e-02 -9.825177e-02 1 11 1 11 1 151153750 151195992 1 151153750 0 151195943 -49 5 9.675386e-01 0 0 64 0 11 1 151153951 201 151196024 32 1 7.838076e-01 0 0 111 1 C 18 1 6.111111e-01 LUSC-56-1622 91 12 1 44517680 12 0 78583545 long_range 34065824 11 0 0 0 26_samples:0 44517687 44517894 208 37 78583199 78583511 313 72 TMEM117 Intron of TMEM117(+): 20Kb before exon 4 NAV3 Intron of NAV3(+): 253bp before exon 33 Protein fusion: out of frame (NAV3-TMEM117) 2.000000e-02 3.000000e-02 0 0 2 1 1 0 -1.148641e+00 5.224328e-01 1 11 1 11 1 44517687 78583511 1 44517680 -7 78583545 34 12 1 1 1 67 0 15 1 -1 -44517688 -1 -78583512 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 92 12 1 65146768 12 1 94815946 long_range 29669103 11 0 0 0 26_samples:0 65146842 65147127 286 47 94815945 94816065 121 17 GNS Intron of GNS(-): 305bp before exon 2 CCDC41 5'-UTR of CCDC41(-): 10Kb before coding start Antisense fusion 0 0 2.000000e-02 0 3 1 3 1 -6.711913e-01 -2.103540e+00 1 11 1 11 1 65146842 94815945 1 65146768 -74 94815946 1 6 9.788716e-01 1 1 68 0 12 1 -1 -65146843 -1 -94815946 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 93 14 0 105452645 14 0 105454357 inversion 1720 11 0 0 0 26_samples:0 105452361 105452639 279 55 105454091 105454359 269 51 C14orf79 5'-UTR of C14orf79(+): 130bp before coding start C14orf79 Intron of C14orf79(+): 921bp before exon 2 Antisense fusion 0 0 0 1.700000e-01 1 1 1 1 -2.892316e-01 -4.802115e-01 1 11 1 11 1 105452639 105454359 1 105452645 6 105454357 -2 7 9.659939e-01 0 1 72 0 11 1 -1 -105452640 -1 -105454360 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 94 23 0 125362017 23 1 125438084 deletion 76110 11 0 0 0 26_samples:0 125361758 125361992 235 50 125438102 125438340 239 47 DCAF12L2 IGR: 62Kb after DCAF12L2(-) DCAF12L2 IGR: 141Kb before DCAF12L2(-) - 1.400000e-01 8.000000e-02 0 0 1 1 4 0 -5.279564e-01 -6.711913e-01 1 11 1 11 1 125361992 125438102 1 125362017 25 125438084 -18 8 9.960963e-01 0 3 62 0 14 1 -1 -125361993 -1 -125438103 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 98 3 1 87421656 21 0 20407632 inter_chr NaN 10 0 0 0 26_samples:0 87421646 87421774 129 10 20407305 20407638 334 68 POU1F1 IGR: 113Kb before POU1F1(-) TMPRSS15 IGR: 766Kb before TMPRSS15(-) - 0 0 0 0 1 0 2 0 -2.437755e+00 3.314529e-01 1 10 1 10 1 87421646 20407638 1 87421656 10 20407632 -6 11 1 1 0 74 0 15 1 -1 -87421647 -1 -20407639 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 101 10 0 99669908 10 0 110971894 long_range 11302000 10 0 0 0 26_samples:0 99669598 99669883 286 64 110971632 110971883 252 64 CRTAC1 Intron of CRTAC1(-): 2Kb before exon 6 XPNPEP1 IGR: 653Kb before XPNPEP1(-) - 0 4.000000e-02 0 0 1 1 1 0 1.404731e-01 1.404731e-01 1 10 1 10 1 99669883 110971883 1 99669908 25 110971894 11 17 9.839656e-01 0 1 72 0 20 1 -1 -99669884 -1 -110971884 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 95 1 0 147116901 1 1 147120868 deletion 3977 10 0 0 0 26_samples:0 147116551 147116893 343 91 147120870 147121179 310 81 ACP6 IGR: 2Kb before ACP6(-) ACP6 Intron of ACP6(-): 657bp before exon 9 - 0 7.000000e-02 0 0 1 0 1 1 1.429587e+00 9.521374e-01 9.265452e-01 9.265452e+00 1 9.265452e+00 1 147116893 147120870 1 147116901 8 147120868 -2 19 9.872855e-01 0 2 74 0 22 1 -1 -147116894 -1 -147120871 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 102 1 0 212323256 1 1 212324806 deletion 1602 9 0 0 0 26_samples:0 212322985 212323212 228 41 212324814 212325001 188 31 DTL IGR: 45Kb after DTL(+) DTL IGR: 47Kb after DTL(+) - 0 0 7.000000e-02 1.300000e-01 1 0 0 0 -8.627292e-01 -1.305070e+00 1 9 1 9 1 212323212 212324814 1 212323256 44 212324806 -8 9 9.737363e-01 0 0 68 0 12 1 -1 -212323213 -1 -212324815 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 103 3 0 116567798 3 1 117530596 deletion 962822 9 0 0 0 26_samples:0 116567480 116567777 298 72 117530599 117530865 267 66 LOC285194 IGR: 139Kb before LOC285194(+) IGSF11 IGR: 1Mb before IGSF11(-) - 0 0 0 0 1 1 3 2 5.085279e-01 2.431233e-01 1 9 1 9 1 116567777 117530599 1 116567798 21 117530596 -3 13 9.900734e-01 0 0 70 0 19 1 116567641 -136 117530398 -201 1 7.560979e-01 0 0 72 19 GAGGGTGGGGTGAGTGTGG 5 1 3.800000e+00 LUSC-56-1622 105 4 1 84483048 4 0 154850707 long_range 70367659 9 0 0 0 26_samples:0 84483048 84483278 231 50 154850539 154850707 169 29 AGPAT9 Intron of AGPAT9(+): 17Kb after exon 2 SFRP2 IGR: 149Kb before SFRP2(-) - 0 0 0 0 1 0 1 0 -4.646223e-01 -1.393538e+00 1 9 1 9 1 84483048 154850707 1 84483076 28 154850713 6 3 7.918513e-01 1 0 74 0 9 1 -1 -84483049 -1 -154850708 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-56-1622 106 4 0 84496902 4 0 155152939 long_range 70656040 9 0 0 0 26_samples:0 84496622 84496901 280 65 155152695 155152941 247 52 AGPAT9 Intron of AGPAT9(+): 6Kb before exon 3 DCHS2 IGR: 3Kb before DCHS2(-) - 4.000000e-02 7.000000e-02 0 0 2 2 3 1 1.988892e-01 -3.761541e-01 1 9 1 9 1 84496901 155152941 1 84496902 1 155152939 -2 13 9.846516e-01 0 3 76 0 16 1 -1 -84496902 -1 -155152942 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 107 4 1 116012076 4 1 118043098 long_range 2031018 9 0 0 0 26_samples:0 116012086 116012301 216 39 118043104 118043426 323 68 NDST4 5'-UTR of NDST4(-): 14Kb before coding start TRAM1L1 IGR: 38Kb before TRAM1L1(-) - 0 0 0 0 1 0 4 0 -9.511974e-01 3.315915e-01 1 9 1 9 1 116012086 118043104 1 116012076 -10 118043098 -6 10 9.974941e-01 1 4 80 0 14 1 -1 -116012087 -1 -118043105 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 108 4 1 46104323 16 1 54001767 inter_chr NaN 9 0 0 0 26_samples:0 46104339 46104609 271 65 54001781 54002061 281 62 GABRG1 Intron of GABRG1(-): 5Kb before exon 2 FTO Intron of FTO(+): 34Kb after exon 8 Protein fusion: in frame (GABRG1-FTO) 0 0 0 0 2 1 2 1 1.988892e-01 6.618689e-02 1 9 1 9 1 46104339 54001781 1 46104323 -16 54001767 -14 11 9.972030e-01 1 1 78 0 15 1 46104132 -207 54001793 12 1 8.139676e-01 1 6 75 0 1 1 15 LUSC-56-1622 109 8 0 3356557 8 1 3444606 deletion 88070 9 0 0 0 26_samples:0 3356219 3356536 318 61 3444606 3444856 251 45 CSMD1 Intron of CSMD1(-): 5Kb before exon 11 CSMD1 Intron of CSMD1(-): 824bp before exon 9 Deletion of 2 exons: out of frame 0 3.000000e-02 0 0 1 1 1 1 2.195279e-02 -6.857928e-01 1 9 1 9 1 3356536 3444606 1 3356557 21 3444606 0 13 9.733985e-01 0 2 65 0 19 1 3356739 203 3444456 -150 1 8.714463e-01 0 2 71 0 4 1 4.750000e+00 LUSC-56-1622 111 8 0 135962345 8 1 135966765 deletion 4456 9 0 0 0 26_samples:0 135962088 135962310 223 58 135966766 135967023 258 73 MIR30D IGR: 145Kb before MIR30D(-) MIR30D IGR: 150Kb before MIR30D(-) - 0 0 1.000000e-02 0 0 0 1 1 -1.107495e-01 5.527620e-01 1 9 1 9 1 135962310 135966766 1 135962345 35 135966765 -1 7 9.917892e-01 0 0 71 0 16 1 -1 -135962311 -1 -135966767 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 112 20 0 14799208 20 1 14817122 deletion 17949 9 0 0 0 26_samples:0 14798891 14799174 284 55 14817123 14817355 233 41 MACROD2 Intron of MACROD2(+): 134Kb after exon 5 MACROD2 Intron of MACROD2(+): 152Kb after exon 5 Deletion within intron 0 2.000000e-02 0 0 2 0 1 2 -2.434518e-01 -8.627292e-01 1 9 1 9 1 14799174 14817123 1 14799208 34 14817122 -1 8 9.946241e-01 0 3 82 0 15 1 -1 -14799175 -1 -14817124 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 113 20 0 26080623 20 1 26083804 deletion 3209 9 0 0 0 26_samples:0 26080354 26080607 254 58 26083816 26084055 240 53 C20orf191 IGR: 3Kb before C20orf191(-) C20orf191 IGR: 237bp before C20orf191(-) - 7.000000e-02 1.300000e-01 8.000000e-02 1.100000e-01 3 3 3 3 -1.107495e-01 -3.319200e-01 1 9 1 9 1 26080607 26083816 1 26080623 16 26083804 -12 6 9.922384e-01 0 4 71 0 18 1 -1 -26080608 -1 -26083817 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 116 3 0 174214969 3 1 174418690 deletion 203795 8 0 0 0 26_samples:0 174214729 174214934 206 37 174418729 174418925 197 30 NAALADL2 IGR: 362Kb before NAALADL2(+) NAALADL2 IGR: 158Kb before NAALADL2(+) - 0 0 0 0 3 0 2 0 -1.039666e+00 -1.349304e+00 1 8 1 8 1 174214934 174418729 1 174214969 35 174418690 -39 3 1 0 3 63 0 7 1 -1 -174214935 -1 -174418730 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 118 4 1 84479661 4 1 118043544 long_range 33563883 8 0 0 0 26_samples:0 84479661 84479823 163 26 118043544 118043740 197 32 AGPAT9 Intron of AGPAT9(+): 14Kb after exon 2 TRAM1L1 IGR: 39Kb before TRAM1L1(-) - 0 0 0 0 1 0 2 0 -1.526241e+00 -1.260836e+00 1 8 1 8 1 84479661 118043544 1 84479460 -201 118043600 56 3 8.424832e-01 1 0 61 40 TGGGACTGCTTTCAAGATTGTTTACCCATAGCTGATGCTC 7 1 -1 -84479662 -1 -118043545 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-56-1622 121 11 0 13849076 11 0 13850968 inversion 1892 8 0 0 0 26_samples:0 13848893 13849076 184 34 13850805 13850968 164 21 SPON1 IGR: 135Kb before SPON1(+) SPON1 IGR: 133Kb before SPON1(+) - 0 0 0 0 4 0 1 0 -1.172368e+00 -1.747411e+00 1 8 1 8 1 13849076 13850968 1 -1 -13849077 -1 -13850969 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -13849077 -1 -13850969 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-56-1622 122 19 0 19696024 19 1 19701187 deletion 5206 8 0 0 0 26_samples:0 19695728 19695994 267 67 19701200 19701437 238 67 PBX4 Intron of PBX4(-): 14Kb after exon 2 PBX4 Intron of PBX4(-): 9Kb after exon 2 Deletion within intron 5.000000e-02 3.000000e-02 3.000000e-02 3.000000e-02 2 1 2 3 2.873574e-01 2.873574e-01 1 8 1 8 1 19695994 19701200 1 19696024 30 19701187 -13 6 9.760258e-01 0 1 72 0 10 1 -1 -19695995 -1 -19701201 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 110 8 0 3410567 8 1 3855066 deletion 444514 9 0 0 0 26_samples:0 3410350 3410546 197 31 3855060 3855465 406 95 CSMD1 Intron of CSMD1(-): 22Kb after exon 10 CSMD1 Intron of CSMD1(-): 365bp after exon 5 Deletion of 5 exons: out of frame 0 0 0 0 1 0 1 0 -1.305070e+00 1.525912e+00 8.730127e-01 7.857114e+00 1 7.857114e+00 1 3410546 3855060 1 3410567 21 3855066 6 8 9.864014e-01 0 3 75 0 8 1 -1 -3410547 -1 -3855061 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 115 2 0 32906952 2 1 32921171 deletion 14257 8 0 0 0 26_samples:0 32906615 32906917 303 73 32921174 32921425 252 47 TTC27 Intron of TTC27(+): 3Kb after exon 9 TTC27 Intron of TTC27(+): 7Kb before exon 10 Deletion within intron 0 0 3.300000e-01 0 1 0 1 0 5.527620e-01 -5.973246e-01 9.071118e-01 7.256894e+00 1 7.256894e+00 1 32906917 32921174 1 32906952 35 32921171 -3 4 9.775542e-01 0 2 74 0 9 1 -1 -32906918 -1 -32921175 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 120 8 0 88688352 14 0 59220521 inter_chr NaN 8 0 0 0 26_samples:0 88688081 88688253 173 28 59220383 59220521 139 13 DCAF4L2 IGR: 195Kb before DCAF4L2(-) DACT1 IGR: 116Kb before DACT1(+) - 0 0 0 4.000000e-02 4 0 6 4 -1.437773e+00 -2.101284e+00 8.888889e-01 7.111111e+00 1 7.111111e+00 1 88688253 59220521 1 88688352 99 59220521 0 4 1 0 0 67 0 13 1 -1 -88688254 -1 -59220522 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 99 4 1 154853254 4 0 155178092 tandem_dup 324797 10 0 0 0 26_samples:0 154853255 154853461 207 37 155177685 155178052 368 78 SFRP2 IGR: 152Kb before SFRP2(-) DCHS2 Intron of DCHS2(-): 1Kb before exon 21 - 3.000000e-02 3.000000e-02 0 0 3 1 7 0 -1.148641e+00 8.089026e-01 7.032967e-01 7.032967e+00 1 7.032967e+00 1 154853255 155178052 1 154853254 -1 155178092 40 15 9.911122e-01 1 0 68 0 21 1 -1 -154853256 -1 -155178053 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 128 7 0 105670694 7 0 105672036 inversion 1342 7 0 0 0 26_samples:0 105670560 105670694 135 21 105671925 105672036 112 26 CDHR3 Intron of CDHR3(+): 544bp before exon 18 CDHR3 Intron of CDHR3(+): 750bp after exon 18 Antisense fusion 0 0 0 0 1 0 1 1 -1.543342e+00 -1.343125e+00 1 7 1 7 1 105670694 105672036 1 -1 -105670695 -1 -105672037 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -105670695 -1 -105672037 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-56-1622 130 8 1 61103086 8 1 70685325 long_range 9582259 7 0 0 0 26_samples:0 61103097 61103361 265 55 70685356 70685603 248 46 CA8 3'-UTR of CA8(-): 18Kb after coding stop SLCO5A1 Intron of SLCO5A1(-): 11Kb before exon 3 - 0 0 0 0 1 1 1 0 -1.818652e-01 -5.422561e-01 1 7 1 7 1 61103097 70685356 1 61103086 -11 70685325 -31 10 9.854022e-01 1 0 72 0 17 1 -1 -61103098 -1 -70685357 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 134 12 0 71720283 12 0 87850925 long_range 16130624 7 0 0 0 26_samples:0 71720020 71720273 254 67 87850575 87850897 323 75 LGR5 IGR: 114Kb before LGR5(+) MKRN9P IGR: 326Kb before MKRN9P(-) - 0 0 4.000000e-02 5.000000e-02 4 0 4 1 2.986560e-01 6.190035e-01 1 7 1 7 1 71720273 87850897 1 71720283 10 87850925 28 20 9.956901e-01 0 0 71 0 37 1 -1 -71720274 -1 -87850898 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 135 21 0 9847660 21 1 9848801 deletion 1182 7 0 0 0 26_samples:0 9847429 9847644 216 41 9848826 9849140 315 74 LOC100132288 IGR: 60Kb before LOC100132288(-) LOC100132288 IGR: 58Kb before LOC100132288(-) - 2.000000e-02 1.000000e-02 7.000000e-02 1.300000e-01 3 1 1 3 -7.424733e-01 5.789601e-01 1 7 1 7 1 9847644 9848826 1 9847660 16 9848801 -25 7 1 0 2 65 0 31 1 -1 -9847645 -1 -9848827 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 53 12 0 31765733 12 1 46062942 long_range 14297221 20 0 0 0 26_samples:0 31765469 31765728 260 57 46062949 46063503 555 100 C12orf72 IGR: 34Kb before C12orf72(+) LOC400027 IGR: 57Kb before LOC400027(-) - 2.000000e-02 3.000000e-02 0 0 2 1 3 0 -3.173233e-01 2.241326e+00 3.433188e-01 6.866375e+00 1 6.866375e+00 1 31765728 46062949 1 31765733 5 46062942 -7 15 9.956362e-01 0 2 70 0 18 1 -1 -31765729 -1 -46062950 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 96 3 0 119795469 3 1 119806195 deletion 10726 10 0 0 0 26_samples:0 119795241 119795469 229 46 119806195 119806470 276 65 GSK3B Intron of GSK3B(-): 17Kb after exon 1 GSK3B Intron of GSK3B(-): 6Kb after exon 1 Deletion within intron 4.200000e-01 1.900000e-01 2.100000e-01 4.000000e-02 1 2 3 1 -7.189363e-01 1.882180e-01 6.838074e-01 6.838074e+00 1 6.838074e+00 1 119795469 119806195 1 119795486 17 119806196 1 1 9.910932e-01 0 7 127 0 19 1 119795675 206 119806215 20 5 8.669943e-01 0 5 84 0 8 0 2.375000e+00 LUSC-56-1622 136 2 0 154819814 2 1 154953738 deletion 133924 6 0 0 0 26_samples:0 154819580 154819814 235 59 154953738 154953946 209 40 GALNT13 Intron of GALNT13(+): 19Kb after exon 3 GALNT13 Intron of GALNT13(+): 43Kb before exon 4 Deletion within intron 0 0 0 0 3 0 1 0 -2.169146e-02 -7.825167e-01 1 6 1 6 1 154819814 154953738 1 154819910 96 154953709 -29 1 7.860744e-01 0 0 69 0 4 1 -1 -154819815 -1 -154953739 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-56-1622 138 3 0 31398601 3 1 31402444 deletion 3884 6 0 0 0 26_samples:0 31398292 31398606 315 81 31402490 31402673 184 36 STT3B IGR: 176Kb before STT3B(+) STT3B IGR: 172Kb before STT3B(+) - 0 0 0 0 0 1 0 0 8.592641e-01 -9.426905e-01 1 6 1 6 1 31398606 31402490 1 31398601 -5 31402444 -46 3 9.712191e-01 0 1 75 0 6 1 -1 -31398607 -1 -31402491 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 139 3 1 169859865 3 1 172104056 long_range 2244197 6 0 0 0 26_samples:0 169859873 169860081 209 38 172104070 172104266 197 40 PHC3 Intron of PHC3(-): 3Kb after exon 6 FNDC3B Intron of FNDC3B(+): 5Kb after exon 25 Protein fusion: in frame (PHC3-FNDC3B) 0 0 0 2.000000e-02 2 0 3 1 -8.626036e-01 -7.825167e-01 1 6 1 6 1 169859873 172104070 1 169859865 -8 172104056 -14 2 9.247267e-01 1 0 84 0 16 1 -1 -169859874 -1 -172104071 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 142 6 0 129778128 7 1 151938281 inter_chr NaN 6 0 0 0 26_samples:0 129777977 129778124 148 18 151938393 151938572 180 33 LAMA2 Intron of LAMA2(+): 485bp after exon 48 MLL3 Intron of MLL3(-): 2Kb before exon 15 Antisense fusion 0 0 2.100000e-01 1.800000e-01 3 0 4 3 -1.663472e+00 -1.062821e+00 1 6 1 6 1 129778124 151938393 1 129778128 4 151938281 -112 3 8.996078e-01 0 2 76 0 9 1 -1 -129778125 -1 -151938394 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 144 8 1 56173947 8 0 59153248 long_range 2979223 6 0 0 0 26_samples:0 56174031 56174244 214 46 59153088 59153254 167 35 XKR4 Intron of XKR4(+): 96Kb before exon 2 UBXN2B IGR: 171Kb before UBXN2B(+) - 0 0 3.000000e-02 7.000000e-02 2 0 3 1 -5.422561e-01 -9.827339e-01 1 6 1 6 1 56174031 59153254 1 56173947 -84 59153248 -6 17 9.842780e-01 1 3 68 0 25 1 -1 -56174032 -1 -59153255 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 151 11 0 56551052 11 1 127297134 long_range 70746212 6 0 0 0 26_samples:0 56550883 56551027 145 17 127297239 127297475 237 51 OR9G4 IGR: 41Kb before OR9G4(-) KIRREL3 IGR: 426Kb after KIRREL3(-) - 0 0 0 0 1 1 1 0 -1.703516e+00 -3.420389e-01 1 6 1 6 1 56551027 127297239 1 56551052 25 127297134 -105 12 9.968533e-01 0 2 81 0 15 1 56550921 -106 127297097 -142 1 9.139644e-01 0 0 81 0 4 1 3.750000e+00 LUSC-56-1622 149 11 0 17049504 11 1 18049623 long_range 1000119 6 0 0 0 26_samples:0 17049389 17049504 116 9 18049623 18049767 145 18 RPS13 IGR: 46Kb before RPS13(-) TPH1 Intron of TPH1(-): 1Kb after exon 5 - 0 0 0 0 1 0 5 0 -2.023863e+00 -1.663472e+00 9.846154e-01 5.907692e+00 1 5.907692e+00 1 17049504 18049623 1 17049615 111 18049586 -37 5 7.932113e-01 0 1 74 0 9 1 -1 -17049505 -1 -18049624 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-56-1622 22 3 1 182934396 11 1 15442778 inter_chr NaN 35 0 0 0 26_samples:0 182934393 182934887 495 77 15442782 15443056 275 51 MCF2L2 Intron of MCF2L2(-): 511bp before exon 22 INSC IGR: 306Kb before INSC(+) - 3.300000e-01 7.500000e-01 0 0 6 7 2 0 9.549372e-01 -8.016560e-01 1.643790e-01 5.753265e+00 1 5.753265e+00 1 182934393 15442782 1 182934396 3 15442778 -4 20 9.952998e-01 1 0 68 0 64 1 -1 -182934394 -1 -15442783 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 159 3 0 115901494 3 1 116286445 deletion 384963 5 0 0 0 26_samples:0 115901256 115901491 236 51 116286454 116286709 256 60 LSAMP Intron of LSAMP(-): 96Kb before exon 2 LOC285194 IGR: 142Kb before LOC285194(+) - 0 0 0 0 2 1 1 0 -2.902506e-01 4.804162e-02 1 5 1 5 1 115901491 116286454 1 115901494 3 116286445 -9 7 9.967297e-01 0 2 71 0 10 1 -1 -115901492 -1 -116286455 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 169 8 0 100859431 8 1 100891472 deletion 32100 5 0 0 0 26_samples:0 100859210 100859399 190 34 100891499 100891755 257 59 VPS13B Intron of VPS13B(+): 2Kb before exon 55 COX6C 3'-UTR of COX6C(-): 8Kb after coding stop - 0 0 0 0 1 0 2 0 -9.292471e-01 1.045359e-02 1 5 1 5 1 100859399 100891499 1 100859431 32 100891472 -27 4 1 0 2 77 0 7 1 100859734 335 100891147 -352 1 8.060600e-01 0 1 78 0 3 1 2.333333e+00 LUSC-56-1622 160 3 0 116790358 3 1 116866353 deletion 76001 5 0 0 0 26_samples:0 116790063 116790347 285 82 116866348 116866642 295 90 LOC285194 IGR: 362Kb before LOC285194(+) LOC285194 IGR: 438Kb before LOC285194(+) - 0 0 0 6.000000e-02 2 0 1 2 8.749783e-01 1.175683e+00 9.946069e-01 4.973035e+00 1 4.973035e+00 1 116790347 116866348 1 116790358 11 116866353 5 12 9.738394e-01 0 2 69 0 14 1 -1 -116790348 -1 -116866349 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 173 8 1 112346570 22 0 29065893 inter_chr NaN 5 0 0 0 26_samples:0 112346570 112346862 293 88 29065627 29065893 267 75 CSMD3 IGR: 889Kb before CSMD3(-) TTC28 Intron of TTC28(-): 10Kb after exon 1 - 0 0 0 0 2 0 5 0 1.100506e+00 6.118621e-01 9.836167e-01 4.918084e+00 1 4.918084e+00 1 112346570 29065893 1 112346577 7 29066086 193 1 8.272445e-01 1 0 70 0 1 1 -1 -112346571 -1 -29065894 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-56-1622 166 5 0 160920319 5 1 160958574 deletion 38330 5 0 0 0 26_samples:0 160920146 160920308 163 27 160958638 160959021 384 102 GABRB2 Intron of GABRB2(-): 33Kb before exon 5 GABRB2 Intron of GABRB2(-): 14Kb after exon 4 Deletion within intron 0 0 0 0 2 0 1 0 -1.192363e+00 1.626739e+00 8.024497e-01 4.012249e+00 1 4.012249e+00 1 160920308 160958638 1 160920319 11 160958574 -64 3 1 0 2 78 0 4 1 -1 -160920309 -1 -160958639 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 204 3 0 87421820 21 0 20406888 inter_chr NaN 4 0 0 0 26_samples:0 87421665 87421816 152 54 20406586 20406806 221 54 POU1F1 IGR: 113Kb before POU1F1(-) TMPRSS15 IGR: 765Kb before TMPRSS15(-) - 0 0 0 0 1 0 2 0 -1.199260e-01 -1.199260e-01 1 4 1 4 1 87421816 20406806 1 87421820 4 20406888 82 8 9.903157e-01 0 2 81 0 14 1 -1 -87421817 -1 -20406807 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-56-1622 218 6 1 74353921 16 0 15131838 inter_chr NaN 4 0 0 0 26_samples:0 74354077 74354222 146 30 15131713 15131845 133 14 SLC17A5 Intron of SLC17A5(-): 53bp after exon 2 NTAN1 3'-UTR of NTAN1(-): 43bp after coding stop - 0 0 0 0 1 0 1 0 -9.381240e-01 -1.483589e+00 1 4 1 4 1 74354077 15131845 1 74353921 -156 15131838 -7 8 1 1 2 70 0 15 1 74353719 -358 15131888 43 1 8.139503e-01 1 7 77 0 2 1 7.500000e+00 LUSC-56-1622 250 19 0 53201383 19 1 53206627 deletion 5296 4 0 0 0 26_samples:0 53201132 53201356 225 53 53206652 53206839 188 44 ZNF611 IGR: 5Kb before ZNF611(-) ZNF611 3'-UTR of ZNF611(-): 2Kb after coding stop - 1.000000e-01 1.300000e-01 0 0 2 2 2 1 -1.540176e-01 -4.608418e-01 1 4 1 4 1 53201356 53206652 1 53201383 27 53206627 -25 9 9.954489e-01 0 4 88 0 12 1 -1 -53201357 -1 -53206653 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 2139 5 0 50619520 5 0 50620650 inversion 1134 93 1 1 1 BR-MEX-050:1,25_samples:0 50619185 50619521 337 72 50620335 50620655 321 71 ISL1 IGR: 59Kb before ISL1(+) ISL1 IGR: 58Kb before ISL1(+) - 0 0 3.000000e-02 3.000000e-02 3 0 2 1 1.625556e+00 1.529182e+00 6.996643e-01 6.506878e+01 1 6.506878e+01 1 50619521 50620655 1 50619520 -1 50620650 -5 20 9.285073e-01 0 0 72 2 AA 130 1 50619520 -1 50620650 -5 3 9.344139e-01 0 0 72 2 AA 26 1 5 LUSC-60-2695 1 22 0 22640943 22 0 39554397 long_range 16913452 72 0 0 0 26_samples:0 22640603 22640951 349 69 39554080 39554403 324 70 LOC96610 IGR: 12Kb before LOC96610(+) CBX7 IGR: 6Kb after CBX7(-) - 8.000000e-02 7.000000e-02 2.100000e-01 4.000000e-02 4 4 4 2 1.336433e+00 1.432807e+00 8.910739e-01 6.415732e+01 1 6.415732e+01 1 22640951 39554403 1 22640943 -8 39554397 -6 20 9.579725e-01 0 0 68 0 62 1 22640942 -9 39554398 -5 1 8.649239e-01 0 0 69 0 10 1 6.200000e+00 LUSC-60-2695 3 1 0 181309187 13 1 48899689 inter_chr NaN 53 0 0 0 26_samples:0 181308881 181309190 310 56 48899697 48899989 293 59 CACNA1E IGR: 144Kb before CACNA1E(+) RB1 Intron of RB1(+): 17Kb before exon 3 - 0 0 0 0 2 1 1 1 8.356459e-02 3.726880e-01 1 53 1 53 1 181309190 48899697 1 181309187 -3 48899689 -8 20 9.703877e-01 0 2 74 0 39 1 -1 -181309191 -1 -48899698 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 8 6 0 38721164 6 1 39106020 deletion 384877 33 0 0 0 26_samples:0 38720833 38721139 307 53 39106016 39106306 291 66 DNAH8 Intron of DNAH8(+): 3Kb before exon 8 C6orf64 IGR: 34Kb before C6orf64(-) - 3.000000e-02 0 0 0 2 0 2 0 -2.055588e-01 1.047309e+00 9.998941e-01 3.299651e+01 1 3.299651e+01 1 38721139 39106016 1 38721164 25 39106020 4 16 9.621542e-01 0 2 84 0 28 1 -1 -38721140 -1 -39106017 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 9 22 0 35380254 22 1 36550920 long_range 1170680 33 0 0 0 26_samples:0 35379903 35380250 348 68 36550930 36551248 319 59 ISX IGR: 82Kb before ISX(+) APOL3 Intron of APOL3(-): 6Kb after exon 1 - 0 0 0 0 1 1 2 0 1.240058e+00 3.726880e-01 9.863547e-01 3.254971e+01 1 3.254971e+01 1 35380250 36550930 1 35380254 4 36550920 -10 6 9.271592e-01 0 1 74 0 24 1 35380090 -160 36550728 -202 5 8.111887e-01 0 1 73 0 10 1 2.400000e+00 LUSC-60-2695 4 5 1 50467552 5 1 50606777 inversion 139212 51 0 0 0 26_samples:0 50467560 50467858 299 64 50606772 50607132 361 76 ISL1 IGR: 211Kb before ISL1(+) ISL1 IGR: 72Kb before ISL1(+) - 0 0 0 0 3 1 5 2 8.545604e-01 2.011054e+00 4.905421e-01 2.501765e+01 1 2.501765e+01 1 50467560 50606772 1 50467552 -8 50606777 5 20 9.768207e-01 1 4 70 0 75 1 -1 -50467561 -1 -50606773 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 13 19 0 47366725 19 1 48312896 deletion 946169 26 0 0 0 26_samples:0 47366421 47366731 311 71 48312900 48313194 295 70 AP2S1 IGR: 25Kb before AP2S1(-) TPRX1 IGR: 6Kb after TPRX1(-) - 0 0 0 0 1 0 3 1 1.402409e+00 1.315428e+00 9.102562e-01 2.366666e+01 1 2.366666e+01 1 47366731 48312900 1 47366725 -6 48312896 -4 20 9.322958e-01 0 0 68 0 31 1 -1 -47366732 -1 -48312901 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 6 1 0 224837954 3 1 120140130 inter_chr NaN 35 0 0 0 26_samples:0 224837667 224837938 272 70 120140130 120140446 317 73 CNIH3 Intron of CNIH3(+): 31Kb before exon 2 FSTL1 Intron of FSTL1(-): 5Kb before exon 3 Antisense fusion 0 0 0 0 1 0 3 1 1.432807e+00 1.721931e+00 6.721163e-01 2.352407e+01 1 2.352407e+01 1 224837938 120140130 1 224837954 16 120140130 0 15 9.383481e-01 0 0 78 0 28 1 -1 -224837939 -1 -120140131 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 14 10 1 62602068 10 0 62666552 tandem_dup 64483 22 0 0 0 26_samples:0 62602071 62602376 306 59 62666260 62666554 295 67 RHOBTB1 IGR: 27Kb before RHOBTB1(-) RHOBTB1 Intron of RHOBTB1(-): 4Kb after exon 4 - 0 0 0 0 1 1 2 1 3.586297e-01 1.054483e+00 9.998383e-01 2.199644e+01 1 2.199644e+01 1 62602071 62666554 1 62602068 -3 62666552 -2 7 9.823558e-01 1 2 82 0 22 1 62601936 -135 62666757 203 2 7.888707e-01 1 3 79 0 18 1 1.222222e+00 LUSC-60-2695 23 23 0 132192688 23 1 137216365 long_range 5023678 17 0 0 0 26_samples:0 132192382 132192683 302 62 137216361 137216638 278 60 USP26 IGR: 33Kb before USP26(-) LOC158696 IGR: 481Kb before LOC158696(-) - 0 0 1.100000e-01 9.000000e-02 2 0 2 2 5.854083e-01 4.261921e-01 1 17 1 17 1 132192683 137216361 1 132192688 5 137216365 4 3 9.940617e-01 0 1 83 0 12 1 132192884 201 137216534 173 6 8.551001e-01 0 0 117 1 A 20 1 6.000000e-01 LUSC-60-2695 2 22 1 17358916 22 1 20178785 long_range 2819871 64 0 0 0 26_samples:0 17358915 17359239 325 63 20178786 20179126 341 75 HSFYL1 IGR: 51Kb before HSFYL1(+) LOC150197 IGR: 15Kb before LOC150197(+) - 4.500000e-01 5.000000e-01 0 0 3 1 3 1 7.581859e-01 1.914680e+00 2.632964e-01 1.685097e+01 1 1.685097e+01 1 17358915 20178786 1 17358916 1 20178785 -1 20 8.993098e-01 1 1 68 0 34 1 -1 -17358916 -1 -20178787 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 22 8 1 128318488 8 0 128575701 tandem_dup 257191 17 0 0 0 26_samples:0 128318507 128318782 276 71 128575426 128575698 273 60 POU5F1B IGR: 109Kb before POU5F1B(+) LOC727677 IGR: 120Kb before LOC727677(-) - 0 0 8.000000e-02 1.000000e-01 3 0 3 2 1.301881e+00 4.261921e-01 9.732255e-01 1.654483e+01 1 1.654483e+01 1 128318507 128575698 1 128318488 -19 128575701 3 4 9.062147e-01 1 2 78 0 28 1 -1 -128318508 -1 -128575699 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 20 10 1 77098159 10 0 77394682 tandem_dup 296532 18 0 0 0 26_samples:0 77098156 77098455 300 73 77394415 77394688 274 70 ZNF503 IGR: 59Kb before ZNF503(-) C10orf11 IGR: 148Kb before C10orf11(+) - 0 0 0 0 1 1 3 1 1.461097e+00 1.222273e+00 9.008260e-01 1.621487e+01 1 1.621487e+01 1 77098156 77394688 1 77098159 3 77394682 -6 12 9.819307e-01 1 2 76 0 29 1 77098162 6 77394775 87 1 9.616062e-01 1 0 71 0 17 1 1.705882e+00 LUSC-60-2695 24 1 1 156071214 1 0 156258887 tandem_dup 187670 16 0 0 0 26_samples:0 156071203 156071501 299 67 156258598 156258873 276 63 LMNA IGR: 13Kb before LMNA(+) TMEM79 Intron of TMEM79(+): 2Kb before exon 4 - 7.000000e-02 0 0 0 3 1 3 1 9.834488e-01 6.650164e-01 1 16 1 16 1 156071203 156258873 1 156071214 11 156258887 14 10 9.440733e-01 1 0 67 0 21 1 -1 -156071204 -1 -156258874 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 25 11 1 72780430 11 0 72899825 tandem_dup 119387 16 0 0 0 26_samples:0 72780441 72780735 295 64 72899592 72899828 237 59 FCHSD2 Intron of FCHSD2(-): 14Kb after exon 3 P2RY2 IGR: 30Kb before P2RY2(+) - 0 0 0 0 4 2 1 0 7.446245e-01 3.465840e-01 1 16 1 16 1 72780441 72899828 1 72780430 -11 72899825 -3 14 9.518721e-01 1 2 58 0 25 1 -1 -72780442 -1 -72899829 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 10 8 1 93171207 8 0 93302365 tandem_dup 131168 30 0 0 0 26_samples:0 93171204 93171543 340 72 93302049 93302372 324 74 RUNX1T1 IGR: 200Kb before RUNX1T1(-) RUNX1T1 IGR: 331Kb before RUNX1T1(-) - 0 0 0 0 1 0 3 0 1.625556e+00 1.818305e+00 5.189724e-01 1.556917e+01 1 1.556917e+01 1 93171204 93302372 1 93171207 3 93302365 -7 20 9.689552e-01 1 3 72 0 38 1 -1 -93171205 -1 -93302373 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 28 5 1 5255774 8 0 80636400 inter_chr NaN 15 0 0 0 26_samples:0 5255774 5256050 277 59 80636223 80636400 178 45 ADAMTS16 Intron of ADAMTS16(+): 7Kb before exon 18 HEY1 IGR: 40Kb before HEY1(-) - 0 0 0 0 4 1 1 0 3.465840e-01 -7.679294e-01 1 15 1 15 1 5255774 80636400 1 5255572 -202 80636558 158 6 8.191611e-01 1 2 87 0 18 1 5255572 -202 80636558 158 5 8.072581e-01 1 2 87 0 15 0 1.200000e+00 LUSC-60-2695 30 6 1 38704175 6 1 38705891 inversion 1734 15 0 0 0 26_samples:0 38704174 38704422 249 54 38705908 38706200 293 67 DNAH8 Intron of DNAH8(+): 669bp before exon 4 DNAH8 Intron of DNAH8(+): 160bp after exon 5 - 0 0 0 0 0 1 1 0 -5.145652e-02 9.834488e-01 1 15 1 15 1 38704174 38705908 1 38704175 1 38705891 -17 4 9.232427e-01 1 3 78 0 16 1 -1 -38704175 -1 -38705909 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 29 5 1 5256107 8 1 80643110 inter_chr NaN 15 0 0 0 26_samples:0 5256102 5256438 337 70 80643128 80643405 278 66 ADAMTS16 Intron of ADAMTS16(+): 7Kb before exon 18 HEY1 IGR: 33Kb before HEY1(-) - 0 0 0 0 3 1 2 3 1.222273e+00 9.038407e-01 9.891378e-01 1.483707e+01 1 1.483707e+01 1 5256102 80643128 1 5256107 5 80643110 -18 11 9.595220e-01 1 3 73 0 23 1 -1 -5256103 -1 -80643129 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 26 12 1 62162395 12 0 62306433 tandem_dup 144044 16 0 0 0 26_samples:0 62162393 62162727 335 73 62306159 62306437 279 63 FAM19A2 Intron of FAM19A2(-): 14Kb before exon 3 FAM19A2 5'-UTR of FAM19A2(-): 45Kb before coding start Duplication within transcript 2.000000e-02 3.000000e-02 0 0 2 0 2 0 1.461097e+00 6.650164e-01 9.107184e-01 1.457149e+01 1 1.457149e+01 1 62162393 62306437 1 62162395 2 62306433 -4 13 9.459448e-01 1 4 75 0 31 1 -1 -62162394 -1 -62306438 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 16 1 1 181309226 18 0 28639324 inter_chr NaN 20 0 0 0 26_samples:0 181309224 181309567 344 74 28638979 28639325 347 71 CACNA1E IGR: 143Kb before CACNA1E(+) DSC2 IGR: 7Kb before DSC2(-) - 0 0 0 0 2 1 1 1 1.663354e+00 1.402409e+00 7.266986e-01 1.453397e+01 1 1.453397e+01 1 181309224 28639325 1 181309226 2 28639324 -1 11 9.788084e-01 1 1 73 0 32 1 -1 -181309225 -1 -28639326 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 27 12 1 69573089 12 0 70039379 tandem_dup 466271 16 0 0 0 26_samples:0 69573099 69573419 321 70 70039046 70039370 325 73 CPSF6 IGR: 60Kb before CPSF6(+) BEST3 IGR: 8Kb before BEST3(-) - 0 0 0 0 2 1 1 1 1.222273e+00 1.461097e+00 9.008260e-01 1.441322e+01 1 1.441322e+01 1 69573099 70039370 1 69573089 -10 70039379 9 11 9.345268e-01 1 8 74 0 28 1 -1 -69573100 -1 -70039371 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 36 23 0 78858648 23 1 78860133 deletion 1587 14 0 0 0 26_samples:0 78858310 78858547 238 60 78860134 78860373 240 57 ITM2A IGR: 243Kb before ITM2A(-) ITM2A IGR: 244Kb before ITM2A(-) - 8.000000e-02 0 0 0 0 1 3 1 4.131810e-01 1.910475e-01 1 14 1 14 1 78858547 78860134 1 78858648 101 78860133 -1 6 8.823810e-01 0 3 75 0 10 1 -1 -78858548 -1 -78860135 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 35 13 0 20172831 20 0 14839244 inter_chr NaN 14 0 0 0 26_samples:0 20172550 20172811 262 70 14838988 14839220 233 61 MPHOSPH8 IGR: 35Kb before MPHOSPH8(+) MACROD2 Intron of MACROD2(+): 174Kb after exon 5 - 4.000000e-02 5.000000e-02 0 0 2 1 1 1 1.153626e+00 4.872255e-01 9.963874e-01 1.394942e+01 1 1.394942e+01 1 20172811 14839220 1 20172831 20 14839244 24 4 8.718946e-01 0 0 82 1 A 22 1 -1 -20172812 -1 -14839221 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 33 3 0 120139920 18 1 28639527 inter_chr NaN 14 0 0 0 26_samples:0 120139624 120139882 259 62 28639527 28639861 335 73 FSTL1 Intron of FSTL1(-): 5Kb before exon 3 DSC2 IGR: 6Kb before DSC2(-) - 0 0 0 0 2 1 1 0 5.612700e-01 1.375759e+00 9.496177e-01 1.329465e+01 1 1.329465e+01 1 120139882 28639527 1 120139920 38 28639527 0 13 9.613294e-01 0 1 79 0 21 1 -1 -120139883 -1 -28639528 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 38 16 1 55317261 16 1 84827463 long_range 29510195 13 0 0 0 26_samples:0 55317285 55317553 269 64 84827480 84827793 314 70 IRX6 IGR: 41Kb before IRX6(+) CRISPLD2 IGR: 26Kb before CRISPLD2(+) - 0 0 8.000000e-02 0 2 1 2 1 7.093590e-01 1.153626e+00 9.963874e-01 1.295304e+01 1 1.295304e+01 1 55317285 84827480 1 55317261 -24 84827463 -17 14 9.734903e-01 1 0 68 0 20 1 -1 -55317286 -1 -84827481 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 37 14 1 92428577 14 0 92667176 tandem_dup 238570 13 0 0 0 26_samples:0 92428578 92428847 270 73 92666850 92667148 299 67 TRIP11 IGR: 6Kb before TRIP11(-) CPSF2 IGR: 37Kb after CPSF2(+) - 0 0 0 5.000000e-02 1 1 2 0 1.375759e+00 9.314924e-01 9.496177e-01 1.234503e+01 1 1.234503e+01 1 92428578 92667148 1 92428577 -1 92667176 28 13 9.856081e-01 1 1 67 0 25 1 -1 -92428579 -1 -92667149 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 39 17 1 28105925 17 0 28493076 tandem_dup 387119 13 0 0 0 26_samples:0 28105951 28106291 341 74 28492802 28493070 269 69 SSH2 Intron of SSH2(-): 15Kb after exon 2 CCDC55 Intron of CCDC55(+): 6Kb before exon 3 Antisense fusion 0 0 0 0 2 1 2 2 1.449804e+00 1.079581e+00 9.161236e-01 1.190961e+01 1 1.190961e+01 1 28105951 28493070 1 28105925 -26 28493076 6 9 9.804411e-01 1 5 76 0 23 1 -1 -28105952 -1 -28493071 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 11 8 1 94231341 8 0 94242189 tandem_dup 10851 29 0 0 0 26_samples:0 94231344 94231665 322 76 94241823 94242195 373 76 C8orf83 IGR: 336Kb before C8orf83(-) C8orf83 IGR: 346Kb before C8orf83(-) - 0 0 0 0 2 0 3 0 1.837317e+00 1.837317e+00 3.970290e-01 1.151384e+01 1 1.151384e+01 1 94231344 94242195 1 94231341 -3 94242189 -6 4 9.358396e-01 1 5 79 0 13 1 -1 -94231345 -1 -94242196 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 40 23 0 107508222 23 1 108124012 deletion 615794 13 0 0 0 26_samples:0 107507860 107508225 366 75 108124019 108124262 244 59 COL4A6 Intron of COL4A6(-): 44Kb before exon 4 IRS4 IGR: 148Kb before IRS4(-) - 0 0 0 0 2 0 2 1 1.523848e+00 3.391365e-01 8.743147e-01 1.136609e+01 1 1.136609e+01 1 107508225 108124019 1 107508222 -3 108124012 -7 11 9.717820e-01 0 0 72 0 16 1 107508396 171 108123818 -201 1 8.720180e-01 0 0 80 26 TATTTACTTTTGAAATGTATGAATTG 20 1 8.000000e-01 LUSC-60-2695 41 3 1 191209542 3 0 191280659 tandem_dup 71064 11 0 0 0 26_samples:0 191209562 191209796 235 51 191280369 191280626 258 69 PYDC2 IGR: 31Kb before PYDC2(+) PYDC2 IGR: 102Kb before PYDC2(+) - 0 3.000000e-02 0 0 1 0 2 1 -2.233019e-01 1.020140e+00 9.999918e-01 1.099991e+01 1 1.099991e+01 1 191209562 191280626 1 191209542 -20 191280659 33 4 9.882156e-01 1 2 60 0 19 1 -1 -191209563 -1 -191280627 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 44 6 0 49217026 6 1 51929107 long_range 2712127 10 0 0 0 26_samples:0 49216737 49217002 266 67 51929129 51929411 283 68 MUT IGR: 181Kb before MUT(-) PKHD1 Intron of PKHD1(-): 624bp after exon 13 - 0 0 0 0 1 0 1 0 8.819797e-01 9.510598e-01 1 10 1 10 1 49217002 51929129 1 49217026 24 51929107 -22 9 9.614699e-01 0 2 65 0 21 1 -1 -49217003 -1 -51929130 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 42 4 1 74410722 4 0 74838423 tandem_dup 427637 10 0 0 0 26_samples:0 74410749 74410936 188 47 74838138 74838386 249 72 RASSF6 IGR: 28Kb before RASSF6(-) PF4 IGR: 8Kb before PF4(-) - 4.000000e-02 4.000000e-02 7.000000e-02 2.000000e-02 2 1 2 1 -4.996223e-01 1.227380e+00 9.883806e-01 9.883806e+00 1 9.883806e+00 1 74410749 74838386 1 74410722 -27 74838423 37 9 9.916563e-01 1 5 74 0 18 1 -1 -74410750 -1 -74838387 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 51 19 1 5567825 19 0 5934941 tandem_dup 366999 9 0 0 0 26_samples:0 5567830 5567978 149 39 5934658 5934829 172 42 PLAC2 3'-UTR of PLAC2(-): 176bp after coding stop RANBP3 Intron of RANBP3(-): 1Kb before exon 6 - 0 0 4.000000e-02 3.000000e-02 1 0 2 0 -9.591515e-01 -7.648703e-01 1 9 1 9 1 5567830 5934829 1 5567825 -5 5934941 112 2 9.360050e-01 1 2 70 0 15 1 -1 -5567831 -1 -5934830 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 57 23 0 87534893 23 1 87811467 deletion 276653 8 0 0 0 26_samples:0 87534563 87534826 264 59 87811479 87811729 251 55 CPXCR1 IGR: 467Kb before CPXCR1(+) CPXCR1 IGR: 191Kb before CPXCR1(+) - 1.100000e-01 7.000000e-02 3.000000e-02 0 3 2 2 1 3.360561e-01 7.701461e-02 1 8 1 8 1 87534826 87811479 1 87534893 67 87811467 -12 3 9.230736e-01 0 2 74 0 9 1 -1 -87534827 -1 -87811480 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 67 8 1 80636220 8 1 80644942 inversion 8792 7 0 0 0 26_samples:0 80636245 80636386 142 29 80645037 80645236 200 55 HEY1 IGR: 40Kb before HEY1(-) HEY1 IGR: 31Kb before HEY1(-) - 0 0 2.000000e-02 4.000000e-02 1 0 1 1 -1.363065e+00 1.006004e-01 1 7 1 7 1 80636245 80645037 1 80636220 -25 80644942 -95 7 9.785917e-01 1 4 72 0 20 1 -1 -80636246 -1 -80645038 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 58 1 1 225125849 1 0 225365711 tandem_dup 239833 7 0 0 0 26_samples:0 225125878 225126170 293 72 225365494 225365711 218 53 DNAH14 5'-UTR of DNAH14(+): 15Kb before coding start DNAH14 Intron of DNAH14(+): 7Kb before exon 36 Duplication within transcript 2.000000e-02 2.000000e-02 8.000000e-02 3.000000e-02 2 4 2 0 1.057613e+00 -1.198925e-02 9.998088e-01 6.998662e+00 1 6.998662e+00 1 225125878 225365711 1 225125849 -29 225365711 0 4 9.506370e-01 1 3 70 0 20 1 -1 -225125879 -1 -225365712 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 62 5 0 9350697 5 1 10457005 long_range 1106350 7 0 0 0 26_samples:0 9350426 9350658 233 58 10457008 10457266 259 72 SEMA5A Intron of SEMA5A(-): 13Kb before exon 4 ROPN1L Intron of ROPN1L(+): 4Kb before exon 4 - 0 0 0 0 3 1 2 2 2.694850e-01 1.057613e+00 9.998088e-01 6.998662e+00 1 6.998662e+00 1 9350658 10457008 1 9350697 39 10457005 -3 2 8.536845e-01 0 1 74 0 30 1 -1 -9350659 -1 -10457009 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 34 5 0 5256107 8 0 80914912 inter_chr NaN 14 0 0 0 26_samples:0 5255753 5256114 362 81 80914630 80914913 284 73 ADAMTS16 Intron of ADAMTS16(+): 7Kb before exon 18 MRPS28 Intron of MRPS28(-): 321bp after exon 2 Protein fusion: out of frame (ADAMTS16-MRPS28) 0 0 0 0 4 1 2 1 1.968115e+00 1.375759e+00 4.978692e-01 6.970169e+00 1 6.970169e+00 1 5256114 80914913 1 5256107 -7 80914912 -1 7 9.494927e-01 0 2 87 0 32 1 -1 -5256115 -1 -80914914 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 70 23 1 45580827 23 0 45732262 tandem_dup 151320 7 0 0 0 26_samples:0 45580825 45580997 173 49 45732002 45732145 144 28 MIR221 IGR: 25Kb before MIR221(-) MIR222 IGR: 126Kb before MIR222(-) - 8.000000e-02 9.000000e-02 0 0 5 3 4 0 -2.371686e-01 -1.419360e+00 9.846154e-01 6.892308e+00 1 6.892308e+00 1 45580825 45732145 1 45580827 2 45732262 117 11 9.821788e-01 1 2 68 0 24 1 45580827 2 45732262 117 1 9.958325e-01 1 2 68 0 20 1 1.200000e+00 LUSC-60-2695 45 16 0 55316857 16 1 57065238 long_range 1748425 10 0 0 0 26_samples:0 55316579 55316828 250 65 57065253 57065540 288 80 IRX6 IGR: 42Kb before IRX6(+) NLRC5 Intron of NLRC5(+): 63bp before exon 11 - 0 0 0 0 2 1 1 2 7.438195e-01 1.780021e+00 6.781545e-01 6.781545e+00 1 6.781545e+00 1 55316828 57065253 1 55316857 29 57065238 -15 3 9.443141e-01 0 2 42 0 12 1 -1 -55316829 -1 -57065254 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 12 19 1 15590163 19 1 15594379 inversion 4200 28 0 0 0 26_samples:0 15590175 15590494 320 83 15594375 15594709 335 71 PGLYRP2 Exon 1 of PGLYRP2(-) PGLYRP2 IGR: 4Kb after PGLYRP2(-) - 0 0 0 0 1 0 2 1 2.446189e+00 1.402409e+00 2.332683e-01 6.531512e+00 1 6.531512e+00 1 15590175 15594375 1 15590163 -12 15594379 4 16 9.209860e-01 1 2 73 0 19 1 15590163 -12 15594379 4 1 9.075414e-01 1 2 73 0 2 1 9.500000e+00 LUSC-60-2695 55 21 0 43566561 21 1 44498844 deletion 932319 8 0 0 0 26_samples:0 43566256 43566530 275 79 44498849 44499080 232 55 UMODL1 IGR: 3Kb after UMODL1(+) CBS Promoter of CBS(-): 2Kb from tx start - 0 0 5.000000e-02 6.000000e-02 1 0 2 1 1.631264e+00 7.701461e-02 7.990062e-01 6.392050e+00 1 6.392050e+00 1 43566530 44498849 1 43566561 31 44498844 -5 8 9.811327e-01 0 1 59 0 15 1 -1 -43566531 -1 -44498850 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 15 19 0 15596449 19 0 15598371 inversion 1924 22 0 0 0 26_samples:0 15596157 15596451 295 73 15598051 15598375 325 80 PGLYRP2 IGR: 6Kb after PGLYRP2(-) PGLYRP2 IGR: 19Kb before PGLYRP2(-) - 2.000000e-02 6.000000e-02 9.000000e-02 1.400000e-01 6 0 2 4 1.576373e+00 2.185244e+00 2.901146e-01 6.382521e+00 1 6.382521e+00 1 15596451 15598375 1 15596449 -2 15598371 -4 6 9.284665e-01 0 4 69 0 15 1 -1 -15596452 -1 -15598376 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 46 16 1 72833942 16 0 72980091 tandem_dup 146097 10 0 0 0 26_samples:0 72833971 72834247 277 70 72979807 72980068 262 81 ZFHX3 Exon 8 of ZFHX3(-) ZFHX3 Intron of ZFHX3(-): 4Kb after exon 3 Duplication within transcript: mid-exon 0 0 0 0 4 2 2 2 1.089220e+00 1.849101e+00 6.198384e-01 6.198384e+00 1 6.198384e+00 1 72833971 72980068 1 72833942 -29 72980091 23 4 8.914317e-01 1 3 75 0 13 1 72833877 -94 72980269 201 1 7.561414e-01 1 0 71 1 A 16 1 8.125000e-01 LUSC-60-2695 77 5 0 78503862 5 1 78579097 deletion 75340 6 0 0 0 26_samples:0 78503554 78503762 209 58 78579102 78579324 223 58 JMY IGR: 28Kb before JMY(+) JMY Intron of JMY(+): 5Kb after exon 2 - 1.800000e-01 8.000000e-02 4.000000e-02 5.000000e-02 3 2 3 1 2.694850e-01 2.694850e-01 1 6 1 6 1 78503762 78579102 1 78503862 100 78579097 -5 2 9.204400e-01 0 1 67 0 11 1 78504114 352 78579242 140 5 8.108428e-01 0 1 59 18 AAGAGAAGGTGGAGGAGG 21 1 5.238095e-01 LUSC-60-2695 78 6 0 5070218 6 0 5078420 inversion 8202 6 0 0 0 26_samples:0 5070009 5070218 210 46 5078215 5078420 206 42 PPP1R3G IGR: 16Kb before PPP1R3G(+) PPP1R3G IGR: 7Kb before PPP1R3G(+) - 0 3.000000e-02 0 0 2 1 1 0 -4.060531e-01 -6.312325e-01 1 6 1 6 1 5070218 5078420 1 -1 -5070219 -1 -5078421 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -5070219 -1 -5078421 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-60-2695 83 11 1 47101588 11 0 47342066 tandem_dup 240419 6 0 0 0 26_samples:0 47101605 47101776 172 30 47341827 47342024 198 32 C11orf49 Intron of C11orf49(+): 28Kb after exon 3 MADD Intron of MADD(+): 3Kb before exon 28 Protein fusion: out of frame (MADD-C11orf49) 1.400000e-01 1.400000e-01 1.400000e-01 1.800000e-01 3 1 4 1 -1.306771e+00 -1.194181e+00 1 6 1 6 1 47101605 47342024 1 47101588 -17 47342066 42 5 8.989072e-01 1 2 57 0 9 1 -1 -47101606 -1 -47342025 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 73 3 1 50393157 3 0 50440943 tandem_dup 47786 6 0 0 0 26_samples:0 50393157 50393373 217 59 50440666 50440943 278 71 TMEM115 Intron of TMEM115(-): 179bp before exon 2 CACNA2D2 Intron of CACNA2D2(-): 9Kb before exon 4 Protein fusion: out of frame (TMEM115-CACNA2D2) 0 0 0 0 1 1 1 0 3.257798e-01 1.001318e+00 1.000000e+00 6.000000e+00 1 6.000000e+00 1 50393157 50440943 1 50393125 -32 50440944 1 1 1 1 0 84 0 4 1 -1 -50393158 -1 -50440944 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2695 75 3 0 197490003 8 0 31180971 inter_chr NaN 6 0 0 0 26_samples:0 197489772 197489982 211 43 31180661 31180954 294 79 FYTTD1 Intron of FYTTD1(+): 5Kb before exon 3 WRN IGR: 290Kb before WRN(+) - 3.000000e-02 0 0 0 2 0 2 0 -5.749377e-01 1.451677e+00 9.156274e-01 5.493764e+00 1 5.493764e+00 1 197489982 31180954 1 197490003 21 31180971 17 4 9.633721e-01 0 7 69 0 30 1 -1 -197489983 -1 -31180955 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 102 19 0 46688742 21 1 43778252 inter_chr NaN 5 0 0 0 26_samples:0 46688526 46688742 217 46 43778252 43778469 218 71 DKFZp434J0226 IGR: 25Kb before DKFZp434J0226(+) TFF1 IGR: 4Kb before TFF1(-) - 0 0 0 0 1 0 1 0 -3.445609e-01 9.570449e-01 1 5 1 5 1 46688742 43778252 1 46688756 14 43778248 -4 1 9.824902e-01 0 0 70 0 11 1 46688745 3 43777899 -353 2 8.311735e-01 0 3 68 2 CC 9 0 1.222222e+00 LUSC-60-2695 69 16 0 55323442 16 0 83236249 long_range 27912766 7 0 0 0 26_samples:0 55323172 55323444 273 84 83235963 83236210 248 74 IRX6 IGR: 35Kb before IRX6(+) CDH13 Intron of CDH13(+): 15Kb before exon 5 - 0 0 0 0 2 0 1 0 1.733151e+00 1.170202e+00 7.138016e-01 4.996611e+00 1 4.996611e+00 1 55323444 83236210 1 55323442 -2 83236249 39 10 9.639984e-01 0 2 62 0 18 1 -1 -55323445 -1 -83236211 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 87 2 1 123075037 2 0 123369230 tandem_dup 294193 5 0 0 0 26_samples:0 123075037 123075285 249 77 123369074 123369230 157 32 TSN IGR: 562Kb before TSN(+) TSN IGR: 856Kb before TSN(+) - 0 0 0 0 2 0 1 1 1.269430e+00 -1.073460e+00 9.808165e-01 4.904083e+00 1 4.904083e+00 1 123075037 123369230 1 123075035 -2 123369297 67 1 1 1 1 66 0 8 1 -1 -123075038 -1 -123369231 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2695 32 2 1 74541700 2 0 74719355 tandem_dup 177612 14 0 0 0 26_samples:0 74541699 74541988 290 85 74719030 74719311 282 60 SLC4A5 Intron of SLC4A5(-): 373bp after exon 6 TTC31 Exon 10 of TTC31(+) Antisense fusion 0 0 0 0 2 1 3 0 2.264293e+00 4.131810e-01 3.310278e-01 4.634389e+00 1 4.634389e+00 1 74541699 74719311 1 74541700 1 74719355 44 7 9.752646e-01 1 5 67 0 15 1 -1 -74541700 -1 -74719312 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 56 22 1 41615443 22 0 42069651 tandem_dup 454174 8 0 0 0 26_samples:0 41615438 41615755 318 84 42069363 42069612 250 61 L3MBTL2 Exon 6 of L3MBTL2(+) NHP2L1 IGR: 326bp before NHP2L1(-) - 0 0 7.000000e-02 4.000000e-02 3 1 2 0 1.955066e+00 4.655769e-01 5.344269e-01 4.275415e+00 1 4.275415e+00 1 41615438 42069612 1 41615443 5 42069651 39 10 9.394232e-01 1 2 73 0 12 1 -1 -41615439 -1 -42069613 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 111 2 0 186079001 2 0 187015429 inversion 936271 4 0 0 0 26_samples:0 186078896 186079000 105 23 187015144 187015271 128 12 ZNF804A IGR: 275Kb after ZNF804A(+) ZC3H15 IGR: 336Kb before ZC3H15(+) - 0 0 0 0 1 0 1 0 -1.315518e+00 -1.820618e+00 1 4 1 4 1 186079000 187015271 1 186079001 1 187015429 158 2 9.958405e-01 0 1 70 0 12 1 -1 -186079001 -1 -187015272 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2695 126 6 1 3898428 6 1 5074655 long_range 1176227 4 0 0 0 26_samples:0 3898428 3898571 144 33 5074655 5074833 179 36 FAM50B IGR: 49Kb before FAM50B(+) PPP1R3G IGR: 11Kb before PPP1R3G(+) - 0 0 5.000000e-02 1.700000e-01 2 1 3 4 -8.563373e-01 -7.185830e-01 1 4 1 4 1 3898428 5074655 1 3898335 -93 5074612 -43 1 9.577765e-01 1 2 65 1 A 2 1 -1 -3898429 -1 -5074656 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2695 127 6 0 5046241 6 0 5072979 inversion 26738 4 0 0 0 26_samples:0 5046054 5046241 188 59 5072758 5072979 222 59 PPP1R3G IGR: 39Kb before PPP1R3G(+) PPP1R3G IGR: 13Kb before PPP1R3G(+) - 0 0 7.000000e-02 3.000000e-02 1 0 2 2 3.375336e-01 3.375336e-01 1 4 1 4 1 5046241 5072979 1 5046544 303 5073333 354 1 7.703120e-01 0 5 87 0 19 1 5046544 303 5073333 354 3 7.596052e-01 0 5 87 0 17 0 1.117647e+00 LUSC-60-2695 143 10 1 74925639 10 0 75095272 tandem_dup 169496 4 0 0 0 26_samples:0 74925690 74925795 106 22 75095028 75095186 159 32 ECD 3'-UTR of ECD(-): 2Kb after coding stop TTC18 Intron of TTC18(-): 2bp after exon 8 - 6.000000e-02 2.000000e-02 0 0 2 2 2 1 -1.361437e+00 -9.022554e-01 1 4 1 4 1 74925690 75095186 1 74925639 -51 75095272 86 3 9.866118e-01 1 1 73 0 13 1 -1 -74925691 -1 -75095187 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 1 11 0 70738238 11 0 70740400 inversion 2159 296 0 0 0 26_samples:0 70737834 70738248 415 52 70739966 70740407 442 57 SHANK2 Intron of SHANK2(-): 4Kb after exon 8 SHANK2 Intron of SHANK2(-): 2Kb after exon 8 - 0 0 1.000000e-02 3.000000e-02 6 1 4 1 2.842597e-01 6.616600e-01 1 296 1 296 1 70738248 70740407 1 70738238 -10 70740400 -7 20 9.830150e-01 0 2 77 0 430 1 -1 -70738249 -1 -70740408 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 3 11 1 70383831 11 1 70387721 inversion 3898 53 0 0 0 26_samples:0 70383828 70384177 350 50 70387726 70388146 421 51 SHANK2 Intron of SHANK2(-): 35Kb before exon 3 SHANK2 Intron of SHANK2(-): 39Kb before exon 3 Antisense fusion 0 0 1.000000e-02 0 2 1 3 1 1.332996e-01 2.087797e-01 1 53 1 53 1 70383828 70387726 1 70383831 3 70387721 -5 20 9.858103e-01 1 2 79 0 109 1 -1 -70383829 -1 -70387727 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 2 11 1 70595691 11 1 70599100 inversion 3410 88 0 0 0 26_samples:0 70595684 70596010 327 48 70599094 70599407 314 57 SHANK2 Intron of SHANK2(-): 49Kb after exon 11 SHANK2 Intron of SHANK2(-): 45Kb after exon 11 Antisense fusion 0 0 0 0 5 1 9 1 -1.766047e-02 6.616600e-01 5.834989e-01 5.134790e+01 1 5.134790e+01 1 70595684 70599094 1 70595691 7 70599100 6 20 9.991916e-01 1 5 73 0 132 1 -1 -70595685 -1 -70599095 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 4 11 1 68344919 11 0 68367775 tandem_dup 22849 50 0 0 0 26_samples:0 68344915 68345107 193 26 68367508 68367764 257 32 SAPS3 Intron of SAPS3(+): 1Kb after exon 14 SAPS3 Intron of SAPS3(+): 45bp before exon 19 Duplication of 4 exons: out of frame 0 0 1.000000e-02 0 3 0 4 1 -1.678222e+00 -1.225341e+00 1 50 1 50 1 68344915 68367764 1 68344919 4 68367775 11 20 9.834661e-01 1 1 74 0 58 1 -1 -68344916 -1 -68367765 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 6 1 1 158053130 3 1 155990281 inter_chr NaN 43 0 0 0 26_samples:0 158053126 158053433 308 59 155990270 155990549 280 51 KIRREL Intron of KIRREL(+): 1Kb before exon 4 KCNAB1 Intron of KCNAB1(+): 129Kb after exon 1 - 0 0 0 2.000000e-02 1 1 1 2 8.126201e-01 2.087797e-01 1 43 1 43 1 158053126 155990270 1 158053130 4 155990281 11 20 9.888941e-01 1 1 68 0 57 1 -1 -158053127 -1 -155990271 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 7 11 0 68345106 11 1 68369061 deletion 23945 41 0 0 0 26_samples:0 68344916 68345111 196 28 68369056 68369318 263 38 SAPS3 Intron of SAPS3(+): 2Kb after exon 14 SAPS3 Intron of SAPS3(+): 275bp before exon 20 Deletion of 5 exons: out of frame 0 0 0 0 3 0 1 1 -1.527262e+00 -7.724610e-01 1 41 1 41 1 68345111 68369056 1 68345106 -5 68369061 5 20 9.908901e-01 0 2 80 0 73 1 68345147 36 68368852 -204 1 8.898596e-01 0 3 73 0 2 1 3.650000e+01 LUSC-60-2698 8 11 0 62323148 11 1 68368269 long_range 6045116 40 0 0 0 26_samples:0 62322932 62323149 218 33 68368265 68368511 247 43 EEF1G IGR: 4Kb before EEF1G(-) SAPS3 Intron of SAPS3(+): 303bp after exon 19 - 1.000000e-02 0 0 0 2 0 1 1 -1.149861e+00 -3.950607e-01 1 40 1 40 1 62323149 68368265 1 62323148 -1 68368269 4 16 8.466604e-01 0 0 73 47 AGTGGGGCTAACTCAACAGGGGATATAGGTAATGTTAAAGGGCCCTA 133 1 -1 -62323150 -1 -68368266 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 9 11 1 62322906 11 1 68369854 long_range 6046948 39 0 0 0 26_samples:0 62322906 62323095 190 31 68369854 68370134 281 38 EEF1G IGR: 4Kb before EEF1G(-) SAPS3 Intron of SAPS3(+): 417bp after exon 20 - 1.000000e-02 0 1.000000e-02 0 2 0 2 0 -1.300821e+00 -7.724610e-01 1 39 1 39 1 62322906 68369854 1 62322902 -4 68369862 8 11 7.801306e-01 1 1 69 52 TTCTTCTTTGCTTGCTCTGCTTTTCTGCCATCATACTCGGACTGCATAATCT 86 1 -1 -62322907 -1 -68369855 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2698 10 6 0 64529080 19 0 46333550 inter_chr NaN 34 0 0 0 26_samples:0 64528832 64529086 255 52 46333260 46333557 298 50 EYS Intron of EYS(-): 13Kb before exon 37 SYMPK Intron of SYMPK(-): 95bp before exon 13 - 0 0 0 0 1 2 1 2 2.842597e-01 1.332996e-01 1 34 1 34 1 64529086 46333557 1 64529080 -6 46333550 -7 20 9.932339e-01 0 2 78 0 56 1 -1 -64529087 -1 -46333558 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 11 7 1 54529543 19 0 22702903 inter_chr NaN 34 0 0 0 26_samples:0 54529540 54529780 241 39 22702646 22702911 266 47 VSTM2A IGR: 80Kb before VSTM2A(+) ZNF492 IGR: 114Kb before ZNF492(+) - 0 0 2.000000e-01 1.800000e-01 2 2 4 0 -6.969809e-01 -9.314052e-02 1 34 1 34 1 54529540 22702911 1 54529543 3 22702903 -8 17 9.924663e-01 1 2 65 0 23 1 -1 -54529541 -1 -22702912 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 12 11 0 67993372 11 1 68921692 deletion 928343 32 0 0 0 26_samples:0 67993224 67993377 154 21 68921720 68921991 272 44 C11orf24 IGR: 35Kb before C11orf24(-) TPCN2 IGR: 105Kb before TPCN2(+) - 0 0 1.000000e-02 0 4 0 3 2 -2.055622e+00 -3.195807e-01 1 32 1 32 1 67993377 68921720 1 67993372 -5 68921692 -28 20 9.623713e-01 0 0 81 11 TAATATTGTAA 86 1 -1 -67993378 -1 -68921721 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 13 11 1 67993221 11 1 68367395 inversion 374227 30 0 0 0 26_samples:0 67993218 67993374 157 22 68367445 68367696 252 41 C11orf24 IGR: 36Kb before C11orf24(-) SAPS3 Intron of SAPS3(+): 364bp before exon 19 - 0 0 1.000000e-02 0 4 0 4 2 -1.980142e+00 -5.460208e-01 1 30 1 30 1 67993218 68367445 1 67993221 3 68367395 -50 20 9.367025e-01 1 0 77 0 57 1 -1 -67993219 -1 -68367446 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 5 7 0 56547374 7 0 56552527 inversion 5161 46 0 0 0 26_samples:0 56546979 56547379 401 73 56552245 56552540 296 59 DKFZp434L192 IGR: 17Kb before DKFZp434L192(+) DKFZp434L192 IGR: 11Kb before DKFZp434L192(+) - 1.000000e-02 2.000000e-02 1.000000e-02 0 1 1 1 3 1.869341e+00 8.126201e-01 6.034976e-01 2.776089e+01 1 2.776089e+01 1 56547379 56552540 1 56547374 -5 56552527 -13 20 9.987127e-01 0 6 70 0 47 1 -1 -56547380 -1 -56552541 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 16 7 1 54528311 19 1 22702603 inter_chr NaN 27 0 0 0 26_samples:0 54528319 54528582 264 43 22702601 22702866 266 45 VSTM2A IGR: 82Kb before VSTM2A(+) ZNF492 IGR: 115Kb before ZNF492(+) - 0 0 2.000000e-01 1.800000e-01 3 0 4 1 -3.277893e-01 -1.907738e-01 1 27 1 27 1 54528319 22702601 1 54528311 -8 22702603 2 20 9.974996e-01 1 0 62 0 43 1 -1 -54528320 -1 -22702602 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 17 8 0 54602028 8 1 54689342 deletion 87302 27 0 0 0 26_samples:0 54601781 54602035 255 46 54689337 54689613 277 49 ATP6V1H IGR: 26Kb before ATP6V1H(-) ATP6V1H Intron of ATP6V1H(-): 5Kb before exon 10 - 1.000000e-02 0 0 0 2 1 1 0 -1.222661e-01 8.325717e-02 1 27 1 27 1 54602035 54689337 1 54602028 -7 54689342 5 17 9.980059e-01 0 6 70 0 29 1 -1 -54602036 -1 -54689338 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 18 11 1 68969453 11 1 68971742 inversion 2289 27 0 0 0 26_samples:0 68969450 68969734 285 50 68971739 68971996 258 40 MYEOV IGR: 92Kb before MYEOV(+) MYEOV IGR: 90Kb before MYEOV(+) - 0 0 0 0 3 0 0 1 1.517649e-01 -5.333126e-01 1 27 1 27 1 68969450 68971739 1 68969453 3 68971742 3 20 9.911713e-01 1 1 78 0 49 1 -1 -68969451 -1 -68971740 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 20 11 0 68368882 11 1 68692341 deletion 323459 24 0 0 0 26_samples:0 68368561 68368882 322 54 68692341 68692585 245 36 SAPS3 Intron of SAPS3(+): 449bp before exon 20 IGHMBP2 Intron of IGHMBP2(+): 4Kb before exon 8 Protein fusion: out of frame (SAPS3-IGHMBP2) 0 0 0 3.000000e-02 1 1 3 2 4.257959e-01 -8.073436e-01 1 24 1 24 1 68368882 68692341 1 -1 -68368883 -1 -68692342 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -68368883 -1 -68692342 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-60-2698 22 10 0 125975087 10 1 126115095 deletion 140002 23 0 0 0 26_samples:0 125974829 125975083 255 55 126115085 126115369 285 58 OAT IGR: 111Kb before OAT(-) OAT IGR: 8Kb after OAT(-) - 0 0 2.000000e-02 5.000000e-02 1 0 3 2 4.943037e-01 6.998269e-01 1 23 1 23 1 125975083 126115085 1 125975087 4 126115095 10 17 9.849104e-01 0 2 75 0 29 1 -1 -125975084 -1 -126115086 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 25 13 1 73786266 13 0 74032226 tandem_dup 245954 22 0 0 0 26_samples:0 73786273 73786553 281 51 74031998 74032227 230 50 KLF5 IGR: 153Kb before KLF5(+) KLF12 IGR: 228Kb before KLF12(-) - 0 0 1.000000e-02 0 2 0 2 0 2.202727e-01 1.517649e-01 1 22 1 22 1 73786273 74032227 1 73786266 -7 74032226 -1 17 9.840049e-01 1 0 60 1 A 28 1 -1 -73786274 -1 -74032228 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 26 1 0 157668509 1 0 177668958 long_range 20000452 21 0 0 0 26_samples:0 157668285 157668512 228 49 177668743 177668964 222 44 FCRL3 Intron of FCRL3(-): 93bp before exon 4 SEC16B IGR: 229Kb before SEC16B(-) - 0 0 0 0 1 1 1 0 8.325717e-02 -2.592816e-01 1 21 1 21 1 157668512 177668964 1 157668509 -3 177668958 -6 17 9.293965e-01 0 0 73 20 GTCGAGAATACCCATGTTGT 49 1 -1 -157668513 -1 -177668965 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 27 3 1 157827935 3 0 157834308 tandem_dup 6385 21 0 0 0 26_samples:0 157827932 157828180 249 47 157834055 157834317 263 44 RSRC1 5'-UTR of RSRC1(+): 12Kb before coding start RSRC1 5'-UTR of RSRC1(+): 6Kb before coding start Duplication within transcript 0 0 0 0 1 1 1 1 -5.375832e-02 -2.592816e-01 1 21 1 21 1 157827932 157834317 1 157827935 3 157834308 -9 20 9.932943e-01 1 2 60 0 41 1 157827722 -210 157834325 8 2 9.322497e-01 1 9 66 0 2 1 2.050000e+01 LUSC-60-2698 29 22 0 41696938 22 1 41698564 deletion 1610 21 0 0 0 26_samples:0 41696710 41696954 245 48 41698564 41698837 274 58 ZC3H7B Promoter of ZC3H7B(+): 613bp from tx start ZC3H7B 5'-UTR of ZC3H7B(+): 18Kb before coding start Deletion within transcript 0 0 0 0 2 2 0 1 1.474943e-02 6.998269e-01 1 21 1 21 1 41696954 41698564 1 41696938 -16 41698564 0 20 9.949942e-01 0 2 77 0 33 1 -1 -41696955 -1 -41698565 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 28 11 0 17685524 15 1 56252514 inter_chr NaN 21 0 0 0 26_samples:0 17685286 17685528 243 50 56252516 56252792 277 65 MYOD1 IGR: 56Kb before MYOD1(+) NEDD4 Intron of NEDD4(-): 6Kb after exon 2 - 0 0 1.000000e-02 0 4 2 2 1 1.517649e-01 1.179381e+00 9.942611e-01 2.087948e+01 1 2.087948e+01 1 17685528 56252516 1 17685524 -4 56252514 -2 20 9.989425e-01 0 1 70 0 28 1 -1 -17685529 -1 -56252517 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 31 9 1 27670044 9 0 27713448 tandem_dup 43403 19 0 0 0 26_samples:0 27670045 27670309 265 51 27713193 27713448 256 50 C9orf72 IGR: 110Kb before C9orf72(-) C9orf72 IGR: 153Kb before C9orf72(-) - 0 0 0 0 1 1 2 1 2.244885e-01 1.615648e-01 1 19 1 19 1 27670045 27713448 1 27670044 -1 27713448 0 20 9.943406e-01 1 1 64 0 31 1 27670057 12 27713657 209 1 9.208942e-01 1 8 76 0 4 1 7.750000e+00 LUSC-60-2698 32 12 0 48356385 12 1 48359394 deletion 3023 19 0 0 0 26_samples:0 48356101 48356368 268 52 48359391 48359632 242 46 TMEM106C Promoter of TMEM106C(+): 962bp from tx start TMEM106C Intron of TMEM106C(+): 230bp before exon 4 Deletion within transcript 0 0 0 0 0 1 0 0 2.874123e-01 -9.013041e-02 1 19 1 19 1 48356368 48359391 1 48356385 17 48359394 3 11 9.957718e-01 0 1 81 0 19 1 -1 -48356369 -1 -48359392 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 35 7 1 56271786 10 1 121874626 inter_chr NaN 18 0 0 0 26_samples:0 56271779 56272048 270 48 121874631 121874852 222 40 LOC389493 IGR: 89Kb before LOC389493(-) SEC23IP IGR: 222Kb before SEC23IP(+) - 1.000000e-02 0 1.000000e-02 3.000000e-02 1 1 1 1 3.571717e-02 -4.676732e-01 1 18 1 18 1 56271779 121874631 1 56271786 7 121874626 -5 20 9.949231e-01 1 2 76 0 26 1 -1 -56271780 -1 -121874632 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 34 5 0 114564649 5 1 114567431 deletion 2771 18 0 0 0 26_samples:0 114564371 114564660 290 64 114567431 114567689 259 54 PGGT1B Intron of PGGT1B(-): 2Kb after exon 6 PGGT1B Intron of PGGT1B(-): 713bp before exon 6 Deletion of 1 exon: out of frame 0 0 0 0 1 0 0 1 1.042498e+00 4.132599e-01 9.999233e-01 1.799862e+01 1 1.799862e+01 1 114564660 114567431 1 114564649 -11 114567431 0 10 9.963462e-01 0 2 78 0 13 1 -1 -114564661 -1 -114567432 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 36 1 0 117667560 1 1 117670127 deletion 2575 17 0 0 0 26_samples:0 117667298 117667549 252 49 117670124 117670365 242 41 TRIM45 IGR: 3Kb after TRIM45(-) TRIM45 IGR: 6Kb after TRIM45(-) - 0 0 9.000000e-02 0 0 1 2 0 9.864096e-02 -4.047494e-01 1 17 1 17 1 117667549 117670124 1 117667560 11 117670127 3 15 9.605571e-01 0 0 68 0 23 1 -1 -117667550 -1 -117670125 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 39 4 1 112633772 5 1 9752357 inter_chr NaN 17 0 0 0 26_samples:0 112633771 112634002 232 37 9752365 9752595 231 42 C4orf32 IGR: 433Kb before C4orf32(+) LOC285692 3'-UTR of LOC285692(-): 152Kb after coding stop - 0 0 0 0 2 0 2 0 -6.564445e-01 -3.418256e-01 1 17 1 17 1 112633771 9752365 1 112633772 1 9752357 -8 14 9.961617e-01 1 1 68 0 19 1 -1 -112633772 -1 -9752366 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 37 1 0 175717925 3 0 185057688 inter_chr NaN 17 0 0 0 26_samples:0 175717585 175717922 338 64 185057412 185057689 278 54 TNR IGR: 5Kb after TNR(-) MAP3K13 IGR: 23Kb before MAP3K13(+) - 0 0 1.000000e-02 0 2 0 1 1 1.042498e+00 4.132599e-01 9.999233e-01 1.699870e+01 1 1.699870e+01 1 175717922 185057689 1 175717925 3 185057688 -1 16 9.718354e-01 0 4 68 0 24 1 -1 -175717923 -1 -185057690 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 42 9 0 125372965 9 0 125377279 inversion 4238 16 0 0 0 26_samples:0 125372815 125372968 154 25 125376965 125377206 242 46 OR1Q1 IGR: 4Kb before OR1Q1(+) OR1Q1 Exon 1 of OR1Q1(+) - 0 0 0 0 2 0 2 1 -1.411530e+00 -9.013041e-02 1 16 1 16 1 125372968 125377206 1 125372965 -3 125377279 73 20 9.866868e-01 0 2 67 0 39 1 -1 -125372969 -1 -125377207 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 43 10 1 84191814 21 0 15503373 inter_chr NaN 16 0 0 0 26_samples:0 84191814 84192057 244 60 15503046 15503384 339 59 NRG3 Intron of NRG3(+): 73Kb after exon 3 LIPI Intron of LIPI(-): 14Kb after exon 9 - 0 0 3.000000e-02 3.000000e-02 1 2 4 1 7.908027e-01 7.278789e-01 1 16 1 16 1 84191814 15503384 1 84191814 0 15503373 -11 18 9.919802e-01 1 0 69 0 26 1 -1 -84191815 -1 -15503385 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 45 22 1 50991452 22 0 51006459 tandem_dup 15013 16 0 0 0 26_samples:0 50991449 50991718 270 52 51006152 51006462 311 66 C22orf41 Intron of C22orf41(-): 2Kb before exon 3 CPT1B IGR: 829bp before CPT1B(-) - 1.000000e-02 0 0 0 1 1 1 1 2.874123e-01 1.168345e+00 9.952517e-01 1.592403e+01 1 1.592403e+01 1 50991449 51006462 1 50991452 3 51006459 -3 20 9.958048e-01 1 2 68 0 27 1 -1 -50991450 -1 -51006463 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 41 9 1 125344342 9 1 125372808 inversion 28408 16 0 0 0 26_samples:0 125344396 125344628 233 39 125372804 125372966 163 21 OR1L8 IGR: 15Kb before OR1L8(-) OR1Q1 IGR: 4Kb before OR1Q1(+) - 0 0 0 0 5 1 2 0 -5.305969e-01 -1.663225e+00 9.846154e-01 1.575385e+01 1 1.575385e+01 1 125344396 125372804 1 125344342 -54 125372808 4 17 9.940317e-01 1 0 64 0 21 1 -1 -125344397 -1 -125372805 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 44 13 1 95077375 13 0 95096915 tandem_dup 19479 16 0 0 0 26_samples:0 95077442 95077710 269 47 95096610 95096921 312 68 DCT IGR: 14Kb before DCT(-) DCT Intron of DCT(-): 1Kb before exon 9 - 0 0 0 0 4 0 3 0 -2.720662e-02 1.294193e+00 9.751700e-01 1.560272e+01 1 1.560272e+01 1 95077442 95096921 1 95077375 -67 95096915 -6 11 9.825235e-01 1 0 71 0 19 1 95077604 162 95097126 205 1 7.519209e-01 1 5 72 0 2 1 9.500000e+00 LUSC-60-2698 38 1 0 245516554 9 1 106762651 inter_chr NaN 17 0 0 0 26_samples:0 245516275 245516522 248 52 106762642 106763043 402 71 KIF26B Intron of KIF26B(+): 14Kb before exon 3 SMC2 IGR: 94Kb before SMC2(+) - 0 0 2.000000e-02 3.000000e-02 1 1 1 1 2.874123e-01 1.482964e+00 8.987523e-01 1.527879e+01 1 1.527879e+01 1 245516522 106762642 1 245516554 32 106762651 9 7 9.946118e-01 0 0 76 0 13 1 -1 -245516523 -1 -106762643 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 49 7 0 6870294 7 1 6872870 deletion 2589 15 0 0 0 26_samples:0 6870105 6870300 196 34 6872889 6873108 220 30 C7orf28B IGR: 4Kb after C7orf28B(-) C7orf28B IGR: 7Kb after C7orf28B(-) - 0 0 0 3.000000e-02 1 1 3 1 -8.452159e-01 -1.096911e+00 1 15 1 15 1 6870300 6872889 1 6870294 -6 6872870 -19 20 9.559582e-01 0 0 69 2 CT 43 1 -1 -6870301 -1 -6872890 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 50 7 1 11774193 14 0 31148137 inter_chr NaN 15 0 0 0 26_samples:0 11774190 11774469 280 49 31147913 31148143 231 42 THSD7A Intron of THSD7A(-): 97Kb after exon 1 SCFD1 Intron of SCFD1(+): 4Kb after exon 14 Antisense fusion 0 0 0 0 2 0 2 2 9.864096e-02 -3.418256e-01 1 15 1 15 1 11774190 31148143 1 11774193 3 31148137 -6 15 9.862079e-01 1 2 85 0 19 1 -1 -11774191 -1 -31148144 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 51 8 0 74232643 15 1 56252625 inter_chr NaN 15 0 0 0 26_samples:0 74232391 74232642 252 50 56252622 56252867 246 45 RDH10 Intron of RDH10(+): 525bp before exon 4 NEDD4 Intron of NEDD4(-): 6Kb after exon 2 Antisense fusion 0 0 1.000000e-02 0 4 0 2 1 1.615648e-01 -1.530542e-01 1 15 1 15 1 74232642 56252622 1 74232643 1 56252625 3 20 9.960420e-01 0 0 75 0 24 1 -1 -74232643 -1 -56252623 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 52 10 1 115080036 10 1 115090974 inversion 10938 15 0 0 0 26_samples:0 115080034 115080306 273 44 115090972 115091210 239 49 HABP2 IGR: 231Kb before HABP2(+) HABP2 IGR: 220Kb before HABP2(+) - 0 0 0 0 1 1 2 1 -2.159780e-01 9.864096e-02 1 15 1 15 1 115080034 115090972 1 115080036 2 115090974 2 20 9.972821e-01 1 2 71 0 38 1 -1 -115080035 -1 -115090973 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 53 11 1 85279861 11 0 85282263 tandem_dup 2352 15 0 0 0 26_samples:0 85279857 85280165 309 51 85281907 85282209 303 54 DLG2 Intron of DLG2(-): 30Kb after exon 3 DLG2 Intron of DLG2(-): 27Kb after exon 3 Duplication within intron 1.000000e-02 0 1.000000e-02 0 4 1 1 1 2.244885e-01 4.132599e-01 1 15 1 15 1 85279857 85282209 1 85279861 4 85282263 54 15 9.594415e-01 1 1 81 0 25 1 85279973 116 85282414 205 2 7.947029e-01 1 4 74 0 3 1 8.333333e+00 LUSC-60-2698 55 1 1 72362582 2 1 227111088 inter_chr NaN 14 0 0 0 26_samples:0 72362577 72362829 253 42 227111097 227111308 212 36 NEGR1 Intron of NEGR1(-): 38Kb after exon 2 IRS1 IGR: 485Kb before IRS1(-) - 3.000000e-02 0 0 0 2 1 2 1 -3.054095e-01 -6.649867e-01 1 14 1 14 1 72362577 227111097 1 72362582 5 227111088 -9 12 9.942308e-01 1 3 72 0 15 1 -1 -72362578 -1 -227111098 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 56 3 1 55637050 3 0 151147091 long_range 95510033 14 0 0 0 26_samples:0 55637066 55637300 235 48 151146865 151147099 235 47 ERC2 3'-UTR of ERC2(-): 81Kb after coding stop MED12L Intron of MED12L(+): 988bp before exon 42 - 0 0 0 0 1 0 1 1 5.416779e-02 -5.761755e-03 1 14 1 14 1 55637066 151147099 1 55637050 -16 151147091 -8 4 9.280411e-01 1 0 69 0 16 1 -1 -55637067 -1 -151147100 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 59 6 0 101258992 6 1 101510353 deletion 251375 14 0 0 0 26_samples:0 101258757 101258974 218 38 101510349 101510540 192 30 ASCC3 Intron of ASCC3(-): 5Kb before exon 5 ASCC3 IGR: 206Kb before ASCC3(-) - 0 0 2.000000e-02 0 2 1 1 0 -5.451277e-01 -1.024564e+00 1 14 1 14 1 101258974 101510349 1 101258992 18 101510353 4 20 9.581033e-01 0 0 78 6 GTTTGA 29 1 -1 -101258975 -1 -101510350 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 60 9 0 10187791 9 1 10325286 deletion 137495 14 0 0 0 26_samples:0 10187551 10187786 236 41 10325281 10325669 389 70 PTPRD 5'-UTR of PTPRD(-): 1Mb before coding start PTPRD 5'-UTR of PTPRD(-): 2Mb before coding start Deletion within transcript 0 0 3.000000e-02 0 2 0 1 0 -3.653390e-01 1.372618e+00 9.508092e-01 1.331133e+01 1 1.331133e+01 1 10187786 10325281 1 10187791 5 10325286 5 14 1 0 2 67 0 18 1 -1 -10187787 -1 -10325282 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 61 1 0 84944883 1 1 84947051 deletion 2177 13 0 0 0 26_samples:0 84944646 84944881 236 57 84947058 84947323 266 48 RPF1 Promoter of RPF1(+): 39bp from tx start RPF1 Intron of RPF1(+): 363bp after exon 2 Deletion within transcript 0 0 0 0 0 1 1 1 5.935337e-01 5.416779e-02 1 13 1 13 1 84944881 84947058 1 84944883 2 84947051 -7 14 9.608608e-01 0 0 73 0 24 1 -1 -84944882 -1 -84947059 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 63 7 0 51932231 7 1 51933200 deletion 973 13 0 0 0 26_samples:0 51931962 51932230 269 50 51933203 51933455 253 46 COBL IGR: 848Kb before COBL(-) COBL IGR: 849Kb before COBL(-) - 0 0 0 0 0 1 0 1 1.740269e-01 -6.569130e-02 1 13 1 13 1 51932230 51933203 1 51932231 1 51933200 -3 17 9.979272e-01 0 3 76 0 17 1 -1 -51932231 -1 -51933204 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 64 7 0 10564879 12 0 19711430 inter_chr NaN 13 0 0 0 26_samples:0 10564661 10564873 213 31 19711221 19711413 193 31 NDUFA4 IGR: 408Kb before NDUFA4(-) AEBP2 IGR: 36Kb after AEBP2(+) - 0 0 0 0 1 0 1 2 -9.646345e-01 -9.646345e-01 1 13 1 13 1 10564873 19711413 1 10564879 6 19711430 17 12 9.939578e-01 0 3 72 0 16 1 -1 -10564874 -1 -19711414 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 65 8 0 109818978 19 0 57771564 inter_chr NaN 13 0 0 0 26_samples:0 109818741 109818987 247 50 57771328 57771566 239 47 TMEM74 IGR: 24Kb before TMEM74(-) ZNF805 3'-UTR of ZNF805(+): 5Kb after coding stop - 4.000000e-02 3.000000e-02 0 0 2 2 2 1 1.740269e-01 -5.761755e-03 1 13 1 13 1 109818987 57771566 1 109818978 -9 57771564 -2 12 9.955380e-01 0 2 75 0 17 1 -1 -109818988 -1 -57771567 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 66 12 0 127129169 12 1 132119132 long_range 4989981 13 0 0 0 26_samples:0 127128927 127129164 238 38 132119145 132119345 201 32 LOC100128554 IGR: 202Kb before LOC100128554(+) SFRS8 IGR: 76Kb before SFRS8(+) - 0 0 3.000000e-02 0 2 1 3 0 -5.451277e-01 -9.047049e-01 1 13 1 13 1 127129164 132119145 1 127129169 5 132119132 -13 10 9.988941e-01 0 0 68 0 14 1 -1 -127129165 -1 -132119146 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 62 7 0 9523015 7 1 9524738 deletion 1735 13 0 0 0 26_samples:0 9522680 9523001 322 66 9524736 9524999 264 59 PER4 IGR: 151Kb before PER4(+) PER4 IGR: 149Kb before PER4(+) - 0 0 3.000000e-02 0 1 1 2 1 1.132900e+00 7.133928e-01 9.976582e-01 1.296956e+01 1 1.296956e+01 1 9523001 9524736 1 9523015 14 9524738 2 18 9.949075e-01 0 2 75 0 24 1 -1 -9523002 -1 -9524737 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 68 3 0 173624945 3 1 173626599 deletion 1683 12 0 0 0 26_samples:0 173624699 173624911 213 37 173626594 173626795 202 30 NLGN1 Intron of NLGN1(+): 99Kb after exon 4 NLGN1 Intron of NLGN1(+): 101Kb after exon 4 Deletion within intron 0 0 1.000000e-02 0 1 1 1 0 -6.050572e-01 -1.024564e+00 1 12 1 12 1 173624911 173626594 1 173624945 34 173626599 5 20 9.938514e-01 0 2 73 0 29 1 -1 -173624912 -1 -173626595 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 69 3 0 164055848 9 1 122870652 inter_chr NaN 12 0 0 0 26_samples:0 164055643 164055838 196 30 122870670 122870898 229 48 SI IGR: 641Kb before SI(-) MIR147 IGR: 137Kb before MIR147(-) - 0 0 0 0 1 2 1 2 -1.024564e+00 5.416779e-02 1 12 1 12 1 164055838 122870670 1 164055848 10 122870652 -18 15 9.986541e-01 0 1 78 0 20 1 -1 -164055839 -1 -122870671 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 70 4 0 39948160 4 1 90196098 long_range 50247973 12 0 0 0 26_samples:0 39947935 39948164 230 42 90196137 90196355 219 42 PDS5A Intron of PDS5A(-): 18Kb before exon 3 GPRIN3 5'-UTR of GPRIN3(-): 25Kb before coding start Transcript fusion (GPRIN3-PDS5A) 0 0 1.000000e-02 0 3 1 2 1 -3.054095e-01 -3.054095e-01 1 12 1 12 1 39948164 90196137 1 39948160 -4 90196098 -39 12 9.745233e-01 0 0 78 0 21 1 -1 -39948165 -1 -90196138 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 71 6 0 91935640 6 1 91944562 deletion 8930 12 0 0 0 26_samples:0 91935456 91935644 189 30 91944574 91944813 240 37 MAP3K7 IGR: 710Kb before MAP3K7(-) MAP3K7 IGR: 719Kb before MAP3K7(-) - 3.000000e-02 0 0 0 1 0 0 1 -1.024564e+00 -6.050572e-01 1 12 1 12 1 91935644 91944574 1 91935640 -4 91944562 -12 15 9.639363e-01 0 1 81 0 20 1 -1 -91935645 -1 -91944575 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 72 6 1 64051798 8 1 51110634 inter_chr NaN 12 0 0 0 26_samples:0 64051793 64052045 253 60 51110658 51110861 204 32 LGSN IGR: 22Kb after LGSN(-) SNTG1 5'-UTR of SNTG1(+): 196Kb before coding start - 1.000000e-02 0 0 0 1 0 2 1 7.733223e-01 -9.047049e-01 1 12 1 12 1 64051793 51110658 1 64051798 5 51110634 -24 10 9.982718e-01 1 1 70 0 11 1 -1 -64051794 -1 -51110659 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 74 10 0 79597038 10 1 79613629 deletion 16636 12 0 0 0 26_samples:0 79596830 79596999 170 36 79613635 79613830 196 38 DLG5 Intron of DLG5(-): 1Kb before exon 8 DLG5 Intron of DLG5(-): 340bp before exon 5 Deletion of 3 exons: out of frame 2.000000e-02 0 0 0 3 1 4 2 -6.649867e-01 -5.451277e-01 1 12 1 12 1 79596999 79613635 1 79597038 39 79613629 -6 14 9.768982e-01 0 1 60 1 G 20 1 79597210 211 79613600 -35 1 7.526680e-01 0 10 81 0 4 1 5 LUSC-60-2698 75 11 0 83998351 11 1 84001918 deletion 3573 12 0 0 0 26_samples:0 83998087 83998334 248 52 84001907 84002129 223 44 DLG2 Intron of DLG2(-): 36Kb before exon 8 DLG2 Intron of DLG2(-): 40Kb before exon 8 Deletion within intron 0 0 0 0 1 2 1 1 2.938860e-01 -1.855504e-01 1 12 1 12 1 83998334 84001907 1 83998351 17 84001918 11 13 9.983979e-01 0 2 68 0 18 1 -1 -83998335 -1 -84001908 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 76 19 1 31469293 19 0 31549777 tandem_dup 80468 12 0 0 0 26_samples:0 31469290 31469476 187 29 31549554 31549758 205 37 DKFZp566F0947 IGR: 171Kb before DKFZp566F0947(+) DKFZp566F0947 IGR: 91Kb before DKFZp566F0947(+) - 0 0 0 0 2 0 1 1 -1.084494e+00 -6.050572e-01 1 12 1 12 1 31469290 31549758 1 31469293 3 31549777 19 15 1 1 0 69 0 29 1 -1 -31469291 -1 -31549759 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 73 9 0 9364026 9 1 9475383 deletion 111357 12 0 0 0 26_samples:0 9363794 9364033 240 53 9475390 9475657 268 65 PTPRD 5'-UTR of PTPRD(-): 630Kb before coding start PTPRD 5'-UTR of PTPRD(-): 742Kb before coding start Deletion within transcript 0 0 0 0 2 0 2 1 3.538155e-01 1.072970e+00 9.996116e-01 1.199534e+01 1 1.199534e+01 1 9364033 9475390 1 9364026 -7 9475383 -7 16 9.439308e-01 0 2 77 1 G 21 1 -1 -9364034 -1 -9475391 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 79 3 0 55637056 3 1 151145582 long_range 95508531 11 0 0 0 26_samples:0 55636827 55637061 235 45 151145592 151145806 215 43 ERC2 3'-UTR of ERC2(-): 81Kb after coding stop MED12L Intron of MED12L(+): 2Kb before exon 42 - 0 0 1.000000e-02 0 1 1 2 1 -1.010376e-01 -2.137627e-01 1 11 1 11 1 55637061 151145592 1 55637056 -5 151145582 -10 5 1 0 2 76 0 9 1 -1 -55637062 -1 -151145593 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 82 12 0 77838810 12 1 77840260 deletion 1466 11 0 0 0 26_samples:0 77838575 77838807 233 51 77840273 77840510 238 59 NAV3 IGR: 386Kb before NAV3(+) NAV3 IGR: 385Kb before NAV3(+) - 3.000000e-02 0 0 0 0 0 0 1 2.371374e-01 6.880375e-01 1 11 1 11 1 77838807 77840273 1 77838810 3 77840260 -13 3 1 0 3 72 0 8 1 -1 -77838808 -1 -77840274 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 86 21 0 26659805 21 1 26661365 deletion 1615 11 0 0 0 26_samples:0 26659602 26659748 147 18 26661363 26661554 192 26 NCRNA00158 IGR: 98Kb before NCRNA00158(-) NCRNA00158 IGR: 97Kb before NCRNA00158(-) - 0 0 0 0 1 0 1 0 -1.622825e+00 -1.171925e+00 1 11 1 11 1 26659748 26661363 1 26659805 57 26661365 2 9 9.731397e-01 0 0 78 0 12 1 -1 -26659749 -1 -26661364 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 87 1 0 209581677 1 1 209616575 deletion 34911 10 0 0 0 26_samples:0 209581463 209581674 212 55 209616585 209616840 256 58 LOC642587 IGR: 20Kb before LOC642587(+) MIR205 IGR: 11Kb before MIR205(+) - 0 0 0 0 2 1 2 0 4.625875e-01 6.316750e-01 1 10 1 10 1 209581674 209616585 1 209581677 3 209616575 -10 14 9.936875e-01 0 1 81 0 23 1 -1 -209581675 -1 -209616586 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 89 1 0 209750020 9 1 131262920 inter_chr NaN 10 0 0 0 26_samples:0 209749781 209750026 246 49 131262927 131263142 216 38 CAMK1G IGR: 7Kb before CAMK1G(+) ODF2 3'-UTR of ODF2(+): 393bp after coding stop - 0 0 0 0 2 1 1 1 1.244124e-01 -4.955752e-01 1 10 1 10 1 209750026 131262927 1 209750020 -6 131262920 -7 17 9.892435e-01 0 1 71 0 25 1 -1 -209750027 -1 -131262928 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 90 1 1 181301478 11 0 84410842 inter_chr NaN 10 0 0 0 26_samples:0 181301485 181301715 231 49 84410587 84410843 257 49 CACNA1E IGR: 151Kb before CACNA1E(+) DLG2 Intron of DLG2(-): 165Kb before exon 7 - 1.000000e-02 3.000000e-02 1.000000e-02 0 1 1 3 2 1.244124e-01 1.244124e-01 1 10 1 10 1 181301485 84410843 1 181301478 -7 84410842 -1 20 9.900338e-01 1 2 78 0 29 1 -1 -181301486 -1 -84410844 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 92 2 0 78487913 2 1 78489130 deletion 1204 10 0 0 0 26_samples:0 78487666 78487918 253 54 78489122 78489352 231 43 SNAR-H IGR: 306Kb before SNAR-H(-) SNAR-H IGR: 307Kb before SNAR-H(-) - 0 0 0 0 3 3 2 0 4.062250e-01 -2.137627e-01 1 10 1 10 1 78487918 78489122 1 78487913 -5 78489130 8 9 9.980776e-01 0 1 79 0 12 1 -1 -78487919 -1 -78489123 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 94 9 0 27943214 9 1 28681162 deletion 737948 10 0 0 0 26_samples:0 27943008 27943214 207 31 28681162 28681381 220 36 LINGO2 IGR: 5Kb before LINGO2(-) LINGO2 5'-UTR of LINGO2(-): 730Kb before coding start - 0 0 0 0 1 0 1 1 -8.901128e-01 -6.083002e-01 1 10 1 10 1 27943214 28681162 1 27943240 26 28681154 -8 1 1 0 2 80 0 1 1 -1 -27943215 -1 -28681163 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2698 95 10 0 77941087 10 1 78074456 deletion 133412 10 0 0 0 26_samples:0 77940784 77941076 293 60 78074488 78074693 206 38 C10orf11 Intron of C10orf11(+): 123Kb after exon 4 C10orf11 Intron of C10orf11(+): 10Kb before exon 5 Deletion within intron 0 0 0 0 1 1 1 1 7.444001e-01 -4.955752e-01 1 10 1 10 1 77941076 78074488 1 77941087 11 78074456 -32 14 9.858234e-01 0 0 73 0 16 1 -1 -77941077 -1 -78074489 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 101 19 0 35815424 19 0 38457314 long_range 2641896 10 0 0 0 26_samples:0 35815220 35815425 206 37 38457101 38457321 221 35 CD22 IGR: 5Kb before CD22(+) SIPA1L3 5'-UTR of SIPA1L3(+): 115Kb before coding start - 2.000000e-02 0 1.000000e-02 0 2 0 1 1 -5.519377e-01 -6.646628e-01 1 10 1 10 1 35815425 38457321 1 35815424 -1 38457314 -7 11 9.806739e-01 0 0 69 1 A 29 1 -1 -35815426 -1 -38457322 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 102 19 1 57768746 19 1 57772052 inversion 3305 10 0 0 0 26_samples:0 57768748 57768991 244 46 57772053 57772296 244 53 ZNF805 3'-UTR of ZNF805(+): 3Kb after coding stop ZNF805 3'-UTR of ZNF805(+): 6Kb after coding stop - 0 0 0 0 1 1 2 1 -4.467512e-02 3.498625e-01 1 10 1 10 1 57768748 57772053 1 57768746 -2 57772052 -1 18 9.779256e-01 1 0 68 0 25 1 -1 -57768749 -1 -57772054 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 88 1 1 153851944 1 1 153885605 inversion 33655 10 0 0 0 26_samples:0 153851959 153852134 176 35 153885614 153885830 217 36 GATAD2B 5'-UTR of GATAD2B(-): 51Kb before coding start GATAD2B 5'-UTR of GATAD2B(-): 85Kb before coding start Antisense fusion 3.000000e-02 0 1.000000e-02 2.000000e-02 2 0 5 0 -6.646628e-01 -6.083002e-01 9.846154e-01 9.846154e+00 1 9.846154e+00 1 153851959 153885614 1 153851944 -15 153885605 -9 9 9.959470e-01 1 0 70 0 14 1 -1 -153851960 -1 -153885615 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 83 12 0 3976981 14 0 40425113 inter_chr NaN 11 0 0 0 26_samples:0 3976607 3976970 364 74 40424869 40425107 239 45 PARP11 Intron of PARP11(-): 5Kb after exon 1 FBXO33 IGR: 558Kb before FBXO33(-) - 0 0 0 0 1 2 1 1 1.533475e+00 -1.010376e-01 8.681876e-01 9.550063e+00 1 9.550063e+00 1 3976970 40425107 1 3976981 11 40425113 6 15 9.972285e-01 0 2 74 0 22 1 -1 -3976971 -1 -40425108 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 100 19 1 5049102 19 1 5050446 inversion 1340 10 0 0 0 26_samples:0 5049116 5049355 240 73 5050456 5050766 311 64 KDM4B Intron of KDM4B(+): 1Kb after exon 6 KDM4B Intron of KDM4B(+): 3Kb after exon 6 - 0 0 3.000000e-02 0 0 0 1 2 1.477113e+00 9.698501e-01 9.020319e-01 9.020319e+00 1 9.020319e+00 1 5049116 5050456 1 5049102 -14 5050446 -10 11 9.846921e-01 1 5 76 0 25 1 -1 -5049117 -1 -5050457 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 105 2 0 14258539 6 1 19771739 inter_chr NaN 9 0 0 0 26_samples:0 14258333 14258540 208 41 19771811 19771975 165 26 FAM84A IGR: 514Kb before FAM84A(+) ID4 IGR: 66Kb before ID4(+) - 0 0 3.000000e-02 5.000000e-02 3 0 2 1 -2.860137e-01 -1.093528e+00 1 9 1 9 1 14258540 19771811 1 14258539 -1 19771739 -72 12 9.205789e-01 0 0 65 2 GG 29 1 -1 -14258541 -1 -19771812 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 107 3 1 50622944 3 0 50659459 tandem_dup 36446 9 0 0 0 26_samples:0 50622981 50623136 156 22 50659220 50659427 208 39 HEMK1 IGR: 562bp after HEMK1(+) MAPKAPK3 Intron of MAPKAPK3(+): 4Kb after exon 2 - 0 0 0 0 1 1 1 0 -1.308865e+00 -3.936823e-01 1 9 1 9 1 50622981 50659427 1 50622944 -37 50659459 32 6 9.925778e-01 1 3 77 0 12 1 -1 -50622982 -1 -50659428 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 109 4 1 21261214 4 1 35372404 long_range 14111187 9 0 0 0 26_samples:0 21261224 21261410 187 29 35372411 35372614 204 37 KCNIP4 Intron of KCNIP4(-): 44Kb after exon 1 ARAP2 IGR: 695Kb before ARAP2(-) - 0 0 0 0 3 1 1 1 -9.320252e-01 -5.013509e-01 1 9 1 9 1 21261224 35372411 1 21261214 -10 35372404 -7 7 9.788256e-01 1 5 73 0 9 1 21261023 -201 35372407 -4 1 9.185944e-01 1 1 74 0 2 1 4.500000e+00 LUSC-60-2698 110 5 0 133337231 5 1 133341890 deletion 4692 9 0 0 0 26_samples:0 133337029 133337231 203 40 133341923 133342118 196 33 VDAC1 5'-UTR of VDAC1(-): 9Kb before coding start VDAC1 Promoter of VDAC1(-): 1Kb from tx start Deletion within transcript 6.000000e-02 0 0 0 1 1 1 0 -3.398480e-01 -7.166880e-01 1 9 1 9 1 133337231 133341923 1 133337231 0 133341890 -33 12 9.934298e-01 0 0 76 0 18 1 -1 -133337232 -1 -133341924 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 115 11 0 73416817 11 1 73419664 deletion 2859 9 0 0 0 26_samples:0 73416598 73416804 207 33 73419663 73419909 247 46 RAB6A Intron of RAB6A(-): 2Kb after exon 6 RAB6A Intron of RAB6A(-): 1Kb before exon 6 Deletion of 1 exon: out of frame 0 0 0 0 0 0 1 1 -7.166880e-01 -1.684228e-02 1 9 1 9 1 73416804 73419663 1 73416817 13 73419664 1 10 9.978533e-01 0 2 71 0 13 1 -1 -73416805 -1 -73419664 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 116 12 1 125896223 12 0 125909739 tandem_dup 13503 9 0 0 0 26_samples:0 125896225 125896443 219 46 125909523 125909728 206 45 TMEM132B Intron of TMEM132B(+): 4Kb before exon 3 TMEM132B Intron of TMEM132B(+): 10Kb after exon 3 Duplication of 1 exon: in frame 0 0 0 0 1 0 2 0 -1.684228e-02 -7.067657e-02 1 9 1 9 1 125896225 125909728 1 125896223 -2 125909739 11 4 9.881034e-01 1 1 78 0 12 1 -1 -125896226 -1 -125909729 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 117 16 0 58809872 16 1 58830561 deletion 20741 9 0 0 0 26_samples:0 58809639 58809852 214 36 58830593 58830780 188 28 GOT2 IGR: 42Kb after GOT2(-) GOT2 IGR: 62Kb after GOT2(-) - 2.000000e-02 0 0 0 3 1 1 1 -5.551852e-01 -9.858595e-01 1 9 1 9 1 58809852 58830593 1 58809872 20 58830561 -32 6 9.992951e-01 0 2 69 0 12 1 -1 -58809853 -1 -58830594 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 118 22 0 47494566 22 1 47496599 deletion 2033 9 0 0 0 26_samples:0 47494283 47494570 288 57 47496603 47496892 290 66 TBC1D22A Intron of TBC1D22A(+): 13Kb before exon 12 TBC1D22A Intron of TBC1D22A(+): 11Kb before exon 12 Deletion within intron 1.000000e-02 0 0 2.000000e-02 0 0 1 1 5.753349e-01 1.059843e+00 9.997857e-01 8.998072e+00 1 8.998072e+00 1 47494570 47496603 1 47494566 -4 47496599 -4 5 9.956982e-01 0 4 78 0 16 1 -1 -47494571 -1 -47496604 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 84 14 0 104747454 14 1 104751163 deletion 3706 11 0 0 0 26_samples:0 104747111 104747455 345 75 104751161 104751430 270 71 KIF26A IGR: 142Kb before KIF26A(+) KIF26A IGR: 146Kb before KIF26A(+) - 0 0 0 0 0 0 1 0 1.589838e+00 1.364388e+00 7.914391e-01 8.705831e+00 1 8.705831e+00 1 104747455 104751161 1 104747454 -1 104751163 2 8 9.963627e-01 0 3 81 0 16 1 -1 -104747456 -1 -104751162 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 108 3 0 116775609 3 1 116776605 deletion 996 9 0 0 0 26_samples:0 116775265 116775609 345 74 116776605 116776775 171 22 LOC285194 IGR: 347Kb before LOC285194(+) LOC285194 IGR: 348Kb before LOC285194(+) - 0 0 3.000000e-02 0 1 1 2 0 1.490518e+00 -1.308865e+00 8.944365e-01 8.049929e+00 1 8.049929e+00 1 116775609 116776605 1 -1 -116775610 -1 -116776606 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -116775610 -1 -116776606 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-60-2698 119 1 0 200392247 1 1 237364833 long_range 36972625 8 0 0 0 26_samples:0 200391980 200392200 221 43 237364825 237365024 200 31 ZNF281 IGR: 17Kb before ZNF281(-) RYR2 Intron of RYR2(+): 69Kb before exon 2 - 1.000000e-02 0 1.000000e-02 0 1 1 2 1 -1.783451e-01 -8.243566e-01 1 8 1 8 1 200392200 237364825 1 200392247 47 237364833 8 9 9.979910e-01 0 0 70 0 10 1 -1 -200392201 -1 -237364826 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 120 2 0 141657492 2 1 141813123 deletion 155707 8 0 0 0 26_samples:0 141657272 141657493 222 42 141813200 141813426 227 48 LRP1B Intron of LRP1B(-): 3Kb after exon 23 LRP1B Intron of LRP1B(-): 372bp before exon 10 Deletion of 14 exons: in frame 0 0 0 0 1 0 2 0 -2.321794e-01 9.082629e-02 1 8 1 8 1 141657493 141813200 1 141657492 -1 141813123 -77 2 9.239197e-01 0 0 80 1 G 3 1 -1 -141657494 -1 -141813201 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 121 2 0 172008790 2 1 172010738 deletion 1942 8 0 0 0 26_samples:0 172008572 172008796 225 40 172010738 172010998 261 50 TLK1 Intron of TLK1(-): 8Kb after exon 1 TLK1 Intron of TLK1(-): 6Kb after exon 1 Deletion within intron 0 0 0 0 0 0 2 2 -3.398480e-01 1.984949e-01 1 8 1 8 1 172008796 172010738 1 172008790 -6 172010738 0 9 9.891333e-01 0 1 71 1 T 15 1 -1 -172008797 -1 -172010739 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 122 2 0 191473353 2 0 191474793 inversion 1431 8 0 0 0 26_samples:0 191473089 191473349 261 48 191474597 191474780 184 36 NAB1 IGR: 40Kb before NAB1(+) NAB1 IGR: 39Kb before NAB1(+) - 0 0 0 0 0 1 0 1 9.082629e-02 -5.551852e-01 1 8 1 8 1 191473349 191474780 1 191473353 4 191474793 13 9 9.970112e-01 0 0 65 0 16 1 -1 -191473350 -1 -191474781 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 125 3 0 87025870 3 0 164597738 long_range 77571868 8 0 0 0 26_samples:0 87025684 87025870 187 32 164597520 164597738 219 44 VGLL3 Intron of VGLL3(-): 2Kb after exon 2 SI IGR: 99Kb before SI(-) - 2.000000e-02 0 2.000000e-02 0 1 0 1 0 -7.705223e-01 -1.245109e-01 1 8 1 8 1 87025870 164597738 1 87025886 16 164597742 4 2 8.402381e-01 0 1 60 0 11 1 -1 -87025871 -1 -164597739 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2698 133 5 0 140546847 5 1 140548292 deletion 1469 8 0 0 0 26_samples:0 140546642 140546837 196 39 140548306 140548546 241 57 PCDHB7 IGR: 5Kb before PCDHB7(+) PCDHB7 IGR: 4Kb before PCDHB7(+) - 1.000000e-02 0 0 0 1 1 3 1 -3.936823e-01 5.753349e-01 1 8 1 8 1 140546837 140548306 1 140546847 10 140548292 -14 6 1 0 3 73 0 10 1 -1 -140546838 -1 -140548307 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 135 6 0 63523956 19 1 46178918 inter_chr NaN 8 0 0 0 26_samples:0 63523725 63523961 237 50 46178916 46179143 228 49 LGSN IGR: 462Kb before LGSN(-) GIPR Intron of GIPR(+): 832bp after exon 7 - 0 0 0 0 3 0 2 2 1.984949e-01 1.446606e-01 1 8 1 8 1 63523961 46178916 1 63523956 -5 46178918 2 9 9.976110e-01 0 1 65 0 13 1 -1 -63523962 -1 -46178917 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 139 8 0 56060757 22 1 29065718 inter_chr NaN 8 0 0 0 26_samples:0 56060545 56060744 200 37 29065725 29065939 215 46 XKR4 Intron of XKR4(+): 45Kb after exon 1 TTC28 Intron of TTC28(-): 10Kb after exon 1 Antisense fusion 0 0 1.000000e-02 0 1 1 3 0 -5.013509e-01 -1.684228e-02 1 8 1 8 1 56060744 29065725 1 56060757 13 29065718 -7 12 9.983020e-01 0 4 71 0 21 1 56060767 23 29065556 -169 1 8.602196e-01 0 0 79 0 1 1 21 LUSC-60-2698 147 17 0 26966115 19 1 44765393 inter_chr NaN 8 0 0 0 26_samples:0 26965894 26966065 172 26 44765396 44765594 199 40 KIAA0100 Intron of KIAA0100(-): 268bp after exon 11 ZNF233 5'-UTR of ZNF233(+): 3Kb before coding start - 0 0 3.000000e-02 3.000000e-02 2 1 3 3 -1.093528e+00 -3.398480e-01 1 8 1 8 1 26966065 44765396 1 26966115 50 44765393 -3 8 9.728249e-01 0 1 60 1 G 10 1 -1 -26966066 -1 -44765397 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 130 4 0 35351807 4 1 40912200 long_range 5560392 8 0 0 0 26_samples:0 35351594 35351804 211 43 40912196 40912463 268 68 ARAP2 IGR: 716Kb before ARAP2(-) APBB2 Intron of APBB2(-): 17Kb before exon 11 - 1.000000e-02 0 4.000000e-02 0 3 1 2 0 -1.783451e-01 1.167512e+00 9.953216e-01 7.962572e+00 1 7.962572e+00 1 35351804 40912196 1 35351807 3 40912200 4 9 9.301853e-01 0 3 78 0 17 1 -1 -35351805 -1 -40912197 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 134 5 0 17407901 14 0 31147829 inter_chr NaN 8 0 0 0 26_samples:0 17407657 17407886 230 47 31147584 31147820 237 50 BASP1 IGR: 190Kb before BASP1(+) SCFD1 Intron of SCFD1(+): 4Kb after exon 14 - 0 0 0 0 1 1 5 1 3.699201e-02 1.984949e-01 9.846154e-01 7.876923e+00 1 7.876923e+00 1 17407886 31147820 1 17407901 15 31147829 9 7 9.781284e-01 0 0 73 0 13 1 17407822 -64 31148022 202 1 7.902561e-01 0 1 77 0 3 1 4.333333e+00 LUSC-60-2698 143 12 1 51076368 12 0 51089964 tandem_dup 13537 8 0 0 0 26_samples:0 51076411 51076602 192 32 51089721 51089948 228 45 DIP2B Intron of DIP2B(+): 510bp before exon 10 DIP2B Intron of DIP2B(+): 198bp after exon 16 Duplication of 7 exons: out of frame 2.000000e-02 0 0 0 4 0 5 0 -7.705223e-01 -7.067657e-02 9.846154e-01 7.876923e+00 1 7.876923e+00 1 51076411 51089948 1 51076368 -43 51089964 16 11 9.896722e-01 1 1 69 0 13 1 -1 -51076412 -1 -51089949 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 54 19 1 29208309 19 1 29210353 inversion 2034 15 0 0 0 26_samples:0 29208319 29208542 224 42 29210353 29210649 297 79 LOC148145 IGR: 248Kb before LOC148145(+) LOC148145 IGR: 246Kb before LOC148145(+) - 3.000000e-02 6.000000e-02 0 0 1 1 1 0 -3.418256e-01 1.986355e+00 5.103030e-01 7.654545e+00 1 7.654545e+00 1 29208319 29210353 1 29208309 -10 29210353 0 19 9.900449e-01 1 3 72 0 25 1 -1 -29208320 -1 -29210354 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 126 3 1 143112269 3 0 143113971 tandem_dup 1639 8 0 0 0 26_samples:0 143112282 143112475 194 32 143113732 143113921 190 30 SLC9A9 Intron of SLC9A9(-): 11Kb before exon 13 SLC9A9 Intron of SLC9A9(-): 13Kb before exon 13 Duplication within intron 1.200000e-01 6.000000e-02 8.000000e-02 1.300000e-01 3 3 6 3 -7.705223e-01 -8.781909e-01 8.888889e-01 7.111111e+00 1 7.111111e+00 1 143112282 143113921 1 143112269 -13 143113971 50 18 9.533637e-01 1 0 78 0 24 1 -1 -143112283 -1 -143113922 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 152 1 0 165625421 1 1 201301685 long_range 35676266 7 0 0 0 26_samples:0 165625210 165625416 207 38 201301682 201301897 216 44 MGST3 IGR: 563bp after MGST3(+) PKP1 3'-UTR of PKP1(+): 4Kb after coding stop - 0 0 0 0 2 2 3 0 -3.694499e-01 -7.952557e-02 1 7 1 7 1 165625416 201301682 1 165625421 5 201301685 3 8 9.475270e-01 0 0 58 0 11 1 -1 -165625417 -1 -201301683 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 153 1 1 235451252 1 0 235458553 tandem_dup 7305 7 0 0 0 26_samples:0 235451247 235451445 199 38 235458348 235458552 205 44 ARID4B Intron of ARID4B(-): 27Kb before exon 3 ARID4B Intron of ARID4B(-): 32Kb after exon 2 Duplication within intron 0 4.000000e-02 0 0 0 1 0 0 -3.694499e-01 -7.952557e-02 1 7 1 7 1 235451247 235458552 1 235451252 5 235458553 1 2 8.602863e-01 1 0 66 0 7 1 -1 -235451248 -1 -235458553 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 154 1 0 245120957 1 1 245557359 deletion 436397 7 0 0 0 26_samples:0 245120727 245120965 239 48 245557362 245557616 255 62 EFCAB2 IGR: 12Kb before EFCAB2(+) KIF26B Intron of KIF26B(+): 26Kb before exon 4 - 0 0 0 0 1 1 2 1 1.137573e-01 7.902473e-01 1 7 1 7 1 245120965 245557362 1 245120957 -8 245557359 -3 3 9.784247e-01 0 2 78 0 8 1 -1 -245120966 -1 -245557363 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 168 4 0 25650811 4 1 40739537 long_range 15088770 7 0 0 0 26_samples:0 25650628 25650809 182 32 40739579 40739756 178 37 SLC34A2 IGR: 7Kb before SLC34A2(+) NSUN7 IGR: 12Kb before NSUN7(+) - 4.000000e-02 0 0 0 1 1 1 1 -6.593741e-01 -4.177706e-01 1 7 1 7 1 25650809 40739579 1 25650811 2 40739537 -42 13 9.949240e-01 0 0 69 0 18 1 -1 -25650810 -1 -40739580 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 169 4 1 74355006 4 0 74795948 tandem_dup 440939 7 0 0 0 26_samples:0 74355005 74355221 217 39 74795752 74795944 193 48 AFM Intron of AFM(+): 529bp after exon 7 PF4 IGR: 51Kb before PF4(-) - 2.000000e-02 0 0 4.000000e-02 3 2 1 0 -3.211291e-01 1.137573e-01 1 7 1 7 1 74355005 74795944 1 74355006 1 74795948 4 12 9.838295e-01 1 0 53 0 15 1 -1 -74355006 -1 -74795945 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 170 4 0 70323759 4 1 70363889 deletion 40174 7 0 0 0 26_samples:0 70323550 70323747 198 34 70363921 70364119 199 33 UGT2B4 IGR: 22Kb before UGT2B4(-) UGT2B4 Promoter of UGT2B4(-): 2Kb from tx start - 0 0 0 0 2 0 1 1 -5.627327e-01 -6.110534e-01 1 7 1 7 1 70323747 70363921 1 70323759 12 70363889 -32 10 9.969009e-01 0 0 67 0 12 1 -1 -70323748 -1 -70363922 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 179 5 1 85537075 17 1 46659046 inter_chr NaN 7 0 0 0 26_samples:0 85537075 85537335 261 55 46659041 46659239 199 37 NBPF22P IGR: 41Kb before NBPF22P(+) MIR10A Promoter of MIR10A(-): 2Kb from tx start - 0 0 0 0 2 0 2 3 4.520023e-01 -4.177706e-01 1 7 1 7 1 85537075 46659041 1 85537075 0 46659046 5 11 9.981636e-01 1 2 66 0 15 1 -1 -85537076 -1 -46659042 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 186 8 0 56165464 8 1 56175058 deletion 9639 7 0 0 0 26_samples:0 56165267 56165470 204 36 56175109 56175322 214 39 XKR4 Intron of XKR4(+): 105Kb before exon 2 XKR4 Intron of XKR4(+): 95Kb before exon 2 Deletion within intron 0 0 0 0 1 1 1 3 -4.660913e-01 -3.211291e-01 1 7 1 7 1 56165470 56175109 1 56165464 -6 56175058 -51 8 9.799037e-01 0 0 72 0 11 1 -1 -56165471 -1 -56175110 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 187 8 1 130206856 13 1 63810193 inter_chr NaN 7 0 0 0 26_samples:0 130206886 130207071 186 35 63810201 63810402 202 35 GSDMC IGR: 554Kb before GSDMC(-) OR7E156P IGR: 501Kb before OR7E156P(+) - 0 0 4.000000e-02 2.000000e-02 2 0 2 2 -5.144120e-01 -5.144120e-01 1 7 1 7 1 130206886 63810201 1 130206856 -30 63810193 -8 3 9.808568e-01 1 1 70 1 G 7 1 -1 -130206887 -1 -63810202 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 188 9 0 28302393 9 1 28305735 deletion 3374 7 0 0 0 26_samples:0 28302155 28302373 219 53 28305747 28305969 223 48 LINGO2 5'-UTR of LINGO2(-): 352Kb before coding start LINGO2 5'-UTR of LINGO2(-): 355Kb before coding start Deletion within transcript 2.000000e-02 0 1.400000e-01 1.700000e-01 1 3 0 0 3.553608e-01 1.137573e-01 1 7 1 7 1 28302373 28305747 1 28302393 20 28305735 -12 4 1 0 2 66 0 10 1 -1 -28302374 -1 -28305748 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 190 9 0 125372239 9 0 125374155 inversion 1929 7 0 0 0 26_samples:0 125371938 125372218 281 57 125373885 125374147 263 59 OR1Q1 IGR: 5Kb before OR1Q1(+) OR1Q1 Promoter of OR1Q1(+): 3Kb from tx start - 0 0 1.000000e-02 0 0 1 1 2 5.486437e-01 6.452851e-01 1 7 1 7 1 125372218 125374147 1 125372239 21 125374155 8 8 9.991869e-01 0 1 69 0 14 1 -1 -125372219 -1 -125374148 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 193 10 0 56261250 10 1 56790798 deletion 529548 7 0 0 0 26_samples:0 56261001 56261255 255 51 56790803 56791001 199 34 PCDH15 Intron of PCDH15(-): 26Kb after exon 4 PCDH15 IGR: 230Kb after PCDH15(-) - 0 0 0 0 2 1 1 0 2.587194e-01 -5.627327e-01 1 7 1 7 1 56261255 56790803 1 56261250 -5 56790798 -5 7 9.877852e-01 0 4 75 0 10 1 -1 -56261256 -1 -56790804 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 197 11 0 112832519 11 1 112833002 deletion 498 7 0 0 0 26_samples:0 112832320 112832524 205 38 112833022 112833237 216 41 NCAM1 Intron of NCAM1(+): 138bp after exon 1 NCAM1 Intron of NCAM1(+): 636bp after exon 1 Deletion within intron 0 0 0 0 0 1 0 2 -3.694499e-01 -2.244877e-01 1 7 1 7 1 112832524 112833022 1 112832519 -5 112833002 -20 18 9.974819e-01 0 1 70 0 22 1 112832726 202 112833107 85 3 8.167192e-01 0 1 85 0 14 1 1.571429e+00 LUSC-60-2698 199 12 1 74994285 12 1 74995815 inversion 1516 7 0 0 0 26_samples:0 74994294 74994509 216 44 74995810 74996063 254 51 ATXN7L3B IGR: 63Kb before ATXN7L3B(+) ATXN7L3B IGR: 61Kb after ATXN7L3B(+) - 0 0 0 0 1 0 1 0 -7.952557e-02 2.587194e-01 1 7 1 7 1 74994294 74995810 1 74994285 -9 74995815 5 8 1 1 5 68 0 15 1 -1 -74994295 -1 -74995811 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 203 17 0 70446473 17 1 70495194 deletion 48753 7 0 0 0 26_samples:0 70446253 70446433 181 26 70495186 70495374 189 35 SLC39A11 IGR: 196Kb before SLC39A11(-) SLC39A11 IGR: 147Kb before SLC39A11(-) - 0 0 0 0 1 0 2 0 -9.492984e-01 -5.144120e-01 1 7 1 7 1 70446433 70495186 1 70446473 40 70495194 8 3 9.727584e-01 0 1 86 0 12 1 -1 -70446434 -1 -70495187 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 205 19 1 57600935 19 0 57606499 tandem_dup 5577 7 0 0 0 26_samples:0 57600923 57601159 237 45 57606243 57606500 258 48 USP29 IGR: 31Kb before USP29(+) USP29 IGR: 25Kb before USP29(+) - 2.000000e-02 0 2.000000e-02 0 0 2 2 0 -3.120486e-02 1.137573e-01 1 7 1 7 1 57600923 57606500 1 57600935 12 57606499 -1 14 9.907574e-01 1 6 96 0 19 1 -1 -57600924 -1 -57606501 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 207 22 0 45130580 22 1 45225010 deletion 94476 7 0 0 0 26_samples:0 45130357 45130534 178 29 45225010 45225212 203 60 PRR5 Intron of PRR5(+): 373bp before exon 8 PRR5-ARHGAP8 Intron of PRR5-ARHGAP8(+): 4Kb after exon 10 Protein fusion: out of frame (PRR5-PRR5-ARHGAP8) 0 0 8.000000e-02 9.000000e-02 1 0 5 2 -8.043363e-01 6.936058e-01 9.846154e-01 6.892308e+00 1 6.892308e+00 1 45130534 45225010 1 45130580 46 45225010 0 4 9.790213e-01 0 3 66 0 13 1 -1 -45130535 -1 -45225011 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 175 5 0 37333806 5 1 37714644 deletion 380836 7 0 0 0 26_samples:0 37333565 37333804 240 51 37714640 37714912 273 75 NUP155 Intron of NUP155(-): 69bp before exon 13 WDR70 Intron of WDR70(+): 7Kb before exon 14 - 0 0 0 0 2 1 2 0 2.587194e-01 1.418417e+00 9.317466e-01 6.522226e+00 1 6.522226e+00 1 37333804 37714640 1 37333806 2 37714644 4 11 1 0 2 73 0 15 1 -1 -37333805 -1 -37714641 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 161 2 1 14258550 6 0 19773347 inter_chr NaN 7 0 0 0 26_samples:0 14258550 14258742 193 32 19773121 19773347 227 43 FAM84A IGR: 514Kb before FAM84A(+) ID4 IGR: 64Kb before ID4(+) - 0 0 0 0 2 0 6 1 -6.593741e-01 -1.278463e-01 8.888889e-01 6.222222e+00 1 6.222222e+00 1 14258550 19773347 1 14258348 -202 19773288 -59 1 8.574094e-01 1 1 88 0 9 1 -1 -14258551 -1 -19773348 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2698 196 11 0 56195849 11 1 56197494 deletion 1689 7 0 0 0 26_samples:0 56195662 56195836 175 41 56197525 56197862 338 77 OR8U8 Intron of OR8U8(+): 52Kb after exon 2 OR8U8 Intron of OR8U8(+): 54Kb after exon 2 Deletion within intron 3.000000e-02 4.000000e-02 0 0 2 3 1 1 -2.244877e-01 1.515058e+00 8.797884e-01 6.158518e+00 1 6.158518e+00 1 56195836 56197525 1 56195849 13 56197494 -31 10 9.517170e-01 0 0 70 0 15 1 -1 -56195837 -1 -56197526 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 208 1 0 146579132 1 0 153885076 long_range 7305930 6 0 0 0 26_samples:0 146578924 146579125 202 37 153884882 153885055 174 31 PRKAB2 IGR: 48Kb before PRKAB2(-) GATAD2B 5'-UTR of GATAD2B(-): 84Kb before coding start - 0 0 0 0 1 3 1 0 -4.177706e-01 -7.076948e-01 1 6 1 6 1 146579125 153885055 1 146579132 7 153885076 21 3 9.455552e-01 0 3 78 1 T 9 1 -1 -146579126 -1 -153885056 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 209 1 1 199311570 1 1 199323052 inversion 11467 6 0 0 0 26_samples:0 199311607 199311758 152 17 199323074 199323224 151 20 MIR181A1 IGR: 483Kb before MIR181A1(-) MIR181A1 IGR: 495Kb before MIR181A1(-) - 1.000000e-02 2.000000e-02 0 0 3 1 2 0 -1.384185e+00 -1.239223e+00 1 6 1 6 1 199311607 199323074 1 199311570 -37 199323052 -22 4 1 1 2 75 0 6 1 -1 -199311608 -1 -199323075 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 210 1 1 235077366 1 0 235266011 tandem_dup 188620 6 0 0 0 26_samples:0 235077384 235077620 237 59 235265817 235266004 188 35 TOMM20 IGR: 195Kb before TOMM20(-) TOMM20 IGR: 7Kb before TOMM20(-) - 0 0 2.000000e-02 0 1 0 2 1 6.452851e-01 -5.144120e-01 1 6 1 6 1 235077384 235266004 1 235077366 -18 235266011 7 6 9.754580e-01 1 1 75 2 TG 18 1 -1 -235077385 -1 -235266005 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 217 2 0 141448132 2 1 142250300 deletion 802209 6 0 0 0 26_samples:0 141447925 141448101 177 31 142250310 142250507 198 46 LRP1B Intron of LRP1B(-): 10Kb after exon 41 LRP1B Intron of LRP1B(-): 12Kb before exon 3 Deletion of 39 exons: in frame 0 0 0 0 2 0 2 1 -7.076948e-01 1.711586e-02 1 6 1 6 1 141448101 142250310 1 141448132 31 142250300 -10 5 9.742001e-01 0 3 77 0 9 1 -1 -141448102 -1 -142250311 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 230 4 1 25645109 4 1 27696083 long_range 2050996 6 0 0 0 26_samples:0 25645104 25645289 186 33 27696100 27696336 237 51 SLC34A2 IGR: 12Kb before SLC34A2(+) STIM2 IGR: 834Kb before STIM2(+) - 0 0 0 0 1 2 2 1 -6.110534e-01 2.587194e-01 1 6 1 6 1 25645104 27696100 1 25645109 5 27696083 -17 12 9.873819e-01 1 2 73 0 15 1 -1 -25645105 -1 -27696101 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 232 4 1 38871932 7 1 99673894 inter_chr NaN 6 0 0 0 26_samples:0 38872007 38872258 252 56 99673905 99674061 157 24 FAM114A1 5'-UTR of FAM114A1(+): 8Kb before coding start ZNF3 Intron of ZNF3(-): 652bp before exon 4 Transcript fusion (ZNF3-FAM114A1) 0 0 5.000000e-02 0 3 1 4 0 5.003230e-01 -1.045940e+00 1 6 1 6 1 38872007 99673905 1 38871932 -75 99673894 -11 7 9.972893e-01 1 4 74 0 15 1 -1 -38872008 -1 -99673906 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 267 11 1 27518275 12 0 97488271 inter_chr NaN 6 0 0 0 26_samples:0 27518287 27518562 276 65 97488077 97488243 167 24 LIN7C 3'-UTR of LIN7C(-): 2Kb after coding stop NEDD1 IGR: 187Kb before NEDD1(+) - 0 0 0 0 2 1 1 1 9.352094e-01 -1.045940e+00 1 6 1 6 1 27518287 97488243 1 27518275 -12 97488271 28 2 9.784925e-01 1 1 67 0 10 1 -1 -27518288 -1 -97488244 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 271 13 0 34853883 13 1 34918929 deletion 65069 6 0 0 0 26_samples:0 34853644 34853872 229 51 34918941 34919148 208 39 RFC3 IGR: 462Kb before RFC3(+) RFC3 IGR: 378Kb after RFC3(+) - 0 0 0 0 1 1 1 0 2.587194e-01 -3.211291e-01 1 6 1 6 1 34853872 34918941 1 34853883 11 34918929 -12 2 9.195260e-01 0 6 73 6 CTCACA 13 1 -1 -34853873 -1 -34918942 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 274 14 0 104042152 14 0 104043651 inversion 1480 6 0 0 0 26_samples:0 104041922 104042150 229 61 104043405 104043630 226 49 C14orf153 Intron of C14orf153(+): 2Kb after exon 3 C14orf153 Intron of C14orf153(+): 3Kb after exon 3 Antisense fusion 1.000000e-02 0 6.000000e-02 0 0 1 2 0 7.419266e-01 1.620780e-01 1 6 1 6 1 104042150 104043630 1 104042152 2 104043651 21 9 9.981093e-01 0 5 76 0 18 1 104042420 270 104043654 24 4 7.950019e-01 0 0 118 0 8 1 2.250000e+00 LUSC-60-2698 278 16 0 9360685 16 1 9361649 deletion 1004 6 0 0 0 26_samples:0 9360507 9360680 174 34 9361684 9361852 169 24 C16orf72 IGR: 175Kb before C16orf72(+) C16orf72 IGR: 176Kb before C16orf72(+) - 0 0 0 0 0 1 0 2 -5.627327e-01 -1.045940e+00 1 6 1 6 1 9360680 9361684 1 9360685 5 9361649 -35 10 9.014536e-01 0 0 67 0 14 1 -1 -9360681 -1 -9361685 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 281 19 0 31258204 19 0 31263004 inversion 4809 6 0 0 0 26_samples:0 31258011 31258189 179 29 31262823 31262998 176 37 DKFZp566F0947 IGR: 383Kb before DKFZp566F0947(+) DKFZp566F0947 IGR: 378Kb before DKFZp566F0947(+) - 1.000000e-02 7.000000e-02 2.000000e-02 0 2 0 0 0 -8.043363e-01 -4.177706e-01 1 6 1 6 1 31258189 31262998 1 31258204 15 31263004 6 9 1 0 0 69 0 14 1 31258544 355 31263128 130 1 7.600490e-01 0 4 76 0 0 1 Inf LUSC-60-2698 285 21 1 48077031 23 0 86517184 inter_chr NaN 6 0 0 0 26_samples:0 48077031 48077192 162 29 86517002 86517184 183 32 PRMT2 Intron of PRMT2(+): 2Kb before exon 7 KLHL4 IGR: 256Kb before KLHL4(+) - 0 0 0 0 1 2 1 0 -8.043363e-01 -6.593741e-01 1 6 1 6 1 48077031 86517184 1 48076979 -52 86517209 25 1 1 1 4 73 0 7 1 -1 -48077032 -1 -86517185 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2698 249 6 0 63517159 19 1 46194368 inter_chr NaN 6 0 0 0 26_samples:0 63516946 63517153 208 56 46194380 46194626 247 68 LGSN IGR: 469Kb before LGSN(-) SNRPD2 Intron of SNRPD2(-): 765bp after exon 1 - 0 0 1.000000e-02 0 2 1 4 1 5.003230e-01 1.080172e+00 9.994850e-01 5.996910e+00 1 5.996910e+00 1 63517153 46194380 1 63517159 6 46194368 -12 6 9.920807e-01 0 0 63 0 8 1 -1 -63517154 -1 -46194381 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 279 16 0 21522067 16 1 21526352 deletion 4339 6 0 0 0 26_samples:0 21521888 21522048 161 21 21526387 21526555 169 31 SLC7A5P2 IGR: 7Kb before SLC7A5P2(-) SLC7A5P2 IGR: 3Kb before SLC7A5P2(-) - 3.000000e-02 1.000000e-02 1.300000e-01 2.700000e-01 1 4 2 1 -1.190902e+00 -7.076948e-01 9.936407e-01 5.961844e+00 1 5.961844e+00 1 21522048 21526387 1 21522067 19 21526352 -35 6 9.096914e-01 0 0 108 0 13 1 21522407 359 21526262 -125 2 8.114274e-01 0 20 124 0 14 1 9.285714e-01 LUSC-60-2698 228 3 0 178750255 3 1 178751339 deletion 1084 6 0 0 0 26_samples:0 178750120 178750255 136 15 178751339 178751496 158 24 ZMAT3 Intron of ZMAT3(-): 1Kb before exon 3 ZMAT3 Intron of ZMAT3(-): 3Kb before exon 3 Deletion within intron 1.600000e-01 1.100000e-01 0 0 5 3 3 1 -1.480826e+00 -1.045940e+00 9.846154e-01 5.907692e+00 1 5.907692e+00 1 178750255 178751339 1 178750166 -89 178750988 -351 1 7.756350e-01 0 2 75 1 T 17 1 -1 -178750256 -1 -178751340 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2698 253 7 0 55794576 7 0 55796469 inversion 1907 6 0 0 0 26_samples:0 55794357 55794565 209 47 55796247 55796472 226 49 FKBP9L IGR: 46Kb before FKBP9L(-) FKBP9L IGR: 48Kb before FKBP9L(-) - 1.000000e-02 3.000000e-02 6.000000e-02 0 0 0 5 1 6.543657e-02 1.620780e-01 9.846154e-01 5.907692e+00 1 5.907692e+00 1 55794565 55796472 1 55794576 11 55796469 -3 8 8.342427e-01 0 0 77 1 G 23 1 -1 -55794566 -1 -55796473 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 138 8 0 145248735 9 1 133632903 inter_chr NaN 8 0 0 0 26_samples:0 145248545 145248741 197 37 133632930 133633131 202 40 HEATR7A Intron of HEATR7A(+): 1Kb after exon 9 ABL1 Intron of ABL1(+): 43Kb after exon 1 Protein fusion: out of frame (HEATR7A-ABL1) 3.000000e-02 9.000000e-02 2.000000e-02 0 3 2 7 1 -5.013509e-01 -3.398480e-01 7.032967e-01 5.626374e+00 1 5.626374e+00 1 145248741 133632930 1 145248735 -6 133632903 -27 3 1 0 4 74 0 7 1 -1 -145248742 -1 -133632931 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 113 9 1 94897701 9 0 94911581 tandem_dup 13873 9 0 0 0 26_samples:0 94897716 94897936 221 51 94911268 94911589 322 81 LOC100128076 5'-UTR of LOC100128076(+): 3Kb before coding start C9orf44 5'-UTR of C9orf44(+): 10Kb before coding start Transcript fusion (C9orf44-LOC100128076) 0 0 3.000000e-02 2.000000e-02 1 1 3 1 2.523292e-01 1.867358e+00 6.051358e-01 5.446223e+00 1 5.446223e+00 1 94897716 94911589 1 94897701 -15 94911581 -8 5 1 1 3 72 0 18 1 -1 -94897717 -1 -94911590 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 30 5 0 43705662 12 1 47452811 inter_chr NaN 20 0 0 0 26_samples:0 43705430 43705660 231 31 47452859 47453088 230 38 NNT 3'-UTR of NNT(+): 1Kb after coding stop AMIGO2 IGR: 17Kb before AMIGO2(-) - 0 0 7.000000e-02 1.500000e-01 10 2 4 3 -1.149882e+00 -6.703281e-01 2.629350e-01 5.258700e+00 1 5.258700e+00 1 43705660 47452859 1 43705662 2 47452811 -48 3 9.092867e-01 0 0 75 0 5 1 -1 -43705661 -1 -47452860 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 252 7 0 14634024 7 1 14635744 deletion 1743 6 0 0 0 26_samples:0 14633752 14633998 247 57 14635741 14636000 260 78 DGKB Intron of DGKB(-): 11Kb before exon 17 DGKB Intron of DGKB(-): 11Kb after exon 16 Deletion within intron 2.000000e-02 0 0 0 2 1 0 1 5.486437e-01 1.563379e+00 8.483103e-01 5.089862e+00 1 5.089862e+00 1 14633998 14635741 1 14634024 26 14635744 3 8 1 0 2 81 0 12 1 -1 -14633999 -1 -14635742 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 96 11 1 17685521 15 0 56253179 inter_chr NaN 10 0 0 0 26_samples:0 17685528 17685739 212 55 56252906 56253169 264 51 MYOD1 IGR: 56Kb before MYOD1(+) NEDD4 Intron of NEDD4(-): 6Kb after exon 2 - 0 0 1.000000e-02 0 3 0 8 1 4.625875e-01 2.371374e-01 5.000000e-01 5 1 5 1 17685528 56253169 1 17685521 -7 56253179 10 2 8.689383e-01 1 0 68 19 AAAAAAAAAAAAAAAAAAA 25 1 -1 -17685529 -1 -56253170 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 290 1 1 146535530 1 1 153885243 long_range 7349775 5 0 0 0 26_samples:0 146535532 146535676 145 16 153885307 153885456 150 25 LOC728989 IGR: 45Kb before LOC728989(-) GATAD2B 5'-UTR of GATAD2B(-): 84Kb before coding start - 2.000000e-02 3.000000e-02 3.000000e-02 0 4 1 3 0 -1.345505e+00 -9.273042e-01 1 5 1 5 1 146535532 153885307 1 146535530 -2 153885243 -64 10 9.522615e-01 1 3 68 0 22 1 -1 -146535533 -1 -153885308 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 297 1 0 174480671 10 0 133093889 inter_chr NaN 5 0 0 0 26_samples:0 174480418 174480634 217 48 133093665 133093888 224 46 RABGAP1L Intron of RABGAP1L(+): 117Kb after exon 13 TCERG1L Intron of TCERG1L(-): 13Kb after exon 3 Protein fusion: out of frame (RABGAP1L-TCERG1L) 0 0 3.000000e-02 0 3 0 1 1 1.414325e-01 4.849890e-02 1 5 1 5 1 174480634 133093888 1 174480671 37 133093889 1 10 1 0 2 75 0 16 1 -1 -174480635 -1 -133093889 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 305 2 0 141602628 2 1 141630576 deletion 27983 5 0 0 0 26_samples:0 141602412 141602596 185 36 141630579 141630773 195 41 LRP1B Intron of LRP1B(-): 4Kb before exon 30 LRP1B Intron of LRP1B(-): 5Kb before exon 26 Deletion of 4 exons: out of frame 0 0 0 0 2 0 1 0 -4.161692e-01 -1.838352e-01 1 5 1 5 1 141602596 141630579 1 141602628 32 141630576 -3 3 1 0 4 76 0 5 1 -1 -141602597 -1 -141630580 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 306 2 0 142226825 2 1 142528379 deletion 301607 5 0 0 0 26_samples:0 142226671 142226807 137 13 142528414 142528614 201 40 LRP1B Intron of LRP1B(-): 11Kb after exon 3 LRP1B Intron of LRP1B(-): 39Kb after exon 2 Deletion of 1 exon: in frame 0 0 0 0 1 1 2 0 -1.484906e+00 -2.303020e-01 1 5 1 5 1 142226807 142528414 1 142226825 18 142528379 -35 8 9.293364e-01 0 2 74 8 AAATAAAA 12 1 -1 -142226808 -1 -142528415 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 307 2 0 154404696 2 1 154605799 deletion 201103 5 0 0 0 26_samples:0 154404536 154404696 161 23 154605799 154606014 216 45 RPRM IGR: 71Kb before RPRM(-) GALNT13 IGR: 123Kb before GALNT13(+) - 1.000000e-02 0 2.000000e-02 0 1 1 2 2 -1.020238e+00 2.032085e-03 1 5 1 5 1 154404696 154605799 1 154404715 19 154605773 -26 1 9.456516e-01 0 2 74 1 C 5 1 -1 -154404697 -1 -154605800 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2698 328 3 0 185916098 3 1 185918670 deletion 2642 5 0 0 0 26_samples:0 185915930 185916093 164 27 185918735 185918925 191 37 DGKG Intron of DGKG(-): 10Kb before exon 21 DGKG Intron of DGKG(-): 11Kb after exon 20 Deletion within intron 1.000000e-02 0 0 0 0 0 1 0 -8.343705e-01 -3.697024e-01 1 5 1 5 1 185916093 185918735 1 185916098 5 185918670 -65 5 9.891676e-01 0 7 73 0 15 1 -1 -185916094 -1 -185918736 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 329 3 0 184832537 4 0 137214552 inter_chr NaN 5 0 0 0 26_samples:0 184832337 184832524 188 34 137214363 137214531 169 27 C3orf70 Intron of C3orf70(-): 31Kb before exon 2 PCDH18 IGR: 1Mb before PCDH18(-) - 0 0 0 0 1 1 3 0 -5.091028e-01 -8.343705e-01 1 5 1 5 1 184832524 137214531 1 184832537 13 137214552 21 3 1 0 3 87 0 8 1 -1 -184832525 -1 -137214532 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 331 3 0 151147348 6 1 102432729 inter_chr NaN 5 0 0 0 26_samples:0 151147115 151147307 193 44 102432729 102432945 217 54 MED12L Intron of MED12L(+): 780bp before exon 42 GRIK2 Intron of GRIK2(+): 50Kb before exon 14 Protein fusion: in frame (MED12L-GRIK2) 0 0 0 0 1 0 1 1 -4.443473e-02 4.202334e-01 1 5 1 5 1 151147307 102432729 1 151147348 41 102432729 0 20 9.955859e-01 0 0 71 0 37 1 -1 -151147308 -1 -102432730 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 334 3 0 183761741 11 0 93468271 inter_chr NaN 5 0 0 0 26_samples:0 183761496 183761662 167 24 93468144 93468280 137 18 HTR3D IGR: 5Kb after HTR3D(+) SNORA40 3'-UTR of SNORA40(-): 123bp after coding stop - 0 0 0 2.000000e-02 2 1 3 1 -9.737710e-01 -1.252572e+00 1 5 1 5 1 183761662 93468280 1 183761741 79 93468271 -9 11 1 0 1 73 0 21 1 183761888 226 93468641 361 2 8.113077e-01 0 11 75 0 5 1 4.200000e+00 LUSC-60-2698 347 4 0 252443 12 0 133831447 inter_chr NaN 5 0 0 0 26_samples:0 252229 252396 168 27 133831258 133831435 178 27 ZNF876P IGR: 3Kb after ZNF876P(+) ZNF268 IGR: 48Kb after ZNF268(+) - 4.000000e-02 0 1.000000e-02 3.000000e-02 4 1 2 1 -8.343705e-01 -8.343705e-01 1 5 1 5 1 252396 133831435 1 252443 47 133831447 12 7 9.868190e-01 0 2 70 0 11 1 -1 -252397 -1 -133831436 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 348 4 0 40740249 12 1 125995352 inter_chr NaN 5 0 0 0 26_samples:0 40740005 40740224 220 48 125995354 125995541 188 34 NSUN7 IGR: 12Kb before NSUN7(+) TMEM132B Intron of TMEM132B(+): 9Kb before exon 4 - 0 0 0 0 1 0 2 0 1.414325e-01 -5.091028e-01 1 5 1 5 1 40740224 125995354 1 40740249 25 125995352 -2 8 9.973125e-01 0 3 69 0 13 1 -1 -40740225 -1 -125995355 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 352 5 0 65240655 5 1 65343570 deletion 102924 5 0 0 0 26_samples:0 65240439 65240661 223 46 65343585 65343777 193 45 LOC100303749 3'-UTR of LOC100303749(-): 741bp after coding stop ERBB2IP Intron of ERBB2IP(+): 910bp before exon 19 - 0 3.000000e-02 0 0 4 1 2 2 4.849890e-02 2.032085e-03 1 5 1 5 1 65240661 65343585 1 65240655 -6 65343570 -15 9 1 0 2 72 0 13 1 -1 -65240662 -1 -65343586 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 354 5 0 118591898 5 1 118596470 deletion 4634 5 0 0 0 26_samples:0 118591724 118591871 148 20 118596505 118596675 171 51 DMXL1 IGR: 7Kb after DMXL1(+) TNFAIP8 IGR: 8Kb before TNFAIP8(+) - 2.000000e-02 0 0 0 1 0 0 1 -1.159638e+00 2.808330e-01 1 5 1 5 1 118591871 118596505 1 118591898 27 118596470 -35 2 9.260774e-01 0 0 73 0 9 1 -1 -118591872 -1 -118596506 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 390 8 1 127381039 8 0 127409764 tandem_dup 28646 5 0 0 0 26_samples:0 127381035 127381211 177 37 127409538 127409681 144 29 FAM84B IGR: 184Kb before FAM84B(-) FAM84B IGR: 155Kb before FAM84B(-) - 0 0 0 0 1 1 1 0 -3.697024e-01 -7.414369e-01 1 5 1 5 1 127381035 127409681 1 127381039 4 127409764 83 6 9.666568e-01 1 2 76 3 CTT 14 1 -1 -127381036 -1 -127409682 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 406 11 0 68798944 11 1 68800288 deletion 1344 5 0 0 0 26_samples:0 68798806 68798944 139 18 68800288 68800429 142 25 TPCN2 IGR: 17Kb before TPCN2(+) TPCN2 IGR: 16Kb before TPCN2(+) - 0 0 0 0 0 0 1 1 -1.252572e+00 -9.273042e-01 1 5 1 5 1 68798944 68800288 1 68799296 352 68800444 156 4 9.034944e-01 0 1 74 0 17 1 -1 -68798945 -1 -68800289 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2698 408 11 1 88340713 11 1 88342755 inversion 2042 5 0 0 0 26_samples:0 88340713 88340898 186 60 88342755 88342993 239 51 GRM5 Intron of GRM5(-): 3Kb before exon 4 GRM5 Intron of GRM5(-): 5Kb before exon 4 Antisense fusion 0 0 1.000000e-02 0 1 1 3 1 6.990343e-01 2.808330e-01 1 5 1 5 1 88340713 88342755 1 88340702 -11 88342736 -19 1 9.629483e-01 1 0 70 12 CAATGTACAAAT 6 1 -1 -88340714 -1 -88342756 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2698 414 12 1 19395757 12 1 19397340 inversion 1583 5 0 0 0 26_samples:0 19395757 19395999 243 56 19397340 19397495 156 25 PLEKHA5 Intron of PLEKHA5(+): 11Kb before exon 4 PLEKHA5 Intron of PLEKHA5(+): 10Kb before exon 4 - 0 0 0 0 3 1 1 0 5.131670e-01 -9.273042e-01 1 5 1 5 1 19395757 19397340 1 19395747 -10 19397469 129 2 7.903475e-01 1 0 61 0 8 1 -1 -19395758 -1 -19397341 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2698 416 12 0 76031226 12 0 76033627 inversion 2378 5 0 0 0 26_samples:0 76031034 76031226 193 43 76033394 76033604 211 45 KRR1 IGR: 140Kb before KRR1(-) KRR1 IGR: 142Kb before KRR1(-) - 0 0 0 0 0 0 1 1 -9.090154e-02 2.032085e-03 1 5 1 5 1 76031226 76033604 1 76031226 0 76033627 23 2 1 0 2 68 0 6 1 -1 -76031227 -1 -76033605 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 429 16 1 52146837 16 0 52161239 tandem_dup 14359 5 0 0 0 26_samples:0 52146847 52147051 205 43 52161041 52161206 166 28 TOX3 IGR: 325Kb before TOX3(-) TOX3 IGR: 311Kb before TOX3(-) - 0 0 0 0 1 0 1 0 -9.090154e-02 -7.879037e-01 1 5 1 5 1 52146847 52161206 1 52146837 -10 52161239 33 3 9.956653e-01 1 0 77 0 7 1 -1 -52146848 -1 -52161207 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 366 6 1 57244817 6 1 57813818 inversion 569001 5 0 0 0 26_samples:0 57244817 57244964 148 21 57813818 57813910 93 1 PRIM2 Intron of PRIM2(+): 23bp after exon 6 GUSBL2 IGR: 432Kb before GUSBL2(-) - 0 0 4.000000e-02 0 4 1 5 1 -1.113171e+00 -2.042508e+00 9.846154e-01 4.923077e+00 1 4.923077e+00 1 57244817 57813818 1 57244729 -88 57813865 47 2 7.845343e-01 1 0 71 28 TTTCTACTGTTAATCTTTTTTCAATTTG 14 1 -1 -57244818 -1 -57813819 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2698 411 11 1 114582764 22 0 29066416 inter_chr NaN 5 0 0 0 26_samples:0 114582764 114582974 211 42 29066240 29066416 177 32 FAM55B IGR: 5Kb after FAM55B(+) TTC28 Intron of TTC28(-): 9Kb after exon 1 - 0 0 0 0 3 1 5 2 -1.373684e-01 -6.020365e-01 9.846154e-01 4.923077e+00 1 4.923077e+00 1 114582764 29066416 1 -1 -114582765 -1 -29066417 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -114582765 -1 -29066417 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-60-2698 389 8 0 3551295 8 1 3858833 deletion 307588 5 0 0 0 26_samples:0 3551043 3551269 227 72 3858857 3859048 192 53 CSMD1 Intron of CSMD1(-): 15Kb after exon 7 CSMD1 Intron of CSMD1(-): 3Kb before exon 5 Deletion of 3 exons: in frame 0 0 2.000000e-02 0 1 0 1 1 1.256636e+00 3.737666e-01 9.833784e-01 4.916892e+00 1 4.916892e+00 1 3551269 3858857 1 3551295 26 3858833 -24 2 9.642716e-01 0 0 58 9 GTGTCCTGG 9 1 -1 -3551270 -1 -3858858 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 227 3 0 55393588 3 1 55934868 deletion 541304 6 0 0 0 26_samples:0 55393307 55393574 268 56 55934878 55935203 326 80 WNT5A IGR: 106Kb before WNT5A(-) ERC2 Intron of ERC2(-): 12Kb before exon 13 - 3.000000e-02 2.000000e-02 0 0 1 1 2 2 5.003230e-01 1.660020e+00 7.766856e-01 4.660114e+00 1 4.660114e+00 1 55393574 55934878 1 55393588 14 55934868 -10 9 9.978450e-01 0 0 63 0 13 1 -1 -55393575 -1 -55934879 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 229 3 0 87014626 3 0 196472204 long_range 109457559 6 0 0 0 26_samples:0 87014373 87014616 244 60 196471936 196472175 240 81 VGLL3 Intron of VGLL3(-): 3Kb after exon 3 PAK2 5'-UTR of PAK2(+): 37Kb before coding start Transcript fusion (PAK2-VGLL3) 1.000000e-02 0 3.000000e-02 9.000000e-02 2 0 3 3 6.936058e-01 1.708341e+00 7.377854e-01 4.426712e+00 1 4.426712e+00 1 87014616 196472175 1 87014626 10 196472204 29 3 9.328018e-01 0 3 73 1 A 12 1 -1 -87014617 -1 -196472176 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 97 12 1 6510051 12 0 6523017 tandem_dup 12966 10 0 0 0 26_samples:0 6510051 6510447 397 84 6522794 6523017 224 48 LTBR IGR: 17Kb before LTBR(+) LOC678655 IGR: 25Kb before LOC678655(-) - 5.000000e-02 0 1.000000e-02 4.000000e-02 3 1 2 1 2.097100e+00 6.804991e-02 4.309412e-01 4.309412e+00 1 4.309412e+00 1 6510051 6523017 1 6510028 -23 6522981 -36 9 8.167446e-01 1 2 126 1 T 23 1 6510028 -23 6522981 -36 5 8.265824e-01 1 2 126 1 T 6 -1 3.833333e+00 LUSC-60-2698 77 1 1 185680049 12 1 23226322 inter_chr NaN 11 0 0 0 26_samples:0 185680049 185680169 121 7 23226322 23226434 113 5 HMCN1 IGR: 24Kb before HMCN1(+) ETNK1 IGR: 448Kb before ETNK1(+) - 2.900000e-01 2.400000e-01 3.800000e-01 1.800000e-01 5 5 8 4 -2.242813e+00 -2.355538e+00 3.720358e-01 4.092394e+00 1 4.092394e+00 1 185680049 23226322 1 185680135 86 23226099 -223 2 9.844142e-01 1 45 142 0 19 1 -1 -185680050 -1 -23226323 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2698 155 1 1 165625419 1 0 201302118 long_range 35676699 7 0 0 0 26_samples:0 165625419 165625715 297 85 201301933 201302118 186 48 MGST3 IGR: 566bp after MGST3(+) PKP1 IGR: 3bp after PKP1(+) - 0 0 0 0 4 1 2 1 1.901624e+00 1.137573e-01 5.770498e-01 4.039349e+00 1 4.039349e+00 1 165625419 201302118 1 165625344 -75 201302117 -1 2 8.235170e-01 1 0 64 0 11 1 -1 -165625420 -1 -201302119 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2698 300 1 1 16265934 13 1 25875571 inter_chr NaN 5 0 0 0 26_samples:0 16265943 16266141 199 41 25875569 25875816 248 80 SPEN 3'-UTR of SPEN(+): 21bp after coding stop NUPL1 Promoter of NUPL1(+): 97bp from tx start - 0 0 0 0 2 3 2 0 -1.838352e-01 1.628371e+00 8.012103e-01 4.006051e+00 1 4.006051e+00 1 16265943 25875569 1 16265934 -9 25875571 2 9 1 1 3 66 0 16 1 16265591 -352 25875567 -2 1 8.570446e-01 1 1 80 0 10 1 1.600000e+00 LUSC-60-2698 124 2 0 8474494 22 1 29065352 inter_chr NaN 8 0 0 0 26_samples:0 8474308 8474502 195 36 29065357 29065626 270 54 ID2 IGR: 348Kb before ID2(+) TTC28 Intron of TTC28(-): 10Kb after exon 1 - 1.000000e-02 0 1.000000e-02 0 1 1 8 1 -5.551852e-01 4.138320e-01 5.000000e-01 4 1 4 1 8474502 29065357 1 8474494 -8 29065352 -5 20 9.990568e-01 0 1 60 0 29 1 -1 -8474503 -1 -29065358 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 442 1 1 187426990 1 0 187429260 tandem_dup 2249 4 0 0 0 26_samples:0 187426988 187427175 188 49 187429052 187429237 186 36 PLA2G4A IGR: 469Kb after PLA2G4A(+) PLA2G4A IGR: 471Kb after PLA2G4A(+) - 0 0 0 0 0 0 2 0 2.063532e-01 -3.388544e-01 1 4 1 4 1 187426988 187429237 1 187426990 2 187429260 23 5 1 1 2 69 0 8 1 -1 -187426989 -1 -187429238 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 443 1 1 230441406 1 1 230442929 inversion 1523 4 0 0 0 26_samples:0 230441406 230441594 189 38 230442929 230443139 211 47 PGBD5 IGR: 16Kb before PGBD5(-) PGBD5 IGR: 14Kb before PGBD5(-) - 2.000000e-02 0 0 0 3 0 1 0 -2.549763e-01 1.224751e-01 1 4 1 4 1 230441406 230442929 1 230441433 27 230442578 -351 4 8.776290e-01 1 0 78 2 GT 6 1 -1 -230441407 -1 -230442930 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2698 454 1 0 81391853 11 1 74456718 inter_chr NaN 4 0 0 0 26_samples:0 81391633 81391857 225 55 74456731 74456951 221 52 LPHN2 IGR: 874Kb before LPHN2(+) RNF169 IGR: 3Kb before RNF169(+) - 2.000000e-02 0 2.000000e-02 5.000000e-02 2 2 4 2 4.579874e-01 3.321703e-01 1 4 1 4 1 81391857 74456731 1 81391853 -4 74456718 -13 2 9.155384e-01 0 0 77 0 4 1 -1 -81391858 -1 -74456732 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 457 1 1 16154707 16 0 89948936 inter_chr NaN 4 0 0 0 26_samples:0 16154707 16154858 152 22 89948785 89948936 152 22 FLJ37453 IGR: 6Kb before FLJ37453(-) TCF25 Intron of TCF25(+): 823bp before exon 2 - 2.000000e-02 0 2.000000e-02 4.000000e-02 3 0 2 1 -9.260010e-01 -9.260010e-01 1 4 1 4 1 16154707 89948936 1 16154353 -354 89948941 5 6 8.310780e-01 1 4 92 0 9 1 16154353 -354 89948941 5 2 7.831658e-01 1 4 92 0 3 0 3 LUSC-60-2698 462 1 1 10550789 19 1 39967159 inter_chr NaN 4 0 0 0 26_samples:0 10550840 10551047 208 47 39967158 39967303 146 21 PEX14 Intron of PEX14(+): 4Kb before exon 2 SUPT5H 3'-UTR of SUPT5H(+): 119bp after coding stop - 0 0 0 0 2 1 2 3 1.224751e-01 -9.679401e-01 1 4 1 4 1 10550840 39967158 1 10550789 -51 39967159 1 5 1 1 1 62 0 10 1 -1 -10550841 -1 -39967159 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 463 1 0 16005295 19 1 49468582 inter_chr NaN 4 0 0 0 26_samples:0 16005073 16005294 222 51 49468585 49468789 205 60 PLEKHM2 IGR: 6Kb before PLEKHM2(+) FTL 5'-UTR of FTL(+): 180bp before coding start - 0 0 1.000000e-02 0 2 1 1 1 2.902312e-01 6.676826e-01 1 4 1 4 1 16005294 49468585 1 16005295 1 49468582 -3 3 9.594930e-01 0 1 66 0 10 1 -1 -16005295 -1 -49468586 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 472 2 0 976828 2 1 988012 deletion 11234 4 0 0 0 26_samples:0 976585 976778 194 42 988012 988208 197 48 SNTG2 Intron of SNTG2(+): 30Kb after exon 1 SNTG2 Intron of SNTG2(+): 41Kb after exon 1 Deletion within intron 0 0 0 0 1 1 1 0 -8.722014e-02 1.644141e-01 1 4 1 4 1 976778 988012 1 976828 50 988012 0 2 9.462229e-01 0 1 69 0 5 1 -1 -976779 -1 -988013 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 478 2 1 141032292 2 0 141110821 tandem_dup 78497 4 0 0 0 26_samples:0 141032333 141032528 196 40 141110618 141110830 213 50 LRP1B Intron of LRP1B(-): 166bp before exon 85 LRP1B Intron of LRP1B(-): 189bp before exon 76 Duplication of 9 exons: in frame 2.000000e-02 0 0 0 1 0 3 0 -1.710982e-01 2.482922e-01 1 4 1 4 1 141032333 141110830 1 141032292 -41 141110821 -9 3 1 1 2 84 0 10 1 -1 -141032334 -1 -141110831 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 482 2 0 210836816 2 1 210839366 deletion 2619 4 0 0 0 26_samples:0 210836523 210836756 234 56 210839375 210839528 154 26 UNC80 Intron of UNC80(+): 169bp before exon 54 UNC80 Intron of UNC80(+): 1Kb after exon 55 Deletion of 2 exons: out of frame 0 0 0 2.000000e-02 1 0 0 0 4.999265e-01 -7.582448e-01 1 4 1 4 1 210836756 210839375 1 210836816 60 210839366 -9 4 1 0 1 74 0 6 1 -1 -210836757 -1 -210839376 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 495 2 0 107916207 7 1 45508120 inter_chr NaN 4 0 0 0 26_samples:0 107916094 107916207 114 6 45508120 45508231 112 5 ST6GAL2 IGR: 487Kb before ST6GAL2(-) ADCY1 IGR: 106Kb before ADCY1(+) - 1.000000e-02 0 1.000000e-02 0 4 3 4 1 -1.597026e+00 -1.638965e+00 1 4 1 4 1 107916207 45508120 1 -1 -107916208 -1 -45508121 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -107916208 -1 -45508121 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-60-2698 524 3 0 166163353 3 1 166172493 deletion 9207 4 0 0 0 26_samples:0 166163195 166163317 123 11 166172524 166172672 149 20 BCHE IGR: 673Kb before BCHE(-) BCHE IGR: 682Kb before BCHE(-) - 0 0 0 0 0 0 0 0 -1.387330e+00 -1.009879e+00 1 4 1 4 1 166163317 166172524 1 166163353 36 166172493 -31 8 9.798965e-01 0 4 87 0 14 1 -1 -166163318 -1 -166172525 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 526 3 0 189649488 3 1 189897297 deletion 247879 4 0 0 0 26_samples:0 189649294 189649414 121 8 189897293 189897454 162 29 LEPREL1 IGR: 25Kb before LEPREL1(-) LEPREL1 IGR: 57Kb after LEPREL1(-) - 0 0 0 0 3 1 2 0 -1.513148e+00 -6.324277e-01 1 4 1 4 1 189649414 189897293 1 189649488 74 189897297 4 8 9.989907e-01 0 0 65 0 12 1 -1 -189649415 -1 -189897294 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 527 3 1 194663922 3 0 194666357 tandem_dup 2435 4 0 0 0 26_samples:0 194663922 194664106 185 36 194666243 194666357 115 21 C3orf21 IGR: 125Kb before C3orf21(-) C3orf21 IGR: 123Kb before C3orf21(-) - 1.000000e-02 2.000000e-02 0 0 0 1 0 1 -3.388544e-01 -9.679401e-01 1 4 1 4 1 194663922 194666357 1 194663986 64 194666605 248 6 8.475914e-01 1 4 83 1 A 52 1 194663986 64 194666605 248 1 8.862136e-01 1 4 83 1 A 17 0 3.058824e+00 LUSC-60-2698 552 4 1 70435254 4 0 91243088 long_range 20807769 4 0 0 0 26_samples:0 70435284 70435430 147 20 91242889 91243053 165 30 UGT2A1 IGR: 19Kb before UGT2A1(-) FAM190A Intron of FAM190A(+): 9Kb after exon 3 - 2.000000e-02 0 0 0 1 0 3 1 -1.009879e+00 -5.904887e-01 1 4 1 4 1 70435284 91243053 1 70435254 -30 91243088 35 2 1 1 1 72 0 8 1 -1 -70435285 -1 -91243054 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 554 4 1 160409349 4 0 160432708 tandem_dup 23300 4 0 0 0 26_samples:0 160409347 160409547 201 42 160432429 160432647 219 54 RAPGEF2 IGR: 220Kb before RAPGEF2(+) RAPGEF2 IGR: 244Kb before RAPGEF2(+) - 2.000000e-02 2.000000e-02 2.000000e-02 0 2 0 3 1 -8.722014e-02 4.160484e-01 1 4 1 4 1 160409347 160432647 1 160409349 2 160432708 61 2 9.819286e-01 1 16 115 0 33 1 160409250 -97 160433003 356 1 8.600644e-01 1 6 72 0 4 1 8.250000e+00 LUSC-60-2698 562 4 1 40916590 12 1 95940885 inter_chr NaN 4 0 0 0 26_samples:0 40916625 40916755 131 21 95940910 95941074 165 28 APBB2 Intron of APBB2(-): 20Kb after exon 10 USP44 5'-UTR of USP44(-): 13Kb before coding start Antisense fusion 0 0 0 0 1 2 1 0 -9.679401e-01 -6.743667e-01 1 4 1 4 1 40916625 95940910 1 40916590 -35 95940885 -25 3 9.784942e-01 1 2 73 0 4 1 -1 -40916626 -1 -95940911 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 571 5 1 46070117 5 0 46076221 tandem_dup 6104 4 0 0 0 26_samples:0 46070117 46070297 181 36 46076029 46076221 193 40 HCN1 IGR: 374Kb after HCN1(-) HCN1 IGR: 380Kb after HCN1(-) - 0 0 0 4.000000e-02 1 1 1 1 -3.388544e-01 -1.710982e-01 1 4 1 4 1 46070117 46076221 1 46069881 -236 46076573 352 1 7.809424e-01 1 6 125 0 8 1 46070222 105 46076575 354 1 8.909955e-01 1 5 122 0 4 0 2 LUSC-60-2698 608 6 0 62001753 19 1 38027371 inter_chr NaN 4 0 0 0 26_samples:0 62001495 62001735 241 65 38027378 38027584 207 50 KHDRBS2 IGR: 388Kb before KHDRBS2(-) ZNF793 Intron of ZNF793(+): 421bp before exon 8 - 0 0 1.000000e-02 0 4 2 1 1 8.773779e-01 2.482922e-01 1 4 1 4 1 62001735 38027378 1 62001753 18 38027371 -7 6 1 0 2 76 0 12 1 -1 -62001736 -1 -38027379 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 619 7 1 69805593 7 0 69820817 tandem_dup 15224 4 0 0 0 26_samples:0 69805593 69805791 199 46 69820594 69820817 224 51 AUTS2 Intron of AUTS2(+): 95Kb before exon 5 AUTS2 Intron of AUTS2(+): 80Kb before exon 5 Duplication within intron 0 0 0 0 1 0 2 0 8.053603e-02 2.902312e-01 1 4 1 4 1 69805593 69820817 1 69805584 -9 69820825 8 1 1 1 2 86 0 5 1 -1 -69805594 -1 -69820818 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2698 620 7 0 70142529 7 1 70154303 deletion 11832 4 0 0 0 26_samples:0 70142335 70142483 149 23 70154315 70154448 134 16 AUTS2 Intron of AUTS2(+): 21Kb before exon 6 AUTS2 Intron of AUTS2(+): 9Kb before exon 6 Deletion within intron 0 0 2.000000e-02 0 1 1 2 1 -8.840620e-01 -1.177635e+00 1 4 1 4 1 70142483 70154315 1 70142529 46 70154303 -12 5 1 0 1 72 0 7 1 70142834 351 70154505 190 1 8.430419e-01 0 22 122 0 12 1 5.833333e-01 LUSC-60-2698 621 7 0 82636340 7 1 82637824 deletion 1532 4 0 0 0 26_samples:0 82636159 82636335 177 35 82637867 82638035 169 32 PCLO Intron of PCLO(-): 41Kb before exon 4 PCLO Intron of PCLO(-): 42Kb before exon 4 Deletion within intron 0 0 0 0 0 0 1 1 -3.807934e-01 -5.066106e-01 1 4 1 4 1 82636335 82637867 1 82636340 5 82637824 -43 3 9.818849e-01 0 1 80 0 6 1 -1 -82636336 -1 -82637868 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 622 7 0 86647658 7 0 86649054 inversion 1389 4 0 0 0 26_samples:0 86647436 86647662 227 66 86648872 86649051 180 37 KIAA1324L Intron of KIAA1324L(-): 41Kb after exon 1 KIAA1324L Intron of KIAA1324L(-): 40Kb after exon 1 - 4.000000e-02 3.000000e-02 0 0 2 2 1 1 9.193169e-01 -2.969154e-01 1 4 1 4 1 86647662 86649051 1 86647658 -4 86649054 3 10 9.504632e-01 0 1 74 10 TTTGGCCACC 18 1 -1 -86647663 -1 -86649052 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 623 7 0 140486219 7 1 140562258 deletion 76079 4 0 0 0 26_samples:0 140486030 140486206 177 36 140562285 140562502 218 54 BRAF Intron of BRAF(-): 1Kb after exon 9 BRAF Intron of BRAF(-): 12Kb before exon 2 Deletion of 8 exons: out of frame 0 0 0 0 1 2 2 0 -3.388544e-01 4.160484e-01 1 4 1 4 1 140486206 140562285 1 140486219 13 140562258 -27 5 9.514322e-01 0 0 79 0 5 1 -1 -140486207 -1 -140562286 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 640 8 0 115889112 8 1 116024100 deletion 134988 4 0 0 0 26_samples:0 115888922 115889112 191 42 116024100 116024299 200 41 TRPS1 IGR: 532Kb before TRPS1(-) TRPS1 IGR: 397Kb before TRPS1(-) - 0 0 0 0 1 0 1 1 -8.722014e-02 -1.291592e-01 1 4 1 4 1 115889112 116024100 1 115889114 2 116024068 -32 1 9.675117e-01 0 2 76 0 5 1 -1 -115889113 -1 -116024101 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2698 646 8 0 118861893 12 0 74995197 inter_chr NaN 4 0 0 0 26_samples:0 118861673 118861816 144 19 74995016 74995177 162 28 EXT1 Intron of EXT1(-): 12Kb before exon 2 ATXN7L3B IGR: 60Kb after ATXN7L3B(+) - 0 0 1.000000e-02 0 1 0 3 1 -1.051818e+00 -6.743667e-01 1 4 1 4 1 118861816 74995177 1 118861893 77 74995197 20 9 1 0 4 82 0 14 1 -1 -118861817 -1 -74995178 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 654 9 0 97620343 9 1 97826159 deletion 205848 4 0 0 0 26_samples:0 97620112 97620338 227 53 97826186 97826372 187 40 C9orf3 Intron of C9orf3(+): 57Kb after exon 5 C9orf3 Intron of C9orf3(+): 3Kb after exon 12 Deletion of 7 exons: out of frame 0 0 0 0 2 0 1 0 3.741093e-01 -1.710982e-01 1 4 1 4 1 97620338 97826186 1 97620343 5 97826159 -27 5 9.570603e-01 0 4 79 0 11 1 -1 -97620339 -1 -97826187 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 664 9 0 131666957 23 1 66634589 inter_chr NaN 4 0 0 0 26_samples:0 131666810 131666956 147 21 66634659 66634884 226 52 LRRC8A 5'-UTR of LRRC8A(+): 2Kb before coding start AR IGR: 129Kb before AR(+) - 3.000000e-02 4.000000e-02 0 0 1 1 4 0 -9.679401e-01 3.321703e-01 1 4 1 4 1 131666956 66634659 1 131666957 1 66634589 -70 2 1 0 1 74 0 4 1 -1 -131666957 -1 -66634660 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 666 10 0 84417453 10 0 94659705 long_range 10242270 4 0 0 0 26_samples:0 84417256 84417423 168 29 94659517 94659693 177 35 NRG3 Intron of NRG3(+): 81Kb before exon 4 EXOC6 Intron of EXOC6(+): 292bp after exon 5 Antisense fusion 0 0 0 0 2 0 1 0 -6.324277e-01 -3.807934e-01 1 4 1 4 1 84417423 94659693 1 84417453 30 94659705 12 6 9.299950e-01 0 1 76 50 TCAATCCATTACGCTCCATTTCACTTGATATCAATTGTGGTCTCCACAAT 24 1 -1 -84417424 -1 -94659694 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 691 11 1 84406740 11 1 84407866 inversion 1187 4 0 0 0 26_samples:0 84406736 84406930 195 41 84407923 84408035 113 5 DLG2 Intron of DLG2(-): 161Kb before exon 7 DLG2 Intron of DLG2(-): 162Kb before exon 7 Antisense fusion 0 0 0 0 1 1 1 0 -1.291592e-01 -1.638965e+00 1 4 1 4 1 84406736 84407923 1 84406740 4 84407866 -57 13 9.968462e-01 1 2 78 0 13 1 -1 -84406737 -1 -84407924 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 698 11 0 114582755 22 0 29065924 inter_chr NaN 4 0 0 0 26_samples:0 114582486 114582690 205 42 29065785 29065931 147 22 FAM55B IGR: 5Kb after FAM55B(+) TTC28 Intron of TTC28(-): 10Kb after exon 1 - 0 0 1.000000e-02 0 2 1 3 0 -8.722014e-02 -9.260010e-01 1 4 1 4 1 114582690 29065931 1 114582755 65 29065924 -7 9 1 0 3 78 0 18 1 -1 -114582691 -1 -29065932 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 705 12 1 46434831 12 0 59338788 long_range 12903886 4 0 0 0 26_samples:0 46434902 46435039 138 18 59338644 59338788 145 21 SFRS2IP IGR: 51Kb after SFRS2IP(-) LRIG3 IGR: 25Kb after LRIG3(-) - 0 0 0 3.000000e-02 1 0 3 2 -1.093757e+00 -9.679401e-01 1 4 1 4 1 46434902 59338788 1 46434831 -71 59338788 0 3 1 1 3 64 0 5 1 -1 -46434903 -1 -59338789 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 706 12 0 52885444 12 1 52886436 deletion 992 4 0 0 0 26_samples:0 52885322 52885444 123 9 52886436 52886573 138 17 KRT6A Exon 2 of KRT6A(-) KRT6A Exon 1 of KRT6A(-) Deletion within transcript: mid-exon 4.000000e-02 5.000000e-02 2.300000e-01 9.000000e-02 3 0 2 1 -1.471209e+00 -1.135696e+00 1 4 1 4 1 52885444 52886436 1 52885797 353 52886446 10 1 9.551513e-01 0 2 75 0 8 1 -1 -52885445 -1 -52886437 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2698 720 13 1 74559201 19 1 38643583 inter_chr NaN 4 0 0 0 26_samples:0 74559201 74559388 188 37 38643583 38643735 153 22 KLF12 Intron of KLF12(-): 10Kb after exon 2 SIPA1L3 Exon 13 of SIPA1L3(+) Protein fusion: mid-exon (KLF12-SIPA1L3) 1.000000e-02 3.000000e-02 1.000000e-02 0 2 2 1 0 -2.969154e-01 -9.260010e-01 1 4 1 4 1 74559201 38643583 1 74559208 7 38643510 -73 1 1 1 3 70 0 6 1 -1 -74559202 -1 -38643584 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2698 737 16 0 78692075 16 1 78721615 deletion 29567 4 0 0 0 26_samples:0 78691893 78692062 170 29 78721629 78721809 181 36 WWOX Intron of WWOX(+): 225Kb after exon 8 WWOX Intron of WWOX(+): 255Kb after exon 8 Deletion within intron 0 0 0 0 1 2 1 1 -6.324277e-01 -3.388544e-01 1 4 1 4 1 78692062 78721629 1 78692075 13 78721615 -14 7 8.678540e-01 0 0 79 0 10 1 -1 -78692063 -1 -78721630 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 747 17 0 61057796 17 1 61141532 deletion 83813 4 0 0 0 26_samples:0 61057595 61057734 140 17 61141547 61141676 130 15 TANC2 IGR: 29Kb before TANC2(+) TANC2 Intron of TANC2(+): 10Kb before exon 2 - 0 0 0 0 1 2 2 0 -1.135696e+00 -1.219574e+00 1 4 1 4 1 61057734 61141547 1 61057796 62 61141532 -15 7 9.532999e-01 0 0 76 0 9 1 61058085 351 61141256 -291 1 7.828072e-01 0 1 83 1 A 1 1 9 LUSC-60-2698 759 19 1 44418063 19 0 46218109 long_range 1800016 4 0 0 0 26_samples:0 44418095 44418306 212 50 46217889 46218111 223 55 ZNF45 Exon 10 of ZNF45(-) FBXO46 5'-UTR of FBXO46(-): 1Kb before coding start Protein fusion: mid-exon (ZNF45-FBXO46) 0 0 2.000000e-02 2.000000e-02 2 1 1 1 2.482922e-01 4.579874e-01 1 4 1 4 1 44418095 46218111 1 44418063 -32 46218109 -2 10 9.819909e-01 1 1 74 0 22 1 -1 -44418096 -1 -46218112 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 764 21 0 48095937 23 1 86517243 inter_chr NaN 4 0 0 0 26_samples:0 48095771 48095937 167 28 86517262 86517483 222 52 PRMT2 IGR: 40Kb before PRMT2(+) KLHL4 IGR: 255Kb before KLHL4(+) - 0 0 0 0 1 0 2 1 -6.743667e-01 3.321703e-01 1 4 1 4 1 48095937 86517262 1 48095937 0 86517243 -19 3 1 0 1 75 0 5 1 -1 -48095938 -1 -86517263 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2698 766 22 0 33851753 22 1 34333405 deletion 481702 4 0 0 0 26_samples:0 33851575 33851741 167 29 34333443 34333580 138 16 LARGE Intron of LARGE(-): 23Kb before exon 7 LARGE IGR: 17Kb after LARGE(-) - 4.000000e-02 3.000000e-02 0 0 2 1 3 1 -6.324277e-01 -1.177635e+00 1 4 1 4 1 33851741 34333443 1 33851753 12 34333405 -38 2 9.449301e-01 0 2 67 0 5 1 -1 -33851742 -1 -34333444 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 1 3 0 160376849 3 0 160822132 inversion 445281 201 0 0 0 26_samples:0 160376552 160376856 305 57 160821823 160822137 315 57 ARL14 IGR: 18Kb before ARL14(+) B3GALNT1 5'-UTR of B3GALNT1(-): 18Kb before coding start - 0 0 0 0 5 0 5 1 2.331035e-01 2.331035e-01 1 201 1 201 1 160376856 160822137 1 160376849 -7 160822132 -5 20 9.981517e-01 0 1 68 0 236 1 -1 -160376857 -1 -160822138 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 2 3 1 160375951 3 0 160539339 tandem_dup 163395 168 0 0 0 26_samples:0 160375947 160376250 304 65 160539016 160539342 327 61 ARL14 IGR: 19Kb before ARL14(+) PPM1L Intron of PPM1L(+): 65Kb after exon 1 - 0 0 0 0 2 2 4 1 9.820040e-01 6.075538e-01 1 168 1 168 1 160375947 160539342 1 160375951 4 160539339 -3 20 9.876100e-01 1 2 76 0 250 1 -1 -160375948 -1 -160539343 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 3 3 1 195762560 3 1 195768146 inversion 5593 162 0 0 0 26_samples:0 195762549 195762888 340 50 195768142 195768497 356 67 TFRC IGR: 14Kb before TFRC(-) TFRC IGR: 8Kb before TFRC(-) - 0 4.000000e-02 1.000000e-02 0 10 1 1 2 -4.221844e-01 1.169229e+00 6.824161e-01 1.105514e+02 1 1.105514e+02 1 195762549 195768142 1 195762560 11 195768146 4 20 9.609352e-01 1 0 75 0 85 1 -1 -195762550 -1 -195768143 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 5 1 1 46837949 3 1 195761496 inter_chr NaN 110 0 0 0 26_samples:0 46837944 46838230 287 57 195761494 195761803 310 51 NSUN4 IGR: 7Kb after NSUN4(+) TFRC IGR: 15Kb before TFRC(-) - 1.000000e-02 0 1.000000e-02 0 4 1 5 0 2.331035e-01 -3.285718e-01 1.000000e+00 1.100000e+02 1 1.100000e+02 1 46837944 195761494 1 46837949 5 195761496 2 20 9.297358e-01 1 0 127 10 TGTAGTCCAG 106 1 46837822 -122 195761293 -201 1 8.054778e-01 1 8 88 1 C 7 1 1.514286e+01 LUSC-60-2711 4 1 1 39755752 1 1 63399557 long_range 23643801 161 0 0 0 26_samples:0 39755747 39756050 304 55 63399548 63399875 328 74 MACF1 Intron of MACF1(+): 2Kb before exon 17 ATG4C IGR: 150Kb before ATG4C(+) - 0 0 0 0 5 1 2 1 4.587842e-02 1.824517e+00 6.408079e-01 1.031701e+02 1 1.031701e+02 1 39755747 63399548 1 39755752 5 63399557 9 20 9.665765e-01 1 2 67 0 172 1 -1 -39755748 -1 -63399549 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 6 1 0 46838234 3 0 195763259 inter_chr NaN 105 0 0 0 26_samples:0 46837960 46838235 276 52 195762949 195763263 315 52 NSUN4 IGR: 8Kb after NSUN4(+) TFRC IGR: 13Kb before TFRC(-) - 1.000000e-02 0 1.000000e-02 0 4 1 7 2 -2.349593e-01 -2.349593e-01 9.313660e-01 9.779343e+01 1 9.779343e+01 1 46838235 195763263 1 46838234 -1 195763259 -4 20 9.146857e-01 0 0 65 6 CCCTGC 82 1 -1 -46838236 -1 -195763264 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 10 3 1 180639345 3 1 181306010 inversion 666667 88 0 0 0 26_samples:0 180639338 180639630 293 54 181306005 181306325 321 54 FXR1 Intron of FXR1(+): 9Kb after exon 1 SOX2OT IGR: 22Kb before SOX2OT(+) - 0 0 2.000000e-02 6.000000e-02 5 1 5 1 -4.773414e-02 -4.773414e-02 9.997188e-01 8.797526e+01 1 8.797526e+01 1 180639338 181306005 1 180639345 7 181306010 5 20 9.939213e-01 1 1 70 0 93 1 -1 -180639339 -1 -181306006 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 11 3 1 180468017 3 0 183035121 long_range 2567113 85 0 0 0 26_samples:0 180468017 180468307 291 53 183034838 183035130 293 53 CCDC39 IGR: 136Kb before CCDC39(-) MCF2L2 Intron of MCF2L2(-): 726bp after exon 7 - 0 0 0 0 4 1 1 0 -1.413467e-01 -1.413467e-01 1 85 1 85 1 180468017 183035130 1 180468017 0 183035121 -9 20 9.990583e-01 1 1 77 0 80 1 -1 -180468018 -1 -183035131 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 7 1 1 39927575 3 0 182663422 inter_chr NaN 103 0 0 0 26_samples:0 39927574 39927855 282 54 182663094 182663428 335 59 MACF1 Exon 58 of MACF1(+) DCUN1D1 Intron of DCUN1D1(-): 467bp before exon 7 - 0 0 0 3.000000e-02 6 1 8 0 -4.773414e-02 4.203287e-01 7.919264e-01 8.156842e+01 1 8.156842e+01 1 39927574 182663428 1 39927575 1 182663422 -6 20 9.708946e-01 1 1 71 0 174 1 39927362 -212 182663303 -125 3 8.407668e-01 1 15 102 0 18 1 9.666667e+00 LUSC-60-2711 12 3 0 160500200 3 1 182994402 long_range 22494206 61 0 0 0 26_samples:0 160499895 160500198 304 49 182994404 182994673 270 43 PPM1L Intron of PPM1L(+): 26Kb after exon 1 MCF2L2 Intron of MCF2L2(-): 256bp after exon 15 Antisense fusion 0 0 0 0 2 0 3 0 -5.157969e-01 -1.077472e+00 1 61 1 61 1 160500198 182994404 1 160500200 2 182994402 -2 20 9.988181e-01 0 2 75 0 65 1 -1 -160500199 -1 -182994405 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 9 3 0 194492835 3 0 195763703 long_range 1270864 95 0 0 0 26_samples:0 194492476 194492845 370 65 195763393 195763709 317 64 FAM43A IGR: 86Kb before FAM43A(+) TFRC IGR: 12Kb before TFRC(-) - 0 0 4.000000e-02 2.000000e-02 9 0 3 1 9.820040e-01 8.883915e-01 6.068786e-01 5.765347e+01 1 5.765347e+01 1 194492845 195763709 1 194492835 -10 195763703 -6 20 9.968791e-01 0 7 82 0 110 1 -1 -194492846 -1 -195763710 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 8 1 1 39775550 1 0 40991457 long_range 1215918 99 0 0 0 26_samples:0 39775546 39775798 253 36 40991215 40991464 250 35 MACF1 Intron of MACF1(+): 178bp after exon 25 ZNF684 IGR: 6Kb before ZNF684(+) - 0 0 1.000000e-02 4.000000e-02 7 2 9 2 -1.732760e+00 -1.826373e+00 5.721918e-01 5.664699e+01 1 5.664699e+01 1 39775546 40991464 1 39775550 4 40991457 -7 20 8.980994e-01 1 0 73 60 CACTGGATACTGTGTAGGAAGGCAATACAGATTCCAGACATACCTTGAGGGGAGTAGGGT 393 1 -1 -39775547 -1 -40991465 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 13 3 1 160394796 3 1 160731136 inversion 336465 56 0 0 0 26_samples:0 160394788 160394946 159 20 160731253 160731428 176 21 ARL14 Promoter of ARL14(+): 160bp from tx start PPM1L Intron of PPM1L(+): 52Kb after exon 2 - 0 0 2.500000e-01 1.600000e-01 7 0 4 4 -3.230561e+00 -3.136949e+00 8.412381e-01 4.710933e+01 1 4.710933e+01 1 160394788 160731253 1 160394796 8 160731136 -117 20 9.641362e-01 1 0 69 0 112 1 -1 -160394789 -1 -160731254 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 16 3 0 157355756 3 1 162241957 long_range 4886210 43 0 0 0 26_samples:0 157355461 157355744 284 55 162241954 162242266 313 52 C3orf55 IGR: 37Kb after C3orf55(+) OTOL1 IGR: 1Mb before OTOL1(+) - 0 0 0 0 3 1 2 1 4.587842e-02 -2.349593e-01 1 43 1 43 1 157355744 162241954 1 157355756 12 162241957 3 20 9.978515e-01 0 2 68 0 31 1 -1 -157355745 -1 -162241955 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 22 1 1 154053161 3 1 164908811 inter_chr NaN 28 0 0 0 26_samples:0 154053157 154053451 295 64 164908802 164909101 300 64 NUP210L Intron of NUP210L(-): 9Kb after exon 16 SLITRK3 5'-UTR of SLITRK3(-): 184bp before coding start Antisense fusion 0 3.000000e-02 0 0 2 1 2 2 8.179064e-01 8.179064e-01 1 28 1 28 1 154053157 164908802 1 154053161 4 164908811 9 20 9.971624e-01 1 1 66 0 37 1 -1 -154053158 -1 -164908803 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 24 3 0 163504794 3 1 170257440 long_range 6752668 27 0 0 0 26_samples:0 163504518 163504780 263 55 170257448 170257741 294 64 SI IGR: 1Mb before SI(-) SLC7A14 5'-UTR of SLC7A14(-): 13Kb before coding start - 0 0 0 2.000000e-02 2 0 3 0 6.018581e-02 8.179064e-01 1 27 1 27 1 163504780 170257448 1 163504794 14 170257440 -8 20 9.949978e-01 0 3 66 0 37 1 -1 -163504781 -1 -170257449 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 26 3 0 151054771 3 0 164987185 long_range 13932414 24 0 0 0 26_samples:0 151054542 151054771 230 41 164986945 164987185 241 48 MED12L Intron of MED12L(+): 13Kb before exon 15 SLITRK3 IGR: 83Kb before SLITRK3(-) - 0 0 0 0 1 0 1 1 -1.118491e+00 -5.291524e-01 1 24 1 24 1 151054771 164987185 1 151054776 5 164987386 201 1 8.050621e-01 0 0 82 1 G 10 1 -1 -151054772 -1 -164987186 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2711 27 3 0 164669390 3 1 164671255 deletion 1867 24 0 0 0 26_samples:0 164669120 164669383 264 53 164671250 164671545 296 63 SI IGR: 27Kb before SI(-) SI IGR: 25Kb before SI(-) - 0 0 0 0 1 0 5 0 -1.081965e-01 7.337152e-01 9.925267e-01 2.382064e+01 1 2.382064e+01 1 164669383 164671250 1 164669390 7 164671255 5 20 9.941977e-01 0 1 66 0 27 1 -1 -164669384 -1 -164671251 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 20 3 1 182510857 4 1 52293 inter_chr NaN 30 0 0 0 26_samples:0 182510879 182511163 285 65 52300 52517 218 58 ATP11B Promoter of ATP11B(+): 412bp from tx start ZNF595 Promoter of ZNF595(+): 927bp from tx start - 0 0 1.000000e-02 1.000000e-02 4 1 7 2 9.820040e-01 3.267161e-01 7.802409e-01 2.340723e+01 1 2.340723e+01 1 182510879 52300 1 182510857 -22 52293 -7 20 9.892544e-01 1 2 74 0 80 1 -1 -182510880 -1 -52301 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 18 3 1 151035242 3 1 157353774 long_range 6318525 34 0 0 0 26_samples:0 151035239 151035588 350 74 157353764 157354099 336 65 MED12L Intron of MED12L(+): 33Kb before exon 15 C3orf55 IGR: 35Kb after C3orf55(+) - 2.000000e-02 3.000000e-02 0 0 3 1 4 0 1.824517e+00 9.820040e-01 6.408079e-01 2.178747e+01 1 2.178747e+01 1 151035239 157353764 1 151035242 3 157353774 10 20 9.658209e-01 1 2 72 0 40 1 -1 -151035240 -1 -157353765 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 35 12 0 34275500 12 1 34333072 deletion 57562 20 0 0 0 26_samples:0 34275180 34275503 324 67 34333065 34333363 299 65 ALG10 IGR: 100Kb before ALG10(+) ALG10 IGR: 158Kb before ALG10(+) - 0 0 4.000000e-02 3.000000e-02 2 0 3 1 1.070480e+00 9.020976e-01 9.996500e-01 1.999300e+01 1 1.999300e+01 1 34275503 34333065 1 34275500 -3 34333072 7 16 9.847898e-01 0 0 69 1 A 20 1 -1 -34275504 -1 -34333066 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 36 1 0 106598996 1 0 120052189 long_range 13453180 19 0 0 0 26_samples:0 106598698 106598996 299 51 120051920 120052176 257 52 PRMT6 IGR: 1Mb before PRMT6(+) HSD3B1 Intron of HSD3B1(+): 2Kb after exon 2 - 0 0 0 0 2 0 1 1 -2.412327e-01 -1.624770e-01 1 19 1 19 1 106598996 120052176 1 106598996 0 120052189 13 20 9.517319e-01 0 2 67 0 36 1 -1 -106598997 -1 -120052177 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 37 2 0 162259421 2 1 162990815 deletion 731401 19 0 0 0 26_samples:0 162259167 162259422 256 50 162990823 162991083 261 53 PSMD14 Intron of PSMD14(+): 6Kb before exon 11 GCG IGR: 9Kb before GCG(-) - 0 0 0 0 1 0 2 0 -3.199883e-01 -8.372136e-02 1 19 1 19 1 162259422 162990823 1 162259421 -1 162990815 -8 20 9.512848e-01 0 0 69 0 26 1 -1 -162259423 -1 -162990824 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 38 7 0 49602909 7 1 49614159 deletion 11258 19 0 0 0 26_samples:0 49602616 49602902 287 58 49614160 49614443 284 65 VWC2 IGR: 210Kb before VWC2(+) VWC2 IGR: 199Kb before VWC2(+) - 0 0 0 0 3 0 2 1 3.100569e-01 8.613464e-01 1 19 1 19 1 49602902 49614160 1 49602909 7 49614159 -1 6 9.968619e-01 0 0 66 0 11 1 -1 -49602903 -1 -49614161 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 28 3 1 182499365 4 0 52517 inter_chr NaN 24 0 0 0 26_samples:0 182499371 182499640 270 52 52299 52516 218 39 ATP11B IGR: 12Kb before ATP11B(+) ZNF595 Promoter of ZNF595(+): 711bp from tx start - 0 2.000000e-02 1.000000e-02 1.000000e-02 5 2 7 2 -1.923877e-01 -1.286873e+00 7.595514e-01 1.822923e+01 1 1.822923e+01 1 182499371 52516 1 182499365 -6 52517 1 20 9.413464e-01 1 0 81 20 GTACCCAGTGTATTTTTTAT 85 1 182499379 8 52717 201 1 7.619512e-01 1 0 75 1 C 7 1 1.214286e+01 LUSC-60-2711 40 2 1 153383547 3 1 171101380 inter_chr NaN 18 0 0 0 26_samples:0 153383558 153383834 277 70 171101379 171101653 275 59 FMNL2 Intron of FMNL2(+): 5Kb after exon 2 TNIK Intron of TNIK(-): 14Kb before exon 2 Protein fusion: in frame (TNIK-FMNL2) 0 0 0 0 2 0 2 0 1.255125e+00 3.888125e-01 9.836655e-01 1.770598e+01 1 1.770598e+01 1 153383558 171101379 1 153383547 -11 171101380 1 12 9.693808e-01 1 6 77 0 19 1 -1 -153383559 -1 -171101380 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 42 1 0 12518124 1 1 117084935 long_range 104566888 17 0 0 0 26_samples:0 12517923 12518133 211 33 117085021 117085229 209 40 VPS13D Intron of VPS13D(+): 2Kb after exon 66 CD58 Intron of CD58(-): 2Kb after exon 2 Antisense fusion 0 0 0 0 2 1 4 0 -1.658834e+00 -1.107545e+00 1 17 1 17 1 12518133 117085021 1 12518124 -9 117084935 -86 9 9.873997e-01 0 2 70 0 15 1 -1 -12518134 -1 -117085022 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 43 3 0 104862217 3 0 106287407 long_range 1425200 17 0 0 0 26_samples:0 104861934 104862213 280 61 106287118 106287413 296 68 ALCAM IGR: 224Kb before ALCAM(+) LOC100302640 IGR: 541Kb before LOC100302640(-) - 0 0 0 0 2 1 2 1 5.463238e-01 1.097613e+00 9.990708e-01 1.698420e+01 1 1.698420e+01 1 104862213 106287413 1 104862217 4 106287407 -6 11 9.980453e-01 0 0 65 0 15 1 -1 -104862214 -1 -106287414 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 46 6 1 23270745 6 1 23273752 inversion 3012 16 0 0 0 26_samples:0 23270753 23270999 247 49 23273765 23274028 264 50 HDGFL1 IGR: 701Kb before HDGFL1(+) HDGFL1 IGR: 704Kb before HDGFL1(+) - 0 0 0 0 3 1 2 1 -3.987440e-01 -3.199883e-01 1 16 1 16 1 23270753 23273765 1 23270745 -8 23273752 -13 6 9.889951e-01 1 5 78 0 19 1 -1 -23270754 -1 -23273766 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 45 6 0 18273051 6 1 65357689 long_range 47084657 16 0 0 0 26_samples:0 18272760 18273024 265 70 65357681 65357989 309 68 DEK IGR: 49Kb before DEK(-) EYS Intron of EYS(-): 22Kb before exon 23 - 0 0 0 0 3 0 2 1 1.255125e+00 1.097613e+00 9.827515e-01 1.572402e+01 1 1.572402e+01 1 18273024 65357681 1 18273051 27 65357689 8 11 9.835465e-01 0 4 65 0 18 1 -1 -18273025 -1 -65357682 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 49 3 0 143518795 3 0 147885080 long_range 4366221 15 0 0 0 26_samples:0 143518563 143518785 223 41 147884776 147885006 231 47 SLC9A9 Intron of SLC9A9(-): 3Kb before exon 3 AGTR1 IGR: 531Kb before AGTR1(+) - 1.000000e-02 4.000000e-02 0 0 2 0 2 0 -1.028789e+00 -5.562552e-01 1 15 1 15 1 143518785 147885006 1 143518795 10 147885080 74 12 9.989509e-01 0 5 68 0 42 1 -1 -143518786 -1 -147885007 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 48 1 1 149935456 3 0 147569131 inter_chr NaN 15 0 0 0 26_samples:0 149935454 149935712 259 49 147568815 147569120 306 67 OTUD7B Intron of OTUD7B(-): 693bp after exon 6 ZIC1 IGR: 442Kb before ZIC1(+) - 0 2.000000e-02 0 0 1 0 4 1 -3.987440e-01 1.018858e+00 9.999933e-01 1.499990e+01 1 1.499990e+01 1 149935454 147569120 1 149935456 2 147569131 11 8 9.785980e-01 1 1 72 0 17 1 -1 -149935455 -1 -147569121 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 44 3 1 175587748 3 1 181494027 long_range 5906264 16 0 0 0 26_samples:0 175587756 175588025 270 60 181494020 181494303 284 63 NAALADL2 IGR: 64Kb after NAALADL2(+) SOX2OT IGR: 35Kb after SOX2OT(+) - 0 0 0 4.000000e-02 2 0 6 1 4.675682e-01 7.038351e-01 8.888889e-01 1.422222e+01 1 1.422222e+01 1 175587756 181494020 1 175587748 -8 181494027 7 16 9.848542e-01 1 1 71 0 40 1 -1 -175587757 -1 -181494021 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 51 1 1 107802241 3 0 66953696 inter_chr NaN 14 0 0 0 26_samples:0 107802240 107802530 291 56 66953442 66953682 241 45 NTNG1 Intron of NTNG1(+): 65Kb before exon 3 KBTBD8 IGR: 95Kb before KBTBD8(+) - 0 0 0 0 1 0 2 1 1.589421e-01 -6.548230e-01 1 14 1 14 1 107802240 66953682 1 107802241 1 66953696 14 6 9.964157e-01 1 4 72 0 9 1 -1 -107802241 -1 -66953683 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 52 1 1 32573248 4 1 41410916 inter_chr NaN 14 0 0 0 26_samples:0 32573257 32573542 286 53 41410920 41411177 258 57 KPNA6 Promoter of KPNA6(+): 387bp from tx start LIMCH1 Intron of LIMCH1(+): 48Kb after exon 1 - 1.300000e-01 1.500000e-01 0 0 3 4 2 1 -6.299387e-02 2.329207e-01 1 14 1 14 1 32573257 41410920 1 32573248 -9 41410916 -4 9 9.941549e-01 1 0 71 0 13 1 -1 -32573258 -1 -41410921 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 53 1 1 39792740 4 1 7686710 inter_chr NaN 14 0 0 0 26_samples:0 39792826 39793050 225 51 7686720 7686888 169 21 MACF1 Intron of MACF1(+): 64bp before exon 37 SORCS2 Intron of SORCS2(+): 2Kb after exon 10 - 0 0 0 0 4 2 4 0 -2.109512e-01 -2.430310e+00 1 14 1 14 1 39792826 7686720 1 39792740 -86 7686710 -10 8 9.864185e-01 1 2 75 0 24 1 -1 -39792827 -1 -7686721 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 54 2 0 112427597 3 0 173240705 inter_chr NaN 14 0 0 0 26_samples:0 112427351 112427602 252 44 173240435 173240710 276 51 ANAPC1 IGR: 99Kb before ANAPC1(-) NLGN1 5'-UTR of NLGN1(+): 82Kb before coding start - 0 0 1.000000e-02 0 2 0 3 2 -7.288017e-01 -2.109512e-01 1 14 1 14 1 112427602 173240710 1 112427597 -5 173240705 -5 20 9.983931e-01 0 0 63 0 39 1 -1 -112427603 -1 -173240711 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 55 12 0 38314719 12 1 38326444 deletion 11739 14 0 0 0 26_samples:0 38314473 38314719 247 39 38326458 38326726 269 53 ALG10B IGR: 396Kb before ALG10B(+) ALG10B IGR: 384Kb before ALG10B(+) - 0 2.000000e-02 9.000000e-02 0 1 0 2 0 -1.098695e+00 -6.299387e-02 1 14 1 14 1 38314719 38326458 1 38314719 0 38326444 -14 16 9.959701e-01 0 4 75 0 18 1 38314934 215 38326383 -75 3 9.715401e-01 0 18 123 0 5 1 3.600000e+00 LUSC-60-2711 56 12 0 71960900 23 0 133720259 inter_chr NaN 14 0 0 0 26_samples:0 71960630 71960905 276 56 133719984 133720252 269 58 LGR5 Intron of LGR5(+): 213bp after exon 11 PLAC1 5'-UTR of PLAC1(-): 20Kb before coding start Transcript fusion (LGR5-PLAC1) 0 0 0 0 3 0 1 0 1.589421e-01 3.068993e-01 1 14 1 14 1 71960905 133720252 1 71960900 -5 133720259 7 8 9.924331e-01 0 1 59 0 13 1 71961107 202 133720453 201 1 7.574928e-01 0 1 71 34 TCCTTCCAGTATAGTTGTCAATGCCATGTTCTAA 8 1 1.625000e+00 LUSC-60-2711 57 14 0 42132449 23 1 73582408 inter_chr NaN 14 0 0 0 26_samples:0 42132187 42132445 259 50 73582425 73582690 266 47 LRFN5 5'-UTR of LRFN5(+): 223Kb before coding start ZCCHC13 IGR: 58Kb before ZCCHC13(+) - 0 0 0 0 2 0 2 1 -2.849298e-01 -5.068657e-01 1 14 1 14 1 42132445 73582425 1 42132449 4 73582408 -17 5 9.549940e-01 0 1 70 0 9 1 -1 -42132446 -1 -73582426 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 58 1 0 167086193 2 0 51662740 inter_chr NaN 13 0 0 0 26_samples:0 167085928 167086195 268 56 51662457 51662741 285 62 DUSP27 Intron of DUSP27(+): 370bp before exon 3 NRXN1 IGR: 403Kb after NRXN1(-) - 3.000000e-02 4.000000e-02 0 0 1 0 2 1 1.589421e-01 6.028139e-01 1 13 1 13 1 167086195 51662741 1 167086193 -2 51662740 -1 13 9.864189e-01 0 1 72 0 19 1 -1 -167086196 -1 -51662742 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 59 1 0 40370797 3 1 171651357 inter_chr NaN 13 0 0 0 26_samples:0 40370522 40370805 284 53 171651359 171651620 262 64 MYCL1 IGR: 6Kb before MYCL1(-) TMEM212 IGR: 90Kb before TMEM212(+) - 0 0 0 0 5 0 2 0 -6.299387e-02 7.507712e-01 9.846154e-01 1.280000e+01 1 1.280000e+01 1 40370805 171651359 1 40370797 -8 171651357 -2 10 9.991723e-01 0 1 74 0 84 1 -1 -40370806 -1 -171651360 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 66 2 1 163946244 3 1 175017812 inter_chr NaN 12 0 0 0 26_samples:0 163946244 163946518 275 56 175017829 175018074 246 51 KCNH7 IGR: 251Kb after KCNH7(-) NAALADL2 Intron of NAALADL2(+): 24Kb before exon 5 - 0 0 1.000000e-02 2.000000e-02 1 0 4 2 1.589421e-01 -2.109512e-01 1 12 1 12 1 163946244 175017829 1 163946244 0 175017812 -17 8 9.673892e-01 1 1 71 1 G 11 1 -1 -163946245 -1 -175017830 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 68 3 0 151050252 3 0 153575342 long_range 2525066 12 0 0 0 26_samples:0 151049994 151050248 255 64 153575074 153575314 241 58 MED12L Intron of MED12L(+): 18Kb before exon 15 SGEF IGR: 264Kb before SGEF(+) - 0 0 2.000000e-02 0 1 2 2 1 7.507712e-01 3.068993e-01 1 12 1 12 1 151050248 153575314 1 151050252 4 153575342 28 5 1 0 1 61 0 15 1 -1 -151050249 -1 -153575315 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 70 3 1 102436568 14 0 41604426 inter_chr NaN 12 0 0 0 26_samples:0 102436560 102436868 309 61 41604138 41604420 283 57 ZPLD1 IGR: 283Kb before ZPLD1(+) LRFN5 IGR: 472Kb before LRFN5(+) - 0 0 0 0 1 1 2 0 5.288353e-01 2.329207e-01 1 12 1 12 1 102436560 41604420 1 102436568 8 41604426 6 7 9.944815e-01 1 2 79 0 10 1 -1 -102436561 -1 -41604421 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 72 11 1 8700624 11 0 8709247 tandem_dup 8629 12 0 0 0 26_samples:0 8700626 8700882 257 45 8709004 8709255 252 49 RPL27A IGR: 3Kb before RPL27A(+) RPL27A 3'-UTR of RPL27A(+): 2Kb after coding stop - 0 0 0 4.000000e-02 0 0 0 0 -6.548230e-01 -3.589084e-01 1 12 1 12 1 8700626 8709255 1 8700624 -2 8709247 -8 9 9.865160e-01 1 2 76 0 13 1 -1 -8700627 -1 -8709256 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 73 16 0 6255756 16 1 6262843 deletion 7081 12 0 0 0 26_samples:0 6255455 6255753 299 56 6262834 6263089 256 46 A2BP1 5'-UTR of A2BP1(+): 846Kb before coding start A2BP1 5'-UTR of A2BP1(+): 839Kb before coding start Deletion within transcript 0 0 0 0 0 2 0 1 1.589421e-01 -5.808444e-01 1 12 1 12 1 6255753 6262834 1 6255756 3 6262843 9 12 9.566734e-01 0 1 64 1 C 19 1 -1 -6255754 -1 -6262835 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 63 1 0 40563806 3 1 163306769 inter_chr NaN 12 0 0 0 26_samples:0 40563556 40563806 251 53 163306777 163307066 290 62 PPT1 Promoter of PPT1(-): 664bp from tx start SI IGR: 1Mb before SI(-) - 0 0 3.000000e-02 4.000000e-02 5 0 5 2 -6.299387e-02 6.028139e-01 9.694675e-01 1.163361e+01 1 1.163361e+01 1 40563806 163306777 1 40563806 0 163306769 -8 4 9.247140e-01 0 1 79 0 28 1 -1 -40563807 -1 -163306778 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 60 3 0 179357998 3 0 182937023 long_range 3579025 13 0 0 0 26_samples:0 179357737 179357998 262 49 182936760 182937023 264 60 USP13 IGR: 13Kb before USP13(+) MCF2L2 Intron of MCF2L2(-): 621bp after exon 21 - 0 0 0 0 2 3 6 1 -3.589084e-01 4.548566e-01 8.888889e-01 1.155556e+01 1 1.155556e+01 1 179357998 182937023 1 179358109 111 182937227 204 20 9.055078e-01 0 8 131 0 261 1 179358109 111 182937227 204 10 9.073337e-01 0 8 131 0 34 0 7.676471e+00 LUSC-60-2711 67 3 0 116421471 3 1 116438494 deletion 17049 12 0 0 0 26_samples:0 116421249 116421461 213 53 116438510 116438810 301 72 LOC285194 IGR: 7Kb before LOC285194(+) LOC285194 IGR: 3Kb after LOC285194(+) - 0 0 0 0 1 1 2 1 -6.299387e-02 1.342600e+00 9.613418e-01 1.153610e+01 1 1.153610e+01 1 116421461 116438510 1 116421471 10 116438494 -16 11 9.688127e-01 0 1 76 1 A 14 1 -1 -116421462 -1 -116438511 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 71 5 0 146182439 5 1 146183682 deletion 1240 12 0 0 0 26_samples:0 146182149 146182436 288 73 146183676 146183959 284 67 PPP2R2B Intron of PPP2R2B(-): 54Kb after exon 3 PPP2R2B Intron of PPP2R2B(-): 52Kb after exon 3 Deletion within intron 0 0 5.000000e-02 0 0 1 1 0 1.416579e+00 9.727071e-01 9.325815e-01 1.119098e+01 1 1.119098e+01 1 146182436 146183676 1 146182439 3 146183682 6 6 9.731392e-01 0 0 71 0 10 1 -1 -146182437 -1 -146183677 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 76 1 1 179593119 12 1 125690233 inter_chr NaN 11 0 0 0 26_samples:0 179593150 179593394 245 51 125690261 125690468 208 59 TDRD5 Intron of TDRD5(+): 3Kb after exon 6 AACS IGR: 62Kb after AACS(+) - 0 0 0 0 1 0 1 1 -1.825132e-01 3.628989e-01 1 11 1 11 1 179593150 125690261 1 179593119 -31 125690233 -28 8 9.974909e-01 1 1 84 0 13 1 179592949 -201 125690125 -136 1 7.508846e-01 1 0 70 59 CTGAGTAGCTGGGACTACAGACATGTGGTGCCATGCCCAGCCAATTAAAAAAAAAAATT 13 1 1 LUSC-60-2711 77 2 1 51946139 2 1 55458843 long_range 3512714 11 0 0 0 26_samples:0 51946147 51946392 246 42 55458861 55459074 214 37 NRXN1 IGR: 2Mb before NRXN1(-) C2orf63 5'-UTR of C2orf63(-): 9Kb before coding start - 0 0 0 0 2 2 4 0 -7.961018e-01 -1.136984e+00 1 11 1 11 1 51946147 55458861 1 51946139 -8 55458843 -18 8 9.787766e-01 1 0 75 0 8 1 -1 -51946148 -1 -55458862 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 78 3 1 8017020 3 0 8032847 tandem_dup 15749 11 0 0 0 26_samples:0 8017074 8017287 214 36 8032634 8032823 190 30 LOC100288428 IGR: 246Kb before LOC100288428(-) LOC100288428 IGR: 230Kb before LOC100288428(-) - 0 0 0 0 2 2 2 0 -1.205161e+00 -1.614220e+00 1 11 1 11 1 8017074 8032823 1 8017020 -54 8032847 24 8 9.921128e-01 1 3 66 0 11 1 -1 -8017075 -1 -8032824 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 79 3 1 175597002 3 0 175669479 tandem_dup 72487 11 0 0 0 26_samples:0 175596997 175597299 303 60 175669177 175669484 308 59 NAALADL2 IGR: 74Kb after NAALADL2(+) NAALADL2 IGR: 146Kb after NAALADL2(+) - 0 0 0 0 2 0 3 0 4.310754e-01 3.628989e-01 1 11 1 11 1 175596997 175669484 1 175597002 5 175669479 -5 10 1 1 4 69 0 20 1 -1 -175596998 -1 -175669485 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 82 4 0 129692329 4 0 129693821 inversion 1492 11 0 0 0 26_samples:0 129692045 129692329 285 63 129693530 129693821 292 64 PHF17 IGR: 38Kb before PHF17(+) PHF17 IGR: 37Kb before PHF17(+) - 0 6.000000e-02 0 0 1 2 0 1 6.356049e-01 7.037814e-01 1 11 1 11 1 129692329 129693821 1 -1 -129692330 -1 -129693822 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -129692330 -1 -129693822 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-60-2711 83 6 1 25953252 6 1 56662272 long_range 30708940 11 0 0 0 26_samples:0 25953330 25953513 184 28 56662270 56662492 223 44 TRIM38 IGR: 10Kb before TRIM38(+) BEND6 IGR: 158Kb before BEND6(+) - 0 0 3.000000e-02 3.000000e-02 1 0 1 1 -1.750573e+00 -6.597488e-01 1 11 1 11 1 25953330 56662270 1 25953252 -78 56662272 2 13 9.684967e-01 1 0 72 0 20 1 -1 -25953331 -1 -56662271 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 86 15 1 95326423 15 0 95353246 tandem_dup 26842 11 0 0 0 26_samples:0 95326415 95326693 279 63 95352956 95353257 302 63 MCTP2 IGR: 427Kb before MCTP2(+) MCTP2 IGR: 454Kb before MCTP2(+) - 0 0 0 0 2 1 2 0 6.356049e-01 6.356049e-01 1 11 1 11 1 95326415 95353257 1 95326423 8 95353246 -11 14 9.989552e-01 1 1 71 0 21 1 -1 -95326416 -1 -95353258 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 89 19 1 37840613 19 0 37844020 tandem_dup 3371 11 0 0 0 26_samples:0 37840637 37840875 239 52 37843737 37844008 272 52 HKR1 Intron of HKR1(+): 2Kb after exon 5 HKR1 Intron of HKR1(+): 5Kb after exon 5 Duplication within intron 4.000000e-02 6.000000e-02 3.000000e-02 2.000000e-02 2 1 0 2 -1.143367e-01 -1.143367e-01 1 11 1 11 1 37840637 37844008 1 37840613 -24 37844020 12 8 9.127460e-01 1 0 75 0 12 1 -1 -37840638 -1 -37844009 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 75 1 1 40977374 4 0 7686887 inter_chr NaN 11 0 0 0 26_samples:0 40977467 40977726 260 53 7686715 7686893 179 35 DEM1 5'-UTR of DEM1(+): 3Kb before coding start SORCS2 Intron of SORCS2(+): 2Kb after exon 10 Transcript fusion (SORCS2-DEM1) 0 5.000000e-02 0 0 5 1 4 0 -4.616018e-02 -1.273337e+00 9.846154e-01 1.083077e+01 1 1.083077e+01 1 40977467 7686893 1 40977374 -93 7686887 -6 12 9.915598e-01 1 3 72 0 31 1 40977591 124 7687094 201 1 7.685380e-01 1 1 65 21 AGACATCAAATTACAGCCTCA 12 1 2.583333e+00 LUSC-60-2711 88 16 0 66310997 16 1 66317191 deletion 6207 11 0 0 0 26_samples:0 66310727 66310987 261 71 66317194 66317492 299 73 CDH5 IGR: 90Kb before CDH5(+) CDH5 IGR: 83Kb before CDH5(+) - 0 0 0 2.000000e-02 0 1 0 2 1.181017e+00 1.317370e+00 9.633098e-01 1.059641e+01 1 1.059641e+01 1 66310987 66317194 1 66310997 10 66317191 -3 14 9.853234e-01 0 0 69 0 20 1 -1 -66310988 -1 -66317195 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 91 1 0 106896931 1 0 116722173 long_range 9825242 10 0 0 0 26_samples:0 106896778 106896931 154 20 116722033 116722173 141 20 PRMT6 IGR: 702Kb before PRMT6(+) C1orf161 IGR: 44Kb after C1orf161(+) - 0 0 2.000000e-02 3.000000e-02 2 0 1 1 -2.295985e+00 -2.295985e+00 1 10 1 10 1 106896931 116722173 1 -1 -106896932 -1 -116722174 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -106896932 -1 -116722174 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-60-2711 93 1 1 167474528 2 1 59256745 inter_chr NaN 10 0 0 0 26_samples:0 167474532 167474761 230 38 59256761 59257005 245 56 CD247 Intron of CD247(-): 13Kb after exon 1 FANCL IGR: 870Kb before FANCL(-) - 0 0 0 0 1 0 2 2 -1.068808e+00 1.583693e-01 1 10 1 10 1 167474532 59256761 1 167474528 -4 59256745 -16 9 9.971988e-01 1 0 64 0 9 1 167474331 -201 59256667 -94 3 8.634649e-01 1 1 77 0 4 1 2.250000e+00 LUSC-60-2711 94 1 0 169283030 2 0 66202332 inter_chr NaN 10 0 0 0 26_samples:0 169282735 169283023 289 58 66202088 66202323 236 45 NME7 Intron of NME7(-): 4Kb before exon 4 MEIS1 IGR: 460Kb before MEIS1(+) - 0 0 0 0 2 1 1 0 2.947224e-01 -5.915722e-01 1 10 1 10 1 169283023 66202323 1 169283030 7 66202332 9 15 9.997338e-01 0 2 63 0 18 1 -1 -169283024 -1 -66202324 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 97 3 0 149300678 3 1 161168711 long_range 11868094 10 0 0 0 26_samples:0 149300373 149300645 273 51 161168739 161168965 227 37 WWTR1 Intron of WWTR1(-): 10Kb before exon 3 OTOL1 IGR: 46Kb before OTOL1(+) - 0 0 0 0 2 0 3 1 -1.825132e-01 -1.136984e+00 1 10 1 10 1 149300645 161168739 1 149300678 33 161168711 -28 11 1 0 3 67 0 16 1 -1 -149300646 -1 -161168740 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 104 10 0 31727332 10 1 31731239 deletion 3924 10 0 0 0 26_samples:0 31727032 31727331 300 64 31731255 31731538 284 54 ZEB1 Intron of ZEB1(+): 23Kb before exon 2 ZEB1 Intron of ZEB1(+): 19Kb before exon 2 Deletion within intron 0 0 3.000000e-02 2.000000e-02 0 0 0 1 7.037814e-01 2.201632e-02 1 10 1 10 1 31727331 31731255 1 31727332 1 31731239 -16 10 9.764003e-01 0 1 69 0 11 1 -1 -31727332 -1 -31731256 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 105 10 1 77680755 10 0 77692427 tandem_dup 11602 10 0 0 0 26_samples:0 77680793 77681001 209 58 77692201 77692395 195 37 C10orf11 Intron of C10orf11(+): 115Kb before exon 2 C10orf11 Intron of C10orf11(+): 103Kb before exon 2 Duplication within intron 0 0 2.000000e-02 0 2 0 2 0 2.947224e-01 -1.136984e+00 1 10 1 10 1 77680793 77692395 1 77680755 -38 77692427 32 6 9.875213e-01 1 3 61 0 9 1 -1 -77680794 -1 -77692396 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 106 10 1 58767534 12 0 3607566 inter_chr NaN 10 0 0 0 26_samples:0 58767563 58767804 242 49 3607337 3607567 231 49 ZWINT IGR: 650Kb before ZWINT(-) PRMT8 Intron of PRMT8(+): 7Kb after exon 1 - 0 0 0 0 1 0 2 0 -3.188662e-01 -3.188662e-01 1 10 1 10 1 58767563 3607567 1 58767534 -29 3607566 -1 7 9.987655e-01 1 4 72 0 10 1 -1 -58767564 -1 -3607568 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 108 20 1 4676449 20 0 4696350 tandem_dup 19884 10 0 0 0 26_samples:0 4676443 4676714 272 51 4696077 4696327 251 52 PRNP 5'-UTR of PRNP(+): 3Kb before coding start PRND IGR: 6Kb before PRND(+) - 0 0 0 0 2 0 2 0 -1.825132e-01 -1.143367e-01 1 10 1 10 1 4676443 4696327 1 4676449 6 4696350 23 12 9.982132e-01 1 0 72 0 16 1 -1 -4676444 -1 -4696328 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 98 3 0 153374965 3 0 191160323 long_range 37785371 10 0 0 0 26_samples:0 153374684 153374949 266 46 191160050 191160320 271 51 C3orf79 IGR: 173Kb before C3orf79(+) PYDC2 IGR: 19Kb before PYDC2(+) - 1.400000e-01 2.200000e-01 0 0 2 4 5 0 -5.233957e-01 -1.825132e-01 9.846154e-01 9.846154e+00 1 9.846154e+00 1 153374949 191160320 1 153374965 16 191160323 3 17 9.904692e-01 0 0 73 0 32 1 -1 -153374950 -1 -191160321 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 32 1 1 40286499 1 1 40351128 inversion 64619 21 0 0 0 26_samples:0 40286503 40286789 287 71 40351122 40351445 324 75 TRIT1 IGR: 20Kb before TRIT1(-) TRIT1 Promoter of TRIT1(-): 2Kb from tx start - 0 0 0 5.000000e-02 6 1 7 0 1.407245e+00 1.744009e+00 4.624273e-01 9.710973e+00 1 9.710973e+00 1 40286503 40351122 1 40286499 -4 40351128 6 18 9.763658e-01 1 1 75 0 53 1 -1 -40286504 -1 -40351123 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 87 15 1 91345873 15 0 91385490 tandem_dup 39611 11 0 0 0 26_samples:0 91345877 91346145 269 60 91385193 91385488 296 76 BLM Intron of BLM(+): 874bp before exon 18 FURIN IGR: 26Kb before FURIN(+) - 0 0 0 2.000000e-02 2 0 3 0 4.310754e-01 1.521899e+00 8.755383e-01 9.630921e+00 1 9.630921e+00 1 91345877 91385488 1 91345873 -4 91385490 2 10 9.590392e-01 1 5 77 0 18 1 -1 -91345878 -1 -91385489 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 65 2 1 181807163 2 0 181813300 tandem_dup 6137 12 0 0 0 26_samples:0 181807162 181807459 298 76 181813019 181813299 281 60 UBE2E3 IGR: 38Kb before UBE2E3(+) UBE2E3 IGR: 32Kb before UBE2E3(+) - 0 0 0 0 0 0 1 0 1.638515e+00 4.548566e-01 7.934472e-01 9.521366e+00 1 9.521366e+00 1 181807162 181813299 1 181807163 1 181813300 1 5 9.526879e-01 1 3 67 0 11 1 -1 -181807163 -1 -181813300 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 111 1 1 169823722 2 0 55152945 inter_chr NaN 9 0 0 0 26_samples:0 169823718 169824025 308 65 55152677 55152938 262 56 SCYL3 Exon 12 of SCYL3(-) EML6 Intron of EML6(+): 3Kb before exon 26 Antisense fusion 0 0 0 0 1 0 2 0 7.570847e-01 1.744782e-01 1 9 1 9 1 169823718 55152938 1 169823722 4 55152945 7 4 9.967911e-01 1 1 75 0 6 1 -1 -169823719 -1 -55152939 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 112 2 0 57541036 2 0 63881954 long_range 6340901 9 0 0 0 26_samples:0 57540788 57541028 241 50 63881725 63881929 205 35 VRK2 IGR: 733Kb before VRK2(+) LOC388955 IGR: 33Kb before LOC388955(-) - 0 0 0 0 2 1 1 0 -2.139261e-01 -1.184937e+00 1 9 1 9 1 57541028 63881929 1 57541036 8 63881954 25 13 9.968150e-01 0 0 63 0 19 1 -1 -57541029 -1 -63881930 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 114 3 1 150314190 3 0 161259384 long_range 10945151 9 0 0 0 26_samples:0 150314217 150314458 242 44 161259076 161259368 293 59 SELT IGR: 7Kb before SELT(+) OTOL1 IGR: 45Kb before OTOL1(+) - 0 0 0 0 1 1 1 1 -6.023305e-01 3.686803e-01 1 9 1 9 1 150314217 161259368 1 150314190 -27 161259384 16 5 1 1 1 72 0 8 1 -1 -150314218 -1 -161259369 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 115 6 1 54899255 7 0 41078955 inter_chr NaN 9 0 0 0 26_samples:0 54899272 54899506 235 48 41078687 41078940 254 48 HCRTR2 IGR: 140Kb before HCRTR2(+) C7orf10 IGR: 179Kb after C7orf10(+) - 0 0 0 0 2 0 1 1 -3.433942e-01 -3.433942e-01 1 9 1 9 1 54899272 41078940 1 54899255 -17 41078955 15 11 1 1 0 60 0 20 1 -1 -54899273 -1 -41078941 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 118 14 0 87026824 14 1 87032510 deletion 5733 9 0 0 0 26_samples:0 87026583 87026793 211 38 87032526 87032762 237 48 FLRT2 IGR: 1Mb before FLRT2(+) FLRT2 IGR: 1Mb before FLRT2(+) - 0 0 0 0 0 0 1 0 -9.907348e-01 -3.433942e-01 1 9 1 9 1 87026793 87032526 1 87026824 31 87032510 -16 9 9.978854e-01 0 2 66 0 11 1 -1 -87026794 -1 -87032527 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 119 15 1 81126972 15 0 81169037 tandem_dup 42065 9 0 0 0 26_samples:0 81126972 81127186 215 56 81168823 81169037 215 54 KIAA1199 5'-UTR of KIAA1199(+): 39Kb before coding start KIAA1199 Intron of KIAA1199(+): 2Kb before exon 3 Duplication within transcript 0 0 0 0 3 0 2 0 1.744782e-01 4.501007e-02 1 9 1 9 1 81126972 81169037 1 81126948 -24 81169056 19 10 7.813386e-01 1 0 74 0 24 1 -1 -81126973 -1 -81169038 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2711 120 15 1 95543116 15 0 95557760 tandem_dup 14624 9 0 0 0 26_samples:0 95543117 95543388 272 62 95557479 95557741 263 62 LOC145820 IGR: 433Kb before LOC145820(+) LOC145820 IGR: 419Kb before LOC145820(+) - 0 0 0 0 1 0 2 1 5.628825e-01 5.628825e-01 1 9 1 9 1 95543117 95557741 1 95543116 -1 95557760 19 13 9.953500e-01 1 0 69 0 19 1 -1 -95543118 -1 -95557742 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 113 3 1 147568446 3 1 147570329 inversion 1897 9 0 0 0 26_samples:0 147568448 147568687 240 61 147570345 147570627 283 69 ZIC1 IGR: 441Kb before ZIC1(+) ZIC1 IGR: 443Kb before ZIC1(+) - 0 0 0 0 2 2 1 2 4.981484e-01 1.016021e+00 9.999959e-01 8.999963e+00 1 8.999963e+00 1 147568448 147570345 1 147568446 -2 147570329 -16 16 9.800821e-01 1 3 68 0 17 1 -1 -147568449 -1 -147570346 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 103 8 1 112774160 18 1 57071002 inter_chr NaN 10 0 0 0 26_samples:0 112774160 112774383 224 40 57071002 57071236 235 36 CSMD3 IGR: 461Kb before CSMD3(-) CCBE1 IGR: 27Kb before CCBE1(-) - 0 0 4.000000e-02 1.400000e-01 3 0 6 4 -9.324548e-01 -1.205161e+00 8.888889e-01 8.888889e+00 1 8.888889e+00 1 112774160 57071002 1 -1 -112774161 -1 -57071003 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -112774161 -1 -57071003 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-60-2711 123 2 1 67026678 2 0 67044450 tandem_dup 17748 8 0 0 0 26_samples:0 67026679 67026916 238 49 67044170 67044427 258 57 MEIS1 IGR: 364Kb before MEIS1(+) MEIS1 IGR: 382Kb before MEIS1(+) - 2.000000e-02 0 0 0 3 1 3 1 -2.786602e-01 2.392122e-01 1 8 1 8 1 67026679 67044427 1 67026678 -1 67044450 23 3 9.139742e-01 1 0 76 0 6 1 -1 -67026680 -1 -67044428 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 124 2 1 64505879 3 1 105198825 inter_chr NaN 8 0 0 0 26_samples:0 64505897 64506130 234 42 105198834 105199061 228 43 HSPC159 IGR: 175Kb before HSPC159(+) ALCAM Intron of ALCAM(+): 40Kb before exon 2 - 0 0 3.000000e-02 2.000000e-02 1 0 2 1 -7.317986e-01 -6.670645e-01 1 8 1 8 1 64505897 105198834 1 64505879 -18 105198825 -9 8 1 1 0 65 0 8 1 -1 -64505898 -1 -105198835 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 127 3 1 143491855 3 0 143525539 tandem_dup 33654 8 0 0 0 26_samples:0 143491882 143492166 285 61 143525280 143525536 257 62 SLC9A9 Intron of SLC9A9(-): 22Kb after exon 4 SLC9A9 Intron of SLC9A9(-): 10Kb before exon 3 Duplication of 2 exons: out of frame 0 0 0 0 2 0 2 0 4.981484e-01 5.628825e-01 1 8 1 8 1 143491882 143525536 1 143491855 -27 143525539 3 11 1 1 3 68 0 16 1 -1 -143491883 -1 -143525537 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 130 4 0 100287508 4 0 100290714 inversion 3170 8 0 0 0 26_samples:0 100287267 100287506 240 50 100290440 100290676 237 49 ADH1C IGR: 30Kb before ADH1C(-) ADH1C IGR: 33Kb before ADH1C(-) - 0 0 2.000000e-02 2.000000e-02 1 0 0 0 -2.139261e-01 -2.786602e-01 1 8 1 8 1 100287506 100290676 1 100287508 2 100290714 38 8 1 0 2 72 0 10 1 -1 -100287507 -1 -100290677 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 133 11 0 106230873 11 1 106232220 deletion 1352 8 0 0 0 26_samples:0 106230623 106230870 248 45 106232222 106232470 249 63 AASDHPPT IGR: 283Kb before AASDHPPT(+) AASDHPPT IGR: 284Kb before AASDHPPT(+) - 0 0 0 0 0 1 0 1 -5.375964e-01 6.276166e-01 1 8 1 8 1 106230870 106232222 1 106230873 3 106232220 -2 13 9.874790e-01 0 2 71 0 19 1 106230711 -159 106232020 -202 1 7.969689e-01 0 1 76 0 7 1 2.714286e+00 LUSC-60-2711 135 21 1 19364668 21 0 19372251 tandem_dup 7545 8 0 0 0 26_samples:0 19364696 19364916 221 41 19371995 19372241 247 45 NCRNA00157 IGR: 157Kb before NCRNA00157(-) NCRNA00157 IGR: 164Kb before NCRNA00157(-) - 0 0 0 0 2 1 0 0 -7.965326e-01 -5.375964e-01 1 8 1 8 1 19364696 19372241 1 19364668 -28 19372251 10 13 9.993451e-01 1 2 72 0 15 1 -1 -19364697 -1 -19372242 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 126 3 1 143326906 3 0 181458039 long_range 38131115 8 0 0 0 26_samples:0 143326930 143327176 247 49 181457793 181458045 253 47 SLC9A9 Intron of SLC9A9(-): 29Kb before exon 7 SOX2OT 5'-UTR of SOX2OT(+): 959bp before coding start Antisense fusion 0 0 0 0 3 0 5 1 -2.786602e-01 -4.081283e-01 9.846154e-01 7.876923e+00 1 7.876923e+00 1 143326930 181458045 1 143326906 -24 181458039 -6 9 1 1 4 65 0 24 1 -1 -143326931 -1 -181458046 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 129 4 0 94463543 4 1 94604028 deletion 140494 8 0 0 0 26_samples:0 94463246 94463535 290 74 94604029 94604283 255 62 GRID2 Intron of GRID2(+): 27Kb after exon 13 GRID2 Intron of GRID2(+): 56Kb after exon 14 Deletion of 1 exon: out of frame 0 0 1.100000e-01 9.000000e-02 2 0 2 1 1.339691e+00 5.628825e-01 9.622815e-01 7.698252e+00 1 7.698252e+00 1 94463535 94604029 1 94463543 8 94604028 -1 14 1 0 1 76 0 20 1 -1 -94463536 -1 -94604030 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 132 6 0 53700616 6 1 53720661 deletion 20031 8 0 0 0 26_samples:0 53700336 53700623 288 76 53720654 53720942 289 69 LRRC1 Intron of LRRC1(+): 6Kb before exon 2 LRRC1 Intron of LRRC1(+): 14Kb after exon 2 Deletion of 1 exon: out of frame 0 0 0 0 2 1 1 1 1.469159e+00 1.016021e+00 9.063953e-01 7.251163e+00 1 7.251163e+00 1 53700623 53720654 1 53700616 -7 53720661 7 3 1 0 3 72 0 6 1 -1 -53700624 -1 -53720655 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 138 1 1 12517924 1 1 117086176 long_range 104568320 7 0 0 0 26_samples:0 12517925 12518124 200 47 117086245 117086438 194 34 VPS13D Intron of VPS13D(+): 2Kb after exon 66 CD58 Intron of CD58(-): 688bp after exon 2 Protein fusion: in frame (CD58-VPS13D) 0 0 4.000000e-02 4.000000e-02 2 0 3 0 -3.274875e-01 -1.067484e+00 1 7 1 7 1 12517925 117086245 1 12517924 -1 117086176 -69 11 9.719035e-01 1 0 67 1 A 18 1 -1 -12517926 -1 -117086246 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 142 2 0 160656892 2 0 160663545 inversion 6669 7 0 0 0 26_samples:0 160656639 160656865 227 57 160663308 160663534 227 53 CD302 Promoter of CD302(-): 2Kb from tx start LY75 Exon 34 of LY75(-) - 0 0 0 0 2 1 0 1 2.417404e-01 1.404927e-02 1 7 1 7 1 160656865 160663534 1 160656892 27 160663545 11 2 9.946234e-01 0 2 78 0 4 1 160657066 201 160663418 -116 4 8.792164e-01 0 0 75 1 T 11 1 3.636364e-01 LUSC-60-2711 144 3 1 151318747 3 0 160313841 long_range 8995096 7 0 0 0 26_samples:0 151318750 151318999 250 47 160313564 160313846 283 62 AADACL2 IGR: 133Kb before AADACL2(+) KPNA4 IGR: 30Kb after KPNA4(-) - 0 0 0 0 1 0 2 0 -3.274875e-01 5.263544e-01 1 7 1 7 1 151318750 160313846 1 151318747 -3 160313841 -5 10 9.996006e-01 1 3 72 0 17 1 -1 -151318751 -1 -160313847 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 145 3 0 175596154 3 1 175636638 deletion 40562 7 0 0 0 26_samples:0 175595871 175596086 216 61 175636648 175636900 253 52 NAALADL2 IGR: 73Kb after NAALADL2(+) NAALADL2 IGR: 113Kb after NAALADL2(+) - 0 0 1.000000e-02 0 3 0 3 1 4.694316e-01 -4.287352e-02 1 7 1 7 1 175596086 175636648 1 175596154 68 175636638 -10 7 9.238462e-01 0 0 75 0 22 1 175596296 210 175636702 54 1 9.438724e-01 0 9 79 0 2 1 11 LUSC-60-2711 149 4 1 108691100 4 1 129578784 long_range 20887731 7 0 0 0 26_samples:0 108691100 108691319 220 49 129578831 129579051 221 59 SGMS2 IGR: 55Kb before SGMS2(+) PHF17 IGR: 152Kb before PHF17(+) - 2.000000e-02 0 0 0 1 0 1 1 -2.136419e-01 3.555860e-01 1 7 1 7 1 108691100 129578831 1 108691100 0 129578784 -47 7 9.720953e-01 1 1 76 0 12 1 -1 -108691101 -1 -129578832 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 150 4 1 105761888 4 1 105771956 inversion 9992 7 0 0 0 26_samples:0 105761971 105762170 200 59 105771963 105772164 202 42 TET2 IGR: 306Kb before TET2(+) TET2 IGR: 296Kb before TET2(+) - 4.000000e-02 0 0 0 2 0 1 0 3.555860e-01 -6.121014e-01 1 7 1 7 1 105761971 105771963 1 105761888 -83 105771956 -7 7 9.984003e-01 1 4 71 0 9 1 -1 -105761972 -1 -105771964 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 151 4 0 73739734 8 0 135082880 inter_chr NaN 7 0 0 0 26_samples:0 73739528 73739737 210 45 135082672 135082859 188 33 COX18 IGR: 181Kb before COX18(-) ZFAT IGR: 407Kb before ZFAT(-) - 5.000000e-02 3.000000e-02 0 0 2 0 2 0 -4.413330e-01 -1.124406e+00 1 7 1 7 1 73739737 135082859 1 73739734 -3 135082880 21 2 9.422862e-01 0 1 76 41 TTATTCCTTTCTCATGGTTCTCATTTTTTACATTCTTCAAC 9 1 73739658 -79 135083069 210 2 9.750658e-01 0 16 117 0 12 1 7.500000e-01 LUSC-60-2711 152 4 0 45454486 22 0 29069523 inter_chr NaN 7 0 0 0 26_samples:0 45454217 45454436 220 50 29069286 29069519 234 48 GABRG1 IGR: 583Kb before GABRG1(-) TTC28 Intron of TTC28(-): 6Kb after exon 1 - 0 3.000000e-02 2.000000e-02 0 1 1 1 0 -1.567191e-01 -2.705647e-01 1 7 1 7 1 45454436 29069519 1 45454486 50 29069523 4 3 1 0 2 78 0 7 1 -1 -45454437 -1 -29069520 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 153 5 0 21741718 5 1 21754411 deletion 12710 7 0 0 0 26_samples:0 21741483 21741717 235 46 21754427 21754680 254 54 CDH12 IGR: 9Kb before CDH12(-) CDH12 Intron of CDH12(-): 1Kb after exon 14 - 2.000000e-02 2.000000e-02 0 0 3 0 2 0 -3.844102e-01 7.097205e-02 1 7 1 7 1 21741717 21754427 1 21741718 1 21754411 -16 10 9.905509e-01 0 5 82 0 18 1 -1 -21741718 -1 -21754428 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 154 10 0 83648693 17 1 38544999 inter_chr NaN 7 0 0 0 26_samples:0 83648403 83648632 230 53 38545013 38545197 185 32 NRG3 Intron of NRG3(+): 11Kb after exon 1 TOP2A 3'-UTR of TOP2A(-): 758bp after coding stop - 0 0 0 0 1 0 3 0 1.404927e-02 -1.181329e+00 1 7 1 7 1 83648632 38545013 1 83648693 61 38544999 -14 6 1 0 3 81 0 10 1 -1 -83648633 -1 -38545014 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 155 10 1 83648741 17 1 38544776 inter_chr NaN 7 0 0 0 26_samples:0 83648741 83648915 175 25 38544776 38544936 161 23 NRG3 Intron of NRG3(+): 11Kb after exon 1 TOP2A IGR: 22bp before TOP2A(-) - 0 0 0 0 1 1 2 0 -1.579789e+00 -1.693634e+00 1 7 1 7 1 83648741 38544776 1 -1 -83648742 -1 -38544777 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -83648742 -1 -38544777 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-60-2711 157 14 1 40803910 14 1 40805511 inversion 1573 7 0 0 0 26_samples:0 40803942 40804193 252 54 40805515 40805737 223 47 FBXO33 IGR: 937Kb before FBXO33(-) FBXO33 IGR: 939Kb before FBXO33(-) - 0 0 0 0 0 1 1 1 7.097205e-02 -3.274875e-01 1 7 1 7 1 40803942 40805515 1 40803910 -32 40805511 -4 8 8.885502e-01 1 0 72 0 12 1 -1 -40803943 -1 -40805516 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 158 15 0 20069784 15 1 20073741 deletion 3957 7 0 0 0 26_samples:0 20069529 20069784 256 62 20073741 20074033 293 63 GOLGA6L6 IGR: 667Kb before GOLGA6L6(-) GOLGA6L6 IGR: 663Kb before GOLGA6L6(-) - 5.000000e-02 6.000000e-02 8.000000e-02 4.000000e-02 1 0 0 2 5.263544e-01 5.832771e-01 1 7 1 7 1 20069784 20073741 1 20069985 201 20073855 114 19 8.644913e-01 0 0 110 1 G 39 1 20069985 201 20073855 114 15 8.420097e-01 0 0 110 1 G 37 0 1.054054e+00 LUSC-60-2711 110 1 0 180448889 1 0 180451369 inversion 2511 9 0 0 0 26_samples:0 180448621 180448865 245 79 180451092 180451376 285 75 ACBD6 Intron of ACBD6(-): 13Kb after exon 3 ACBD6 Intron of ACBD6(-): 10Kb after exon 3 - 0 0 0 0 1 0 0 1 1.663361e+00 1.404425e+00 7.260224e-01 6.534201e+00 1 6.534201e+00 1 180448865 180451376 1 180448889 24 180451369 -7 7 9.456919e-01 0 0 63 11 GATTCAATAAT 17 1 180449066 201 180451511 135 2 7.887521e-01 0 0 75 2 TG 9 1 1.888889e+00 LUSC-60-2711 160 2 1 66632841 2 1 66644306 inversion 11454 6 0 0 0 26_samples:0 66632873 66633078 206 53 66644327 66644552 226 44 MEIS1 IGR: 30Kb before MEIS1(+) MEIS1 IGR: 18Kb before MEIS1(+) - 0 0 0 0 4 1 1 1 1.404927e-02 -4.982558e-01 1 6 1 6 1 66632873 66644327 1 66632841 -32 66644306 -21 4 9.139630e-01 1 1 81 0 11 1 -1 -66632874 -1 -66644328 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 161 2 1 198232999 2 0 198244903 tandem_dup 11834 6 0 0 0 26_samples:0 198233056 198233282 227 67 198244703 198244890 188 51 SF3B1 IGR: 24Kb before SF3B1(-) SF3B1 IGR: 12Kb before SF3B1(-) - 0 0 0 0 1 0 1 0 8.109683e-01 -9.979631e-02 1 6 1 6 1 198233056 198244890 1 198232999 -57 198244903 13 4 8.970777e-01 1 0 61 1 T 9 1 -1 -198233057 -1 -198244891 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 162 2 1 233762818 2 0 233783835 tandem_dup 20989 6 0 0 0 26_samples:0 233762822 233763063 242 54 233783594 233783811 218 44 NGEF Intron of NGEF(-): 3Kb before exon 6 NGEF Intron of NGEF(-): 1Kb after exon 5 Duplication within intron 0 0 0 4.000000e-02 2 0 1 1 7.097205e-02 -4.982558e-01 1 6 1 6 1 233762822 233783811 1 233762818 -4 233783835 24 12 9.760545e-01 1 0 78 0 20 1 -1 -233762823 -1 -233783812 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 168 4 1 107826253 4 0 107827841 tandem_dup 1561 6 0 0 0 26_samples:0 107826259 107826494 236 51 107827557 107827820 264 70 DKK2 IGR: 17Kb before DKK2(-) DKK2 IGR: 15Kb before DKK2(-) - 0 0 0 0 0 0 1 1 -9.979631e-02 9.817367e-01 1 6 1 6 1 107826259 107827820 1 107826253 -6 107827841 21 2 9.782375e-01 1 2 77 1 T 5 1 -1 -107826260 -1 -107827821 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 169 4 1 126443927 4 0 126449155 tandem_dup 5227 6 0 0 0 26_samples:0 126443923 126444176 254 51 126448925 126449150 226 50 MIR2054 IGR: 16Kb before MIR2054(+) MIR2054 IGR: 21Kb before MIR2054(+) - 0 0 0 0 0 1 0 0 -9.979631e-02 -1.567191e-01 1 6 1 6 1 126443923 126449150 1 126443927 4 126449155 5 11 9.288079e-01 1 0 73 0 18 1 126443569 -354 126449460 310 1 8.095905e-01 1 3 81 0 2 1 9 LUSC-60-2711 172 5 0 82879429 5 1 121188730 long_range 38309301 6 0 0 0 26_samples:0 82879164 82879429 266 59 121188730 121188920 191 31 VCAN IGR: 1Kb after VCAN(+) FTMT IGR: 209bp after FTMT(+) - 0 0 0 0 2 0 2 1 3.555860e-01 -1.238252e+00 1 6 1 6 1 82879429 121188730 1 -1 -82879430 -1 -121188731 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -82879430 -1 -121188731 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-60-2711 173 5 0 22798194 23 1 151254181 inter_chr NaN 6 0 0 0 26_samples:0 22797925 22798140 216 49 151254180 151254379 200 37 CDH12 5'-UTR of CDH12(-): 719Kb before coding start MAGEA5 IGR: 28Kb before MAGEA5(-) - 0 0 0 0 2 1 3 0 -2.136419e-01 -8.967153e-01 1 6 1 6 1 22798140 151254180 1 22798194 54 151254181 1 3 9.891273e-01 0 0 62 1 T 7 1 -1 -22798141 -1 -151254181 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 179 11 1 45737181 11 0 45797346 tandem_dup 60095 6 0 0 0 26_samples:0 45737224 45737439 216 48 45797135 45797319 185 32 DKFZp779M0652 IGR: 56Kb before DKFZp779M0652(+) DKFZp779M0652 IGR: 4Kb before DKFZp779M0652(+) - 0 0 0 0 2 0 2 0 -2.705647e-01 -1.181329e+00 1 6 1 6 1 45737224 45797319 1 45737181 -43 45797346 27 8 9.953599e-01 1 1 81 0 11 1 -1 -45737225 -1 -45797320 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 182 16 0 31114716 16 1 31117407 deletion 2726 6 0 0 0 26_samples:0 31114458 31114708 251 73 31117434 31117646 213 48 BCKDK IGR: 5Kb before BCKDK(+) BCKDK Promoter of BCKDK(+): 2Kb from tx start - 0 5.000000e-02 3.000000e-02 5.000000e-02 1 0 1 1 1.152505e+00 -2.705647e-01 9.964656e-01 5.978794e+00 1 5.978794e+00 1 31114708 31117434 1 31114716 8 31117407 -27 6 9.686915e-01 0 0 70 0 13 1 31114886 178 31117083 -351 1 9.268952e-01 0 0 71 9 CTGTATACA 3 1 4.333333e+00 LUSC-60-2711 185 1 0 106896928 1 1 116722152 long_range 9825329 5 0 0 0 26_samples:0 106896649 106896819 171 33 116722148 116722284 137 46 PRMT6 IGR: 702Kb before PRMT6(+) C1orf161 IGR: 44Kb after C1orf161(+) - 0 0 0 0 2 0 1 1 -1.017025e+00 -3.261991e-01 1 5 1 5 1 106896819 116722148 1 106896928 109 116722152 4 13 9.969231e-01 0 2 66 0 18 1 -1 -106896820 -1 -116722149 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 192 2 1 66614288 2 0 66633268 tandem_dup 18936 5 0 0 0 26_samples:0 66614332 66614564 233 52 66633043 66633268 226 52 MEIS1 IGR: 48Kb before MEIS1(+) MEIS1 IGR: 29Kb before MEIS1(+) - 0 0 0 0 1 1 4 1 -7.356459e-03 -7.356459e-03 1 5 1 5 1 66614332 66633268 1 66614288 -44 66633268 0 4 1 1 1 82 0 6 1 -1 -66614333 -1 -66633269 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 197 3 1 174807086 3 1 193269617 long_range 18462502 5 0 0 0 26_samples:0 174807149 174807351 203 41 193269651 193269812 162 24 NAALADL2 Intron of NAALADL2(+): 7Kb before exon 2 ATP13A4 Intron of ATP13A4(-): 3Kb after exon 1 Protein fusion: out of frame (ATP13A4-NAALADL2) 0 0 0 5.000000e-02 3 0 4 1 -5.919012e-01 -1.495289e+00 1 5 1 5 1 174807149 193269651 1 174807086 -63 193269617 -34 6 1 1 1 76 0 16 1 -1 -174807150 -1 -193269652 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 203 3 0 182889695 14 1 29935414 inter_chr NaN 5 0 0 0 26_samples:0 182889567 182889695 129 12 29935414 29935525 112 5 MCF2L2 IGR: 6Kb before MCF2L2(-) PRKD1 IGR: 110Kb before PRKD1(-) - 0 0 0 2.000000e-02 3 2 1 0 -2.132974e+00 -2.504957e+00 1 5 1 5 1 182889695 29935414 1 182889696 1 29935502 88 20 7.860964e-01 0 1 126 0 105 1 182889696 1 29935424 10 8 8.561794e-01 0 1 120 0 30 -1 3.500000e+00 LUSC-60-2711 204 4 0 109991537 4 0 109995175 inversion 3638 5 0 0 0 26_samples:0 109991362 109991537 176 32 109995014 109995175 162 25 COL25A1 Intron of COL25A1(-): 20Kb before exon 4 COL25A1 Intron of COL25A1(-): 24Kb before exon 4 - 0 0 0 0 0 0 1 0 -1.070165e+00 -1.442148e+00 1 5 1 5 1 109991537 109995175 1 109991556 19 109995242 67 1 9.745735e-01 0 0 63 0 8 1 -1 -109991538 -1 -109995176 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2711 209 5 0 36117508 5 1 36143202 deletion 25694 5 0 0 0 26_samples:0 36117320 36117508 189 49 36143202 36143399 198 61 LMBRD2 Intron of LMBRD2(-): 329bp after exon 10 LMBRD2 Intron of LMBRD2(-): 76bp after exon 2 Deletion of 8 exons: in frame 1.000000e-02 0 0 0 1 1 1 0 -1.667778e-01 4.709075e-01 1 5 1 5 1 36117508 36143202 1 36117540 32 36143168 -34 1 8.724648e-01 0 0 73 18 TTCTACACTGTACATGGC 20 1 -1 -36117509 -1 -36143203 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2711 210 5 1 109891619 9 0 4911610 inter_chr NaN 5 0 0 0 26_samples:0 109891619 109891718 100 9 4911449 4911610 162 27 TMEM232 Intron of TMEM232(-): 13Kb after exon 11 MIR101-2 IGR: 61Kb before MIR101-2(+) - 0 0 0 0 3 0 2 0 -2.292395e+00 -1.335867e+00 1 5 1 5 1 109891619 4911610 1 109891597 -22 4911757 147 1 8.272854e-01 1 1 70 1 A 4 1 109891259 -360 4911542 -68 1 8.720478e-01 1 11 73 0 2 0 2 LUSC-60-2711 211 5 1 22799710 23 0 151254378 inter_chr NaN 5 0 0 0 26_samples:0 22799766 22799972 207 45 151254185 151254381 197 39 CDH12 5'-UTR of CDH12(-): 721Kb before coding start MAGEA5 IGR: 28Kb before MAGEA5(-) - 0 0 0 0 1 0 3 0 -3.793395e-01 -6.981821e-01 1 5 1 5 1 22799766 151254381 1 22799710 -56 151254378 -3 4 1 1 0 81 0 8 1 -1 -22799767 -1 -151254382 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 213 6 0 67353499 9 1 130989313 inter_chr NaN 5 0 0 0 26_samples:0 67353234 67353376 143 16 130989317 130989450 134 37 MCART3P IGR: 856Kb before MCART3P(+) DNM1 Intron of DNM1(+): 3Kb after exon 10 - 0 0 2.000000e-02 3.000000e-02 2 0 3 1 -1.920412e+00 -8.044630e-01 1 5 1 5 1 67353376 130989317 1 67353499 123 130989313 -4 7 9.938542e-01 0 0 77 0 10 1 -1 -67353377 -1 -130989318 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 217 10 0 58767544 12 1 3607180 inter_chr NaN 5 0 0 0 26_samples:0 58767379 58767544 166 26 3607180 3607320 141 18 ZWINT IGR: 650Kb before ZWINT(-) PRMT8 Intron of PRMT8(+): 6Kb after exon 1 - 0 0 0 0 2 0 1 0 -1.389008e+00 -1.814131e+00 1 5 1 5 1 58767544 3607180 1 58767540 -4 3607157 -23 1 8.387026e-01 0 0 67 0 6 1 -1 -58767545 -1 -3607181 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2711 222 12 0 54574668 12 1 54586390 deletion 11813 5 0 0 0 26_samples:0 54574409 54574582 174 31 54586395 54586591 197 42 SMUG1 IGR: 670bp before SMUG1(-) SMUG1 IGR: 4Kb after SMUG1(-) - 0 0 0 0 1 0 3 1 -1.123306e+00 -5.387608e-01 1 5 1 5 1 54574582 54586395 1 54574668 86 54586390 -5 14 9.908207e-01 0 4 68 0 22 1 -1 -54574583 -1 -54586396 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 205 4 0 114605049 4 0 130740559 long_range 16135532 5 0 0 0 26_samples:0 114604759 114605028 270 71 130740314 130740560 247 67 CAMK2D Intron of CAMK2D(-): 22Kb before exon 3 C4orf33 IGR: 723Kb before C4orf33(+) - 0 0 0 0 2 0 1 2 1.002312e+00 7.897501e-01 1.000000e+00 5.000000e+00 1 5.000000e+00 1 114605028 130740560 1 114605049 21 130740559 -1 5 1 0 4 78 0 6 1 -1 -114605029 -1 -130740561 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 198 3 0 192313932 3 1 192617772 deletion 303840 5 0 0 0 26_samples:0 192313722 192313932 211 50 192617772 192618007 236 61 FGF12 Intron of FGF12(-): 131Kb after exon 2 C3orf59 Intron of C3orf59(-): 18Kb after exon 1 Protein fusion: in frame (C3orf59-FGF12) 1.000000e-02 0 2.000000e-02 5.000000e-02 4 1 6 2 -1.136373e-01 4.709075e-01 8.888889e-01 4.444444e+00 1 4.444444e+00 1 192313932 192617772 1 192313904 -28 192617774 2 1 9.354690e-01 0 0 66 0 33 1 -1 -192313933 -1 -192617773 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2711 176 7 0 674777 23 0 43636476 inter_chr NaN 6 0 0 0 26_samples:0 674586 674753 168 23 43636245 43636422 178 27 PRKAR1B Intron of PRKAR1B(-): 28Kb before exon 5 MAOB Intron of MAOB(-): 2Kb after exon 11 - 0 0 1.900000e-01 2.200000e-01 7 0 4 3 -1.693634e+00 -1.465943e+00 7.032967e-01 4.219780e+00 1 4.219780e+00 1 674753 43636422 1 674777 24 43636476 54 2 9.130434e-01 0 0 72 1 G 3 1 -1 -674754 -1 -43636423 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 231 1 1 102569339 6 1 87070461 inter_chr NaN 4 0 0 0 26_samples:0 102569351 102569581 231 53 87070518 87070697 180 33 HEJ1 IGR: 232Kb before HEJ1(+) HTR1E IGR: 577Kb before HTR1E(+) - 0 0 0 0 2 0 1 0 8.262633e-02 -8.540592e-01 1 4 1 4 1 102569351 87070518 1 102569339 -12 87070461 -57 5 9.303903e-01 1 1 72 0 7 1 -1 -102569352 -1 -87070519 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 260 4 0 105765630 4 0 105767727 inversion 2090 4 0 0 0 26_samples:0 105765384 105765607 224 53 105767496 105767697 202 45 TET2 IGR: 302Kb before TET2(+) TET2 IGR: 300Kb before TET2(+) - 0 0 0 0 1 1 1 2 8.262633e-02 -2.920479e-01 1 4 1 4 1 105765607 105767697 1 105765630 23 105767727 30 2 9.891320e-01 0 0 81 1 C 4 1 -1 -105765608 -1 -105767698 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 261 4 0 113912227 4 0 113919612 inversion 7380 4 0 0 0 26_samples:0 113912027 113912187 161 30 113919405 113919567 163 30 ANK2 Intron of ANK2(+): 87Kb after exon 2 ANK2 Intron of ANK2(+): 94Kb after exon 2 Antisense fusion 3.000000e-02 3.000000e-02 0 0 2 0 1 0 -9.945621e-01 -9.945621e-01 1 4 1 4 1 113912187 113919567 1 113912227 40 113919612 45 2 9.353022e-01 0 0 76 0 7 1 -1 -113912188 -1 -113919568 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 262 4 1 114261203 4 1 129710154 long_range 15448967 4 0 0 0 26_samples:0 114261201 114261427 227 60 129710168 129710389 222 60 ANK2 Intron of ANK2(+): 723bp after exon 32 PHF17 IGR: 21Kb before PHF17(+) - 0 0 7.000000e-02 1.200000e-01 1 0 2 3 4.104663e-01 4.104663e-01 1 4 1 4 1 114261201 129710168 1 114261203 2 129710154 -14 3 9.965025e-01 1 1 76 0 5 1 -1 -114261202 -1 -129710169 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2711 267 4 1 45454517 22 0 29069749 inter_chr NaN 4 0 0 0 26_samples:0 45454517 45454693 177 31 29069570 29069749 180 35 GABRG1 IGR: 583Kb before GABRG1(-) TTC28 Intron of TTC28(-): 6Kb after exon 1 - 0 0 0 0 4 0 1 1 -9.477278e-01 -7.603907e-01 1 4 1 4 1 45454517 29069749 1 45454196 -321 29069747 -2 1 9.569780e-01 1 0 64 0 6 1 -1 -45454518 -1 -29069750 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2711 279 6 0 67354459 9 0 130989468 inter_chr NaN 4 0 0 0 26_samples:0 67354181 67354361 181 33 130989312 130989441 130 19 MCART3P IGR: 857Kb before MCART3P(+) DNM1 Intron of DNM1(+): 3Kb after exon 10 - 0 0 5.000000e-02 3.000000e-02 2 0 3 1 -8.540592e-01 -1.509739e+00 1 4 1 4 1 67354361 130989441 1 67354459 98 130989468 27 10 9.840167e-01 0 3 56 0 19 1 -1 -67354362 -1 -130989442 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 1 1 1 36897838 3 1 181422767 inter_chr NaN 185 0 0 0 26_samples:0 36897835 36898406 572 89 181422761 181423236 476 61 OSCP1 Intron of OSCP1(-): 188bp after exon 3 SOX2OT 5'-UTR of SOX2OT(+): 36Kb before coding start Transcript fusion (OSCP1-SOX2OT) 0 0 0 0 3 0 4 0 1.862792e+00 -5.025758e-02 6.089126e-01 1.126488e+02 1 1.126488e+02 1 36897835 181422761 1 36897838 3 181422767 6 20 9.833026e-01 1 2 75 0 268 1 -1 -36897836 -1 -181422762 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 3 1 1 37879169 3 1 182981734 inter_chr NaN 63 0 0 0 26_samples:0 37879162 37879650 489 80 182981731 182982056 326 59 ZC3H12A IGR: 61Kb before ZC3H12A(+) MCF2L2 Intron of MCF2L2(-): 13Kb after exon 15 - 0 2.000000e-02 0 0 7 3 5 0 1.247883e+00 -1.869040e-01 8.424056e-01 5.307155e+01 1 5.307155e+01 1 37879162 182981731 1 37879169 7 182981734 3 20 9.956571e-01 1 3 71 0 96 1 37878952 -210 182981755 24 1 7.563168e-01 1 10 74 0 3 1 32 LUSC-60-2713 5 3 1 183251627 3 0 183302755 tandem_dup 51141 38 0 0 0 26_samples:0 183251620 183251890 271 63 183302424 183302761 338 62 KLHL6 Intron of KLHL6(-): 6Kb before exon 2 KLHL24 IGR: 51Kb before KLHL24(+) - 0 0 0 0 4 0 3 1 8.638884e-02 1.806563e-02 1 38 1 38 1 183251620 183302761 1 183251627 7 183302755 -6 20 9.929085e-01 1 5 62 0 64 1 -1 -183251621 -1 -183302762 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 6 2 0 206734916 3 0 183729452 inter_chr NaN 34 0 0 0 26_samples:0 206734637 206734921 285 54 183729138 183729455 318 59 INO80D IGR: 124Kb before INO80D(-) ABCC5 Intron of ABCC5(-): 3Kb after exon 2 - 0 0 0 0 3 0 4 0 -5.285201e-01 -1.869040e-01 1 34 1 34 1 206734921 183729455 1 206734916 -5 183729452 -3 20 9.805426e-01 0 1 73 0 45 1 -1 -206734922 -1 -183729456 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 11 3 0 71351943 3 1 71615335 deletion 263388 27 0 0 0 26_samples:0 71351669 71351945 277 60 71615333 71615624 292 56 FOXP1 5'-UTR of FOXP1(-): 104Kb before coding start FOXP1 5'-UTR of FOXP1(-): 368Kb before coding start Deletion within transcript 4.000000e-02 0 0 0 3 1 1 1 -7.556882e-02 -3.177237e-01 1 27 1 27 1 71351945 71615333 1 71351943 -2 71615335 2 20 9.899643e-01 0 1 77 0 23 1 71352030 85 71615130 -203 5 8.092279e-01 0 3 74 0 5 1 4.600000e+00 LUSC-60-2713 12 1 0 37159556 1 1 40163083 long_range 3003525 26 0 0 0 26_samples:0 37159208 37159554 347 81 40163079 40163369 291 71 GRIK3 IGR: 102Kb before GRIK3(-) HPCAL4 IGR: 6Kb after HPCAL4(-) - 0 0 0 0 5 0 3 0 1.195744e+00 5.903570e-01 9.856339e-01 2.562648e+01 1 2.562648e+01 1 37159554 40163079 1 37159556 2 40163083 4 20 9.866189e-01 0 3 77 0 69 1 -1 -37159555 -1 -40163080 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 8 7 0 70090167 7 1 70178094 deletion 87923 32 0 0 0 26_samples:0 70089793 70090169 377 86 70178092 70178415 324 69 AUTS2 Intron of AUTS2(+): 73Kb before exon 6 AUTS2 Intron of AUTS2(+): 14Kb after exon 6 Deletion of 1 exon: out of frame 0 0 0 0 1 0 3 0 1.657823e+00 4.963281e-01 7.784160e-01 2.490931e+01 1 2.490931e+01 1 70090169 70178092 1 70090167 -2 70178094 2 20 9.679730e-01 0 3 71 0 32 1 -1 -70090170 -1 -70178093 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 15 16 0 89423996 16 1 89485819 deletion 61828 23 0 0 0 26_samples:0 89423660 89424000 341 75 89485828 89486097 270 59 ANKRD11 5'-UTR of ANKRD11(-): 41Kb before coding start ANKRD11 5'-UTR of ANKRD11(-): 102Kb before coding start Deletion within transcript 0 0 0 0 2 0 3 0 8.325119e-01 -1.361075e-01 1 23 1 23 1 89424000 89485828 1 89423996 -4 89485819 -9 10 9.961789e-01 0 3 78 0 24 1 -1 -89424001 -1 -89485829 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 17 24 1 16560358 24 1 16562944 inversion 2593 22 0 0 0 26_samples:0 16560351 16560651 301 57 16562944 16563206 263 53 NLGN4Y IGR: 74Kb before NLGN4Y(+) NLGN4Y IGR: 72Kb before NLGN4Y(+) - 0 0 0 0 1 2 2 1 -2.571850e-01 -4.993398e-01 1 22 1 22 1 16560351 16562944 1 16560358 7 16562944 0 19 9.950945e-01 1 4 81 0 27 1 -1 -16560352 -1 -16562945 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 20 4 0 138425865 8 0 50608862 inter_chr NaN 21 0 0 0 26_samples:0 138425604 138425871 268 59 50608568 50608862 295 64 PCDH18 IGR: 14Kb before PCDH18(-) SNTG1 IGR: 216Kb before SNTG1(+) - 0 0 0 0 1 2 2 1 -1.361075e-01 1.665860e-01 1 21 1 21 1 138425871 50608862 1 138425865 -6 50608862 0 20 9.968723e-01 0 2 71 0 24 1 -1 -138425872 -1 -50608863 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 16 13 0 30978826 13 1 30979756 deletion 932 22 0 0 0 26_samples:0 30978533 30978832 300 67 30979764 30980113 350 84 HMGB1 IGR: 54Kb before HMGB1(-) HMGB1 IGR: 53Kb before HMGB1(-) - 0 0 0 0 0 0 1 0 3.482022e-01 1.377360e+00 9.490039e-01 2.087809e+01 1 2.087809e+01 1 30978832 30979764 1 30978826 -6 30979756 -8 18 9.909027e-01 0 0 76 0 27 1 -1 -30978833 -1 -30979765 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 23 4 1 43968914 10 1 52192730 inter_chr NaN 20 0 0 0 26_samples:0 43968910 43969176 267 61 52192752 52193023 272 53 KCTD8 IGR: 207Kb before KCTD8(-) SGMS1 5'-UTR of SGMS1(-): 89Kb before coding start - 3.000000e-02 2.000000e-02 0 0 3 2 3 3 -1.503010e-02 -4.993398e-01 1 20 1 20 1 43968910 52192752 1 43968914 4 52192730 -22 9 9.929018e-01 1 0 63 0 13 1 -1 -43968911 -1 -52192753 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 26 18 0 20901909 18 1 20912216 deletion 10299 20 0 0 0 26_samples:0 20901633 20901913 281 55 20912212 20912473 262 55 C18orf45 Intron of C18orf45(-): 12Kb before exon 14 C18orf45 Intron of C18orf45(-): 20Kb after exon 13 Deletion within intron 0 0 0 0 3 2 2 0 -3.782624e-01 -3.782624e-01 1 20 1 20 1 20901913 20912212 1 20901909 -4 20912216 4 10 9.951459e-01 0 2 76 0 21 1 20901875 -38 20912011 -201 3 7.998449e-01 0 0 87 1 G 5 1 4.200000e+00 LUSC-60-2713 28 2 0 47707884 2 1 47788820 deletion 80941 19 0 0 0 26_samples:0 47707610 47707878 269 55 47788819 47789101 283 60 MSH2 Exon 15 of MSH2(+) KCNK12 Intron of KCNK12(-): 8Kb after exon 1 Antisense fusion 0 0 0 0 2 0 1 0 -3.207289e-01 -4.338280e-02 1 19 1 19 1 47707878 47788819 1 47707884 6 47788820 1 14 1 0 3 68 0 18 1 -1 -47707879 -1 -47788820 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 29 3 0 181848187 3 0 182982406 long_range 1134233 19 0 0 0 26_samples:0 181847790 181848179 390 78 182982133 182982412 280 68 SOX2 IGR: 418Kb before SOX2(+) MCF2L2 Intron of MCF2L2(-): 12Kb after exon 15 - 0 0 0 0 5 1 4 2 9.550633e-01 4.003710e-01 9.846154e-01 1.870769e+01 1 1.870769e+01 1 181848179 182982412 1 181848187 8 182982406 -6 18 9.689430e-01 0 3 73 0 57 1 -1 -181848180 -1 -182982413 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 27 1 1 38738036 3 0 182011642 inter_chr NaN 19 0 0 0 26_samples:0 38738036 38738327 292 73 182011334 182011643 310 79 POU3F1 IGR: 229Kb before POU3F1(-) ATP11B IGR: 500Kb before ATP11B(+) - 0 2.000000e-02 0 0 5 0 3 0 6.777171e-01 1.010533e+00 9.846142e-01 1.870767e+01 1 1.870767e+01 1 38738036 182011643 1 38738036 0 182011642 -1 17 9.801487e-01 1 1 70 0 25 1 -1 -38738037 -1 -182011644 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 30 3 1 156652754 8 0 34441996 inter_chr NaN 18 0 0 0 26_samples:0 156652758 156653060 303 59 34441684 34442003 320 62 LEKR1 Intron of LEKR1(+): 7Kb after exon 5 UNC5D IGR: 651Kb before UNC5D(+) - 0 0 0 0 2 0 2 0 -9.885203e-02 6.755565e-02 1 18 1 18 1 156652758 34442003 1 156652754 -4 34441996 -7 15 9.892891e-01 1 3 80 0 16 1 -1 -156652759 -1 -34442004 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 35 1 0 50716827 1 1 50989291 deletion 272475 17 0 0 0 26_samples:0 50716568 50716834 267 44 50989309 50989597 289 48 ELAVL4 IGR: 49Kb after ELAVL4(+) FAF1 Intron of FAF1(-): 12Kb after exon 15 - 0 0 2.000000e-02 2.000000e-02 1 0 3 3 -9.308904e-01 -7.090135e-01 1 17 1 17 1 50716834 50989309 1 50716827 -7 50989291 -18 10 9.995866e-01 0 6 70 0 15 1 -1 -50716835 -1 -50989310 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 36 1 1 30998201 21 0 35117786 inter_chr NaN 17 0 0 0 26_samples:0 30998199 30998499 301 76 35117506 35117787 282 65 MATN1 IGR: 186Kb before MATN1(-) ITSN1 Intron of ITSN1(+): 5Kb before exon 6 - 0 0 0 0 2 1 2 1 8.441248e-01 2.339633e-01 1 17 1 17 1 30998199 35117787 1 30998201 2 35117786 -1 18 9.959726e-01 1 0 67 0 25 1 -1 -30998200 -1 -35117788 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 37 2 1 106190163 10 1 51564973 inter_chr NaN 17 0 0 0 26_samples:0 106190158 106190422 265 53 51564971 51565291 321 67 NCK2 IGR: 171Kb before NCK2(+) NCOA4 Promoter of NCOA4(+): 137bp from tx start - 0 0 0 0 2 0 1 0 -4.316674e-01 3.449018e-01 1 17 1 17 1 106190158 51564971 1 106190163 5 51564973 2 13 9.978959e-01 1 2 65 0 17 1 -1 -106190159 -1 -51564972 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 38 3 1 100440077 13 1 111256925 inter_chr NaN 17 0 0 0 26_samples:0 100440077 100440408 332 69 111256931 111257215 285 52 TFG Intron of TFG(+): 1Kb after exon 3 CARKD IGR: 11Kb before CARKD(+) - 0 0 0 7.000000e-02 2 0 2 0 4.558402e-01 -4.871366e-01 1 17 1 17 1 100440077 111256931 1 100440077 0 111256925 -6 12 9.837562e-01 1 3 76 0 17 1 -1 -100440078 -1 -111256932 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 39 6 1 79990663 7 1 47173084 inter_chr NaN 17 0 0 0 26_samples:0 79990666 79990858 193 34 47173127 47173391 265 54 HMGN3 IGR: 46Kb after HMGN3(-) TNS3 IGR: 142Kb before TNS3(-) - 2.000000e-02 0 0 0 4 0 1 0 -1.485583e+00 -3.761982e-01 1 17 1 17 1 79990666 47173127 1 79990663 -3 47173084 -43 5 9.725749e-01 1 1 74 0 18 1 -1 -79990667 -1 -47173128 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 40 23 0 18692278 23 1 18693427 deletion 1157 17 0 0 0 26_samples:0 18692000 18692276 277 57 18693433 18693747 315 74 RS1 Promoter of RS1(-): 2Kb from tx start RS1 IGR: 3Kb after RS1(-) - 2.300000e-01 8.000000e-02 0 0 2 0 1 0 -2.097905e-01 7.331864e-01 1 17 1 17 1 18692276 18693433 1 18692278 2 18693427 -6 7 9.793266e-01 0 4 60 0 10 1 -1 -18692277 -1 -18693434 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 4 3 0 182902807 3 1 182904103 deletion 1328 39 0 0 0 26_samples:0 182902519 182902776 258 38 182904104 182904392 289 52 MCF2L2 Intron of MCF2L2(-): 5Kb before exon 28 MCF2L2 Intron of MCF2L2(-): 6Kb before exon 28 Deletion within intron 1.000000e-02 2.000000e-02 2.000000e-02 1.000000e-01 9 2 5 0 -1.621691e+00 -6.651665e-01 4.324916e-01 1.686717e+01 1 1.686717e+01 1 182902776 182904104 1 182902807 31 182904103 -1 20 9.306965e-01 0 0 72 0 49 1 -1 -182902777 -1 -182904105 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 43 1 1 38766355 3 1 182003149 inter_chr NaN 16 0 0 0 26_samples:0 38766375 38766641 267 50 182003142 182003383 242 48 POU3F1 IGR: 257Kb before POU3F1(-) ATP11B IGR: 508Kb before ATP11B(+) - 0 0 0 0 4 1 3 0 -5.980751e-01 -7.090135e-01 1 16 1 16 1 38766375 182003142 1 38766355 -20 182003149 7 15 9.687683e-01 1 1 71 0 37 1 38766321 -54 182002941 -201 2 7.964445e-01 1 0 67 16 TCCCTGCCACCATGGG 7 1 5.285714e+00 LUSC-60-2713 44 2 0 129147809 2 0 129670686 inversion 522890 16 0 0 0 26_samples:0 129147456 129147798 343 74 129670410 129670688 279 60 HS6ST1 IGR: 125Kb before HS6ST1(-) HS6ST1 IGR: 648Kb before HS6ST1(-) - 0 0 0 0 1 1 1 1 7.331864e-01 -4.338280e-02 1 16 1 16 1 129147798 129670688 1 129147809 11 129670686 -2 11 1.000001e+00 0 3 63 0 17 1 -1 -129147799 -1 -129670689 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 48 9 0 77343231 9 1 77344458 deletion 1243 16 0 0 0 26_samples:0 77342854 77343215 362 75 77344458 77344700 243 52 TRPM6 Exon 38 of TRPM6(-) TRPM6 Intron of TRPM6(-): 1Kb before exon 38 Deletion within transcript: mid-exon 0 0 0 0 1 0 1 0 7.886556e-01 -4.871366e-01 1 16 1 16 1 77343215 77344458 1 77343231 16 77344458 0 14 9.899055e-01 0 0 72 0 17 1 -1 -77343216 -1 -77344459 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 49 10 0 89433934 10 1 89694978 deletion 261061 16 0 0 0 26_samples:0 89433669 89433944 276 56 89695005 89695348 344 65 PAPSS2 Intron of PAPSS2(+): 14Kb after exon 1 PTEN Intron of PTEN(+): 2Kb after exon 5 Protein fusion: in frame (PAPSS2-PTEN) 0 0 0 0 2 0 2 1 -2.652597e-01 2.339633e-01 1 16 1 16 1 89433944 89695005 1 89433934 -10 89694978 -27 20 9.961401e-01 0 4 68 0 22 1 89433936 -8 89694802 -203 1 8.130770e-01 0 3 75 0 6 1 3.666667e+00 LUSC-60-2713 50 13 0 50643771 13 1 50646131 deletion 2396 16 0 0 0 26_samples:0 50643479 50643742 264 54 50646138 50646398 261 54 DLEU2 3'-UTR of DLEU2(-): 56Kb after coding stop DLEU2 3'-UTR of DLEU2(-): 54Kb after coding stop - 0 0 0 0 1 0 0 1 -3.761982e-01 -3.761982e-01 1 16 1 16 1 50643742 50646138 1 50643771 29 50646131 -7 6 9.526486e-01 0 0 78 0 15 1 -1 -50643743 -1 -50646139 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 51 17 0 29253645 17 1 29484442 deletion 230815 16 0 0 0 26_samples:0 29253340 29253628 289 75 29484443 29484744 302 67 ADAP2 Intron of ADAP2(+): 217bp before exon 3 NF1 Intron of NF1(+): 1Kb after exon 2 Protein fusion: in frame (ADAP2-NF1) 0 0 5.000000e-02 0 2 1 2 2 7.886556e-01 3.449018e-01 1 16 1 16 1 29253628 29484443 1 29253645 17 29484442 -1 20 9.938277e-01 0 0 62 0 25 1 -1 -29253629 -1 -29484444 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 18 1 1 175309056 3 1 183921677 inter_chr NaN 21 0 0 0 26_samples:0 175309050 175309483 434 89 183921680 183921991 312 74 TNR Intron of TNR(-): 2Kb before exon 19 ABCF3 IGR: 18Kb before ABCF3(+) - 0 0 1.000000e-02 0 2 1 4 0 1.680054e+00 7.719732e-01 7.607416e-01 1.597557e+01 1 1.597557e+01 1 175309050 183921680 1 175309056 6 183921677 -3 20 9.957276e-01 1 2 73 0 39 1 -1 -175309051 -1 -183921681 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 46 3 1 182525161 3 1 182530450 inversion 5288 16 0 0 0 26_samples:0 182525161 182525506 346 81 182530449 182530751 303 78 ATP11B Intron of ATP11B(+): 13Kb before exon 2 ATP11B Intron of ATP11B(+): 8Kb before exon 2 - 0 0 0 0 4 0 4 2 1.121471e+00 9.550633e-01 9.982109e-01 1.597137e+01 1 1.597137e+01 1 182525161 182530449 1 182525161 0 182530450 1 8 9.355308e-01 1 0 67 1 A 21 1 -1 -182525162 -1 -182530450 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 7 1 1 39301969 1 1 39353661 inversion 51691 33 0 0 0 26_samples:0 39301967 39302276 310 67 39353658 39353954 297 64 RRAGC IGR: 3Kb before RRAGC(-) RHBDL2 Exon 7 of RHBDL2(-) - 1.000000e-02 8.000000e-02 0 0 8 5 7 2 3.596817e-01 1.547120e-01 4.651094e-01 1.534861e+01 1 1.534861e+01 1 39301967 39353658 1 39301969 2 39353661 3 20 9.579165e-01 1 2 74 0 57 1 -1 -39301968 -1 -39353659 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 32 19 0 2069815 19 1 2214057 deletion 144250 18 0 0 0 26_samples:0 2069515 2069821 307 88 2214071 2214392 322 85 MOBKL2A IGR: 1Kb before MOBKL2A(-) DOT1L Intron of DOT1L(+): 86bp after exon 18 - 4.000000e-02 2.000000e-02 0 0 3 1 2 0 1.509756e+00 1.343348e+00 8.486815e-01 1.527627e+01 1 1.527627e+01 1 2069821 2214071 1 2069815 -6 2214057 -14 11 9.382575e-01 0 2 76 0 15 1 -1 -2069822 -1 -2214072 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 55 9 1 15686746 9 0 15712713 tandem_dup 25928 15 0 0 0 26_samples:0 15686743 15686974 232 56 15712385 15712671 287 53 C9orf93 Intron of C9orf93(+): 8Kb after exon 10 C9orf93 Intron of C9orf93(+): 9Kb before exon 12 Duplication of 1 exon: out of frame 0 0 0 0 3 1 1 0 -2.652597e-01 -4.316674e-01 1 15 1 15 1 15686743 15712671 1 15686746 3 15712713 42 14 9.736749e-01 1 3 69 0 17 1 -1 -15686744 -1 -15712672 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 56 19 1 35051057 19 0 35075567 tandem_dup 24517 15 0 0 0 26_samples:0 35051055 35051364 310 72 35075261 35075572 312 70 LOC643719 IGR: 17Kb before LOC643719(-) LOC643719 IGR: 8Kb before LOC643719(-) - 2.000000e-02 0 0 0 2 0 1 0 6.222479e-01 5.113095e-01 1 15 1 15 1 35051055 35075572 1 35051057 2 35075567 -5 20 9.954360e-01 1 3 79 0 35 1 -1 -35051056 -1 -35075573 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 54 1 1 60362149 20 0 37486268 inter_chr NaN 15 0 0 0 26_samples:0 60362151 60362464 314 79 37486005 37486267 263 67 CYP2J2 Intron of CYP2J2(-): 3Kb before exon 9 PPP1R16B Intron of PPP1R16B(+): 21Kb after exon 2 Antisense fusion 0 0 0 0 2 0 1 0 1.010533e+00 3.449018e-01 9.999988e-01 1.499998e+01 1 1.499998e+01 1 60362151 37486267 1 60362149 -2 37486268 1 14 1 1 2 76 0 29 1 60362269 118 37486469 202 1 7.635664e-01 1 1 77 1 G 6 1 4.833333e+00 LUSC-60-2713 25 12 0 98937352 12 1 98961534 deletion 24186 20 0 0 0 26_samples:0 98936882 98937348 467 90 98961534 98961780 247 61 TMPO Intron of TMPO(+): 660bp before exon 5 SLC25A3 IGR: 26Kb before SLC25A3(+) - 0 0 2.000000e-02 2.000000e-02 2 1 2 0 1.740593e+00 -1.503010e-02 7.111373e-01 1.422275e+01 1 1.422275e+01 1 98937348 98961534 1 98937352 4 98961534 0 11 9.650604e-01 0 0 61 2 CA 25 1 -1 -98937349 -1 -98961535 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 58 7 0 154105178 21 1 24902057 inter_chr NaN 14 0 0 0 26_samples:0 154104893 154105166 274 59 24902054 24902339 286 58 DPP6 Intron of DPP6(+): 38Kb before exon 2 NCRNA00158 IGR: 2Mb before NCRNA00158(-) - 0 0 0 0 2 1 2 0 -7.260007e-02 -1.243945e-01 1 14 1 14 1 154105166 24902054 1 154105178 12 24902057 3 6 9.603697e-01 0 0 71 0 8 1 -1 -154105167 -1 -24902055 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 59 9 0 114885222 9 1 116337128 long_range 1451916 14 0 0 0 26_samples:0 114884932 114885221 290 71 116337137 116337402 266 65 SUSD1 Intron of SUSD1(-): 1Kb after exon 6 RGS3 Intron of RGS3(+): 9Kb before exon 21 - 2.000000e-02 0 0 0 3 1 1 0 5.489332e-01 2.381665e-01 1 14 1 14 1 114885221 116337137 1 114885222 1 116337128 -9 9 9.808380e-01 0 0 65 0 16 1 -1 -114885222 -1 -116337138 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 60 10 1 31514179 14 1 60867289 inter_chr NaN 14 0 0 0 26_samples:0 31514182 31514450 269 54 60867288 60867575 288 54 LOC220930 IGR: 91Kb before LOC220930(-) C14orf39 IGR: 35Kb before C14orf39(-) - 0 0 6.000000e-02 0 3 0 1 0 -3.315722e-01 -3.315722e-01 1 14 1 14 1 31514182 60867288 1 31514179 -3 60867289 1 5 9.879961e-01 1 5 73 0 12 1 -1 -31514183 -1 -60867289 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 61 13 1 69036031 13 0 69505305 tandem_dup 469276 14 0 0 0 26_samples:0 69036037 69036364 328 72 69505051 69505313 263 56 KLHL1 IGR: 1Mb before KLHL1(-) KLHL1 IGR: 769Kb before KLHL1(-) - 0 0 6.000000e-02 6.000000e-02 3 0 4 2 6.007276e-01 -2.279834e-01 1 14 1 14 1 69036037 69505313 1 69036031 -6 69505305 -8 14 9.752454e-01 1 2 71 0 19 1 -1 -69036038 -1 -69505314 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 52 1 1 39329357 1 1 40168193 inversion 838836 15 0 0 0 26_samples:0 39329355 39329632 278 64 40168191 40168525 335 88 MYCBP 3'-UTR of MYCBP(-): 987bp after coding stop HPCAL4 IGR: 24Kb before HPCAL4(-) - 0 0 0 0 4 0 5 1 1.784941e-01 1.509756e+00 8.694480e-01 1.304172e+01 1 1.304172e+01 1 39329355 40168191 1 39329357 2 40168193 2 14 9.992291e-01 1 0 76 0 32 1 39329274 -81 40167999 -192 1 9.094175e-01 1 0 80 0 5 1 6.400000e+00 LUSC-60-2713 65 6 1 80862403 10 1 31515329 inter_chr NaN 13 0 0 0 26_samples:0 80862408 80862681 274 71 31515341 31515578 238 55 BCKDHB Intron of BCKDHB(+): 15Kb before exon 4 LOC220930 IGR: 90Kb before LOC220930(-) - 0 0 0 0 1 0 3 0 5.489332e-01 -2.797778e-01 1 13 1 13 1 80862408 31515341 1 80862403 -5 31515329 -12 15 9.880325e-01 1 2 77 0 18 1 -1 -80862409 -1 -31515342 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 42 1 1 39024007 1 1 39028528 inversion 4530 16 0 0 0 26_samples:0 39024007 39024364 358 90 39028537 39028851 315 81 RRAGC IGR: 281Kb before RRAGC(-) RRAGC IGR: 276Kb before RRAGC(-) - 0 0 0 0 2 1 4 1 1.620694e+00 1.121471e+00 8.055745e-01 1.288919e+01 1 1.288919e+01 1 39024007 39028537 1 39024007 0 39028528 -9 14 9.259048e-01 1 3 75 0 41 1 -1 -39024008 -1 -39028538 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 41 1 1 37161075 1 0 39338410 long_range 2177344 16 0 0 0 26_samples:0 37161072 37161416 345 91 39338121 39338416 296 76 GRIK3 IGR: 100Kb before GRIK3(-) MYCBP Intron of MYCBP(-): 274bp after exon 2 - 0 0 0 0 3 0 2 1 1.676163e+00 8.441248e-01 7.638605e-01 1.222177e+01 1 1.222177e+01 1 37161072 39338416 1 37161075 3 39338410 -6 12 9.953061e-01 1 0 80 0 68 1 -1 -37161073 -1 -39338417 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 67 1 0 175709074 1 1 175852796 deletion 143721 12 0 0 0 26_samples:0 175708816 175709072 257 49 175852793 175853031 239 68 TNR 5'-UTR of TNR(-): 333Kb before coding start RFWD2 IGR: 61Kb before RFWD2(-) - 0 0 0 0 2 1 1 0 -5.905444e-01 3.935499e-01 1 12 1 12 1 175709072 175852793 1 175709074 2 175852796 3 8 1 0 2 69 0 14 1 -1 -175709073 -1 -175852794 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 69 1 0 37315615 24 0 16970624 inter_chr NaN 12 0 0 0 26_samples:0 37315388 37315619 232 46 16970341 16970611 271 58 GRIK3 Intron of GRIK3(-): 293bp after exon 9 NLGN4Y IGR: 15Kb after NLGN4Y(+) - 1.000000e-02 0 0 0 2 1 1 0 -7.459277e-01 -1.243945e-01 1 12 1 12 1 37315619 16970611 1 37315615 -4 16970624 13 13 9.989922e-01 0 3 60 0 38 1 -1 -37315620 -1 -16970612 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 72 13 1 69199376 18 0 60260369 inter_chr NaN 12 0 0 0 26_samples:0 69199395 69199635 241 59 60260031 60260341 311 59 KLHL1 IGR: 1Mb before KLHL1(-) ZCCHC2 IGR: 15Kb after ZCCHC2(+) - 0 0 0 0 1 1 2 1 -7.260007e-02 -7.260007e-02 1 12 1 12 1 69199395 60260341 1 69199376 -19 60260369 28 12 9.830810e-01 1 1 69 0 15 1 69199268 -127 60260543 202 1 7.515638e-01 1 1 88 0 11 1 1.363636e+00 LUSC-60-2713 73 19 0 21112603 19 1 21119402 deletion 6802 12 0 0 0 26_samples:0 21112336 21112607 272 61 21119409 21119659 251 61 ZNF85 Intron of ZNF85(+): 4Kb before exon 2 ZNF85 Intron of ZNF85(+): 2Kb after exon 3 Deletion of 2 exons: out of frame 3.000000e-02 0 1.000000e-02 0 1 0 1 0 3.098880e-02 3.098880e-02 1 12 1 12 1 21112607 21119409 1 21112603 -4 21119402 -7 14 9.768594e-01 0 2 69 0 16 1 -1 -21112608 -1 -21119410 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 74 20 0 40232220 20 1 40233538 deletion 1320 12 0 0 0 26_samples:0 40231926 40232212 287 57 40233532 40233830 299 65 CHD6 5'-UTR of CHD6(-): 52Kb before coding start CHD6 5'-UTR of CHD6(-): 54Kb before coding start Deletion within transcript 0 2.000000e-02 0 0 2 1 1 1 -1.761889e-01 2.381665e-01 1 12 1 12 1 40232212 40233532 1 40232220 8 40233538 6 11 9.874423e-01 0 2 70 0 16 1 -1 -40232213 -1 -40233533 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 75 21 0 30633539 21 0 30635864 inversion 2335 12 0 0 0 26_samples:0 30633247 30633535 289 68 30635577 30635870 294 70 NCRNA00189 5'-UTR of NCRNA00189(+): 27Kb before coding start NCRNA00189 5'-UTR of NCRNA00189(+): 25Kb before coding start Antisense fusion 0 0 0 2.000000e-02 0 0 0 0 3.935499e-01 4.971387e-01 1 12 1 12 1 30633535 30635870 1 30633539 4 30635864 -6 8 9.971995e-01 0 2 75 0 18 1 -1 -30633536 -1 -30635871 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 33 1 0 37162712 1 0 38767310 long_range 1604594 17 0 0 0 26_samples:0 37162392 37162721 330 78 38766969 38767315 347 73 GRIK3 IGR: 98Kb before GRIK3(-) POU3F1 IGR: 258Kb before POU3F1(-) - 1.000000e-02 3.000000e-02 0 0 7 1 4 1 9.550633e-01 6.777171e-01 7.032967e-01 1.195604e+01 1 1.195604e+01 1 37162721 38767315 1 37162712 -9 38767310 -5 20 9.710221e-01 0 2 77 0 68 1 37162877 156 38767518 203 7 8.082398e-01 0 4 125 0 29 1 2.344828e+00 LUSC-60-2713 76 23 0 1798059 23 0 1811115 inversion 13056 12 0 0 0 26_samples:0 1797739 1798059 321 77 1810781 1811115 335 74 ASMT IGR: 36Kb after ASMT(+) ASMT IGR: 49Kb after ASMT(+) - 6.000000e-02 0 5.000000e-02 3.000000e-02 3 1 5 1 8.596998e-01 7.043165e-01 9.846154e-01 1.181538e+01 1 1.181538e+01 1 1798059 1811115 1 1798119 60 1811318 203 1 7.797817e-01 0 2 72 0 12 1 1798152 93 1810987 -128 2 7.950365e-01 0 0 98 0 23 0 5.217391e-01 LUSC-60-2713 70 4 1 132183556 4 1 132186823 inversion 3265 12 0 0 0 26_samples:0 132183552 132183958 407 86 132186817 132187098 282 82 PCDH10 IGR: 2Mb before PCDH10(+) PCDH10 IGR: 2Mb before PCDH10(+) - 0 0 0 0 0 1 0 1 1.325850e+00 1.118672e+00 9.649462e-01 1.157935e+01 1 1.157935e+01 1 132183552 132186817 1 132183556 4 132186823 6 12 9.894964e-01 1 0 70 0 12 1 -1 -132183553 -1 -132186818 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 10 1 0 175358202 3 0 183931000 inter_chr NaN 28 0 0 0 26_samples:0 175357881 175358200 320 60 183930714 183930991 278 60 TNR Intron of TNR(-): 2Kb after exon 7 VWA5B2 IGR: 17Kb before VWA5B2(+) - 0 0 1.000000e-02 0 3 0 9 0 -7.556882e-02 -7.556882e-02 4.051326e-01 1.134371e+01 1 1.134371e+01 1 175358200 183930991 1 175358202 2 183931000 9 20 9.965034e-01 0 3 65 0 47 1 -1 -175358201 -1 -183930992 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 77 1 0 39027912 3 0 182152935 inter_chr NaN 11 0 0 0 26_samples:0 39027655 39027908 254 52 182152688 182152933 246 58 RRAGC IGR: 277Kb before RRAGC(-) ATP11B IGR: 358Kb before ATP11B(+) - 1.000000e-02 0 0 0 2 0 4 0 -3.908618e-01 -9.881058e-02 1 11 1 11 1 39027908 182152933 1 39027912 4 182152935 2 14 9.722024e-01 0 0 68 0 47 1 -1 -39027909 -1 -182152934 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 81 2 1 4634528 17 1 43719049 inter_chr NaN 11 0 0 0 26_samples:0 4634534 4634831 298 71 43719051 43719353 303 63 ALLC IGR: 929Kb before ALLC(+) C17orf69 5'-UTR of C17orf69(+): 619bp before coding start - 5.000000e-02 0 0 0 4 3 2 2 5.339670e-01 1.445654e-01 1 11 1 11 1 4634534 43719051 1 4634528 -6 43719049 -2 8 9.815993e-01 1 1 71 0 13 1 -1 -4634535 -1 -43719052 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 82 3 0 120494381 3 0 120497121 inversion 2776 11 0 0 0 26_samples:0 120494059 120494347 289 53 120496912 120497123 212 53 GTF2E1 Intron of GTF2E1(+): 923bp before exon 4 GTF2E1 Intron of GTF2E1(+): 2Kb after exon 4 Antisense fusion 0 0 0 0 1 1 2 0 -3.421866e-01 -3.421866e-01 1 11 1 11 1 120494347 120497123 1 120494381 34 120497121 -2 9 9.929500e-01 0 4 71 0 24 1 -1 -120494348 -1 -120497124 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 83 4 0 57081726 4 0 132184542 long_range 75102828 11 0 0 0 26_samples:0 57081448 57081719 272 47 132184308 132184547 240 50 KIAA1211 5'-UTR of KIAA1211(+): 83Kb before coding start PCDH10 IGR: 2Mb before PCDH10(+) - 0 0 0 0 3 2 2 0 -6.342378e-01 -4.882122e-01 1 11 1 11 1 57081719 132184547 1 57081726 7 132184542 -5 10 9.974274e-01 0 2 71 0 16 1 -1 -57081720 -1 -132184548 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 84 18 1 20903486 18 0 20912472 tandem_dup 8951 11 0 0 0 26_samples:0 20903499 20903745 247 47 20912250 20912450 201 31 C18orf45 Intron of C18orf45(-): 14Kb before exon 14 C18orf45 Intron of C18orf45(-): 20Kb after exon 13 Duplication within intron 0 0 0 0 1 0 2 0 -6.342378e-01 -1.413041e+00 1 11 1 11 1 20903499 20912450 1 20903486 -13 20912472 22 9 9.976677e-01 1 0 72 0 11 1 -1 -20903500 -1 -20912451 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 80 2 0 4637109 2 1 4643940 deletion 6844 11 0 0 0 26_samples:0 4636765 4637108 344 83 4643952 4644280 329 71 ALLC IGR: 931Kb before ALLC(+) ALLC IGR: 938Kb before ALLC(+) - 0 0 5.000000e-02 0 1 1 1 2 1.118069e+00 5.339670e-01 9.983568e-01 1.098192e+01 1 1.098192e+01 1 4637108 4643952 1 4637109 1 4643940 -12 14 9.815694e-01 0 1 73 0 20 1 -1 -4637109 -1 -4643953 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 19 4 1 48776833 4 0 48784081 tandem_dup 7254 21 0 0 0 26_samples:0 48776838 48777138 301 66 48783709 48784092 384 94 FRYL 5'-UTR of FRYL(-): 140Kb before coding start FRYL Promoter of FRYL(-): 2Kb from tx start Duplication within transcript 0 0 0 0 0 1 1 0 2.876635e-01 1.982747e+00 5.130494e-01 1.077404e+01 1 1.077404e+01 1 48776838 48784092 1 48776833 -5 48784081 -11 14 9.766054e-01 1 2 80 0 24 1 48776968 130 48784294 202 3 8.133092e-01 1 2 81 0 10 1 2.400000e+00 LUSC-60-2713 88 3 1 109520516 3 0 109522140 tandem_dup 1580 10 0 0 0 26_samples:0 109520543 109520865 323 72 109521872 109522123 252 59 FLJ25363 IGR: 392Kb before FLJ25363(+) FLJ25363 IGR: 393Kb before FLJ25363(+) - 1.000000e-02 2.000000e-02 0 0 0 1 0 1 5.826422e-01 -5.013538e-02 1 10 1 10 1 109520543 109522123 1 109520516 -27 109522140 17 12 9.884644e-01 1 0 62 0 15 1 -1 -109520544 -1 -109522124 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 89 6 0 30382228 6 1 30383622 deletion 1422 10 0 0 0 26_samples:0 30381922 30382204 283 67 30383626 30383844 219 40 RPP21 IGR: 69Kb before RPP21(+) RPP21 IGR: 71Kb before RPP21(+) - 2.000000e-02 1.000000e-02 0 0 2 1 1 0 3.392662e-01 -9.749642e-01 1 10 1 10 1 30382204 30383626 1 30382228 24 30383622 -4 10 9.936708e-01 0 2 77 0 18 1 -1 -30382205 -1 -30383627 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 93 9 1 104487215 17 1 21232459 inter_chr NaN 10 0 0 0 26_samples:0 104487215 104487431 217 39 21232459 21232703 245 56 GRIN3A Intron of GRIN3A(-): 12Kb after exon 1 MAP2K3 IGR: 41Kb before MAP2K3(+) - 0 0 0 0 2 0 2 1 -1.023639e+00 -1.961610e-01 1 10 1 10 1 104487215 21232459 1 104487217 2 21232434 -25 1 9.653993e-01 1 0 81 0 7 1 -1 -104487216 -1 -21232460 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2713 95 19 0 15406529 19 1 15426704 deletion 20195 10 0 0 0 26_samples:0 15406270 15406556 287 77 15426751 15427040 290 73 BRD4 IGR: 49Kb before BRD4(-) AKAP8 IGR: 38Kb before AKAP8(-) - 3.000000e-02 0 1.200000e-01 1.100000e-01 4 0 3 2 8.260182e-01 6.313174e-01 1 10 1 10 1 15406556 15426751 1 15406529 -27 15426704 -47 6 9.525905e-01 0 10 106 0 31 1 15406671 115 15426547 -204 6 8.074642e-01 0 9 121 0 25 1 1.240000e+00 LUSC-60-2713 62 13 0 69188794 18 1 60259838 inter_chr NaN 14 0 0 0 26_samples:0 69188441 69188787 347 94 60259867 60260113 247 64 KLHL1 IGR: 1Mb before KLHL1(-) ZCCHC2 IGR: 14Kb after ZCCHC2(+) - 0 0 0 0 3 1 2 1 1.740205e+00 1.863721e-01 7.114596e-01 9.960435e+00 1 9.960435e+00 1 69188787 60259867 1 69188794 7 60259838 -29 11 9.852620e-01 0 2 70 0 15 1 -1 -69188788 -1 -60259868 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 96 1 0 245032095 1 1 245554574 deletion 522540 9 0 0 0 26_samples:0 245031898 245032064 167 45 245554604 245554887 284 70 HNRNPU IGR: 4Kb after HNRNPU(-) KIF26B Intron of KIF26B(+): 24Kb after exon 3 - 1.700000e-01 9.000000e-02 0 0 4 2 4 0 -6.536885e-01 4.759474e-01 1 9 1 9 1 245032064 245554604 1 245032095 31 245554574 -30 4 9.976037e-01 0 3 70 0 4 1 -1 -245032065 -1 -245554605 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 97 1 0 86116054 18 1 57070973 inter_chr NaN 9 0 0 0 26_samples:0 86115804 86116031 228 34 57070993 57071188 196 55 ZNHIT6 3'-UTR of ZNHIT6(-): 4Kb after coding stop CCBE1 IGR: 27Kb before CCBE1(-) - 0 0 1.600000e-01 4.000000e-02 4 0 4 4 -1.150728e+00 -2.018341e-01 1 9 1 9 1 86116031 57070993 1 86116054 23 57070973 -20 6 9.949895e-01 0 3 75 0 8 1 -1 -86116032 -1 -57070994 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 100 6 0 134531930 6 1 134977081 deletion 445148 9 0 0 0 26_samples:0 134531718 134531931 214 44 134977079 134977364 286 55 SGK1 Intron of SGK1(-): 3Kb before exon 3 ALDH8A1 IGR: 261Kb before ALDH8A1(-) - 3.000000e-02 5.000000e-02 0 0 3 0 4 1 -6.988739e-01 -2.018341e-01 1 9 1 9 1 134531931 134977079 1 134531930 -1 134977081 2 8 9.100246e-01 0 2 70 0 15 1 -1 -134531932 -1 -134977080 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 102 12 0 98961789 12 1 98975378 deletion 13646 9 0 0 0 26_samples:0 98961554 98961759 206 38 98975405 98975605 201 52 SLC25A3 IGR: 26Kb before SLC25A3(+) SLC25A3 IGR: 12Kb before SLC25A3(+) - 2.000000e-02 2.000000e-02 0 0 2 0 2 0 -9.699865e-01 -3.373904e-01 1 9 1 9 1 98961759 98975405 1 98961789 30 98975378 -27 3 1 0 0 58 0 10 1 -1 -98961760 -1 -98975406 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 13 2 1 218895806 3 0 183728655 inter_chr NaN 23 0 0 0 26_samples:0 218895803 218896003 201 46 183728245 183728602 358 59 CXCR2P1 IGR: 28Kb before CXCR2P1(-) ABCC5 Intron of ABCC5(-): 3Kb after exon 2 - 1.000000e-02 0 2.000000e-02 0 5 2 9 1 -9.231108e-01 -1.361075e-01 3.893975e-01 8.956143e+00 1 8.956143e+00 1 218895803 183728602 1 218895806 3 183728655 53 12 9.816003e-01 1 1 77 0 44 1 -1 -218895804 -1 -183728603 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 98 3 0 95834937 3 1 95873808 deletion 38887 9 0 0 0 26_samples:0 95834620 95834942 323 87 95873829 95874116 288 64 EPHA6 IGR: 698Kb before EPHA6(+) EPHA6 IGR: 660Kb before EPHA6(+) - 0 0 0 0 3 0 2 1 1.244100e+00 2.048348e-01 9.856639e-01 8.870975e+00 1 8.870975e+00 1 95834942 95873829 1 95834937 -5 95873808 -21 16 9.944140e-01 0 1 66 0 28 1 -1 -95834943 -1 -95873830 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 99 5 1 32313717 5 0 32351148 tandem_dup 37431 9 0 0 0 26_samples:0 32313717 32313936 220 59 32350882 32351148 267 64 MTMR12 Promoter of MTMR12(-): 603bp from tx start ZFR IGR: 3Kb before ZFR(-) - 3.000000e-02 7.000000e-02 9.000000e-02 4.000000e-02 4 3 5 3 -2.109240e-02 2.048348e-01 9.846154e-01 8.861538e+00 1 8.861538e+00 1 32313717 32351148 1 32313835 118 32351131 -17 6 7.749194e-01 1 6 118 0 42 1 32313592 -125 32351352 204 8 8.534810e-01 1 3 88 0 18 0 2.333333e+00 LUSC-60-2713 104 19 1 41675233 19 0 41706121 tandem_dup 30886 9 0 0 0 26_samples:0 41675234 41675500 267 52 41705792 41706120 329 65 CYP2S1 IGR: 24Kb before CYP2S1(+) CYP2S1 Intron of CYP2S1(+): 1Kb before exon 6 - 6.000000e-02 1.100000e-01 8.000000e-02 4.000000e-02 5 4 4 2 -3.373904e-01 2.500202e-01 9.846154e-01 8.861538e+00 1 8.861538e+00 1 41675234 41706120 1 41675233 -1 41706121 1 9 9.976110e-01 1 3 73 0 9 1 -1 -41675235 -1 -41706121 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 94 17 0 59765571 17 1 60002671 deletion 237074 10 0 0 0 26_samples:0 59765266 59765606 341 91 60002680 60002971 292 73 BRIP1 Intron of BRIP1(-): 2Kb before exon 19 INTS2 Intron of INTS2(-): 220bp before exon 3 Protein fusion: out of frame (INTS2-BRIP1) 0 2.000000e-02 8.000000e-02 6.000000e-02 4 1 3 0 1.507471e+00 6.313174e-01 8.844178e-01 8.844178e+00 1 8.844178e+00 1 59765606 60002680 1 59765571 -35 60002671 -9 4 9.659511e-01 0 7 85 0 25 1 -1 -59765607 -1 -60002681 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 34 1 1 39319312 1 0 40167702 tandem_dup 848396 17 0 0 0 26_samples:0 39319311 39319584 274 57 40167486 40167707 222 42 RRAGC Intron of RRAGC(-): 1Kb before exon 4 HPCAL4 IGR: 23Kb before HPCAL4(-) - 2.000000e-02 4.000000e-02 0 0 8 1 5 0 -2.097905e-01 -1.041829e+00 4.923077e-01 8.369231e+00 1 8.369231e+00 1 39319311 40167707 1 39319312 1 40167702 -5 9 9.964841e-01 1 1 77 0 55 1 -1 -39319312 -1 -40167708 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 105 1 0 39096500 1 0 39101202 inversion 4704 8 0 0 0 26_samples:0 39096205 39096483 279 66 39100944 39101187 244 64 RRAGC IGR: 209Kb before RRAGC(-) RRAGC IGR: 204Kb before RRAGC(-) - 2.000000e-02 4.000000e-02 1.000000e-02 0 3 1 4 0 2.952056e-01 2.048348e-01 1 8 1 8 1 39096483 39101187 1 39096500 17 39101202 15 13 9.984347e-01 0 1 66 0 38 1 -1 -39096484 -1 -39101188 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 106 2 1 206734610 5 1 123596029 inter_chr NaN 8 0 0 0 26_samples:0 206734729 206734903 175 53 123596038 123596173 136 12 INO80D IGR: 124Kb before INO80D(-) ZNF608 IGR: 377Kb before ZNF608(-) - 0 0 0 0 3 0 3 0 -2.922050e-01 -2.144808e+00 1 8 1 8 1 206734729 123596038 1 206734610 -119 123596029 -9 5 1.000001e+00 1 2 68 0 7 1 -1 -206734730 -1 -123596039 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 108 4 0 73327740 9 0 115560334 inter_chr NaN 8 0 0 0 26_samples:0 73327514 73327708 195 38 115560026 115560315 290 66 ADAMTS3 Intron of ADAMTS3(-): 47Kb before exon 4 SNX30 Intron of SNX30(+): 7Kb before exon 2 Protein fusion: in frame (SNX30-ADAMTS3) 0 0 2.200000e-01 0 3 0 1 0 -9.699865e-01 2.952056e-01 1 8 1 8 1 73327708 115560315 1 73327740 32 115560334 19 10 9.959817e-01 0 1 71 0 12 1 -1 -73327709 -1 -115560316 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 109 6 0 79990891 7 1 47174061 inter_chr NaN 8 0 0 0 26_samples:0 79990697 79990896 200 35 47174129 47174435 307 65 HMGN3 IGR: 46Kb after HMGN3(-) TNS3 IGR: 141Kb before TNS3(-) - 0 0 0 0 4 0 4 0 -1.105543e+00 2.500202e-01 1 8 1 8 1 79990896 47174129 1 79990891 -5 47174061 -68 7 1.000001e+00 0 5 80 0 10 1 -1 -79990897 -1 -47174130 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 110 9 0 104487433 10 1 97438763 inter_chr NaN 8 0 0 0 26_samples:0 104487215 104487434 220 42 97438789 97439029 241 46 GRIN3A Intron of GRIN3A(-): 12Kb after exon 1 TCTN3 Intron of TCTN3(-): 1Kb after exon 9 Protein fusion: in frame (TCTN3-GRIN3A) 0 0 0 0 2 0 2 1 -7.892448e-01 -6.085030e-01 1 8 1 8 1 104487434 97438789 1 104487433 -1 97438763 -26 5 9.879794e-01 0 1 76 0 10 1 -1 -104487435 -1 -97438790 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 45 3 1 182012131 3 1 182017640 inversion 5503 16 0 0 0 26_samples:0 182012133 182012662 530 98 182017636 182017909 274 58 ATP11B IGR: 499Kb before ATP11B(+) ATP11B IGR: 494Kb before ATP11B(+) - 0 0 0 0 4 0 3 0 2.064448e+00 -1.543213e-01 4.532944e-01 7.252711e+00 1 7.252711e+00 1 182012133 182017636 1 182012131 -2 182017640 4 20 9.957523e-01 1 1 86 0 38 1 -1 -182012134 -1 -182017637 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 63 20 1 37426526 20 1 37487314 inversion 60788 14 0 0 0 26_samples:0 37426523 37426990 468 99 37487311 37487545 235 49 PPP1R16B IGR: 8Kb before PPP1R16B(+) PPP1R16B Intron of PPP1R16B(+): 22Kb after exon 2 - 0 0 0 0 2 0 2 0 1.999177e+00 -5.905444e-01 5.006172e-01 7.008641e+00 1 7.008641e+00 1 37426523 37487311 1 37426526 3 37487314 3 20 9.824180e-01 1 4 80 0 24 1 -1 -37426524 -1 -37487312 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 111 1 0 103578905 10 0 31512835 inter_chr NaN 7 0 0 0 26_samples:0 103578620 103578851 232 43 31512659 31512839 181 28 COL11A1 IGR: 5Kb after COL11A1(-) LOC220930 IGR: 93Kb before LOC220930(-) - 0 0 0 0 2 0 2 0 -6.351176e-01 -1.247176e+00 1 7 1 7 1 103578851 31512839 1 103578905 54 31512835 -4 7 1 0 1 73 0 10 1 -1 -103578852 -1 -31512840 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 117 16 1 25170067 16 0 26170216 long_range 1000100 7 0 0 0 26_samples:0 25170096 25170337 242 52 26169954 26170196 243 49 LCMT1 Intron of LCMT1(+): 2Kb before exon 6 HS3ST4 IGR: 21Kb after HS3ST4(+) - 0 0 0 0 2 1 2 1 -2.678827e-01 -3.902944e-01 1 7 1 7 1 25170096 26170196 1 25170067 -29 26170216 20 7 9.549417e-01 1 0 67 0 15 1 -1 -25170097 -1 -26170197 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 119 21 0 25634247 22 1 46706824 inter_chr NaN 7 0 0 0 26_samples:0 25633975 25634233 259 59 46706839 46707058 220 53 NCRNA00158 IGR: 1Mb before NCRNA00158(-) GTSE1 Intron of GTSE1(+): 1Kb before exon 5 - 0 0 3.000000e-02 0 4 2 2 0 1.774441e-02 -2.270789e-01 1 7 1 7 1 25634233 46706839 1 25634247 14 46706824 -15 11 1 0 2 65 0 19 1 -1 -25634234 -1 -46706840 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 47 7 0 53606254 22 1 40372981 inter_chr NaN 16 0 0 0 26_samples:0 53605958 53606250 293 67 40372974 40373308 335 99 POM121L12 IGR: 503Kb before POM121L12(+) GRAP2 IGR: 6Kb after GRAP2(+) - 0 0 0 0 1 0 3 0 3.449018e-01 2.119917e+00 4.158668e-01 6.653869e+00 1 6.653869e+00 1 53606250 40372974 1 53606254 4 40372981 7 13 9.984753e-01 0 2 76 0 23 1 -1 -53606251 -1 -40372975 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 123 3 0 139696792 3 1 145668218 long_range 5971445 6 0 0 0 26_samples:0 139696555 139696777 223 55 145668222 145668487 266 67 CLSTN2 Intron of CLSTN2(+): 42Kb after exon 1 PLOD2 IGR: 119Kb before PLOD2(-) - 0 0 0 0 1 0 1 0 -1.454711e-01 3.441754e-01 1 6 1 6 1 139696777 145668222 1 139696792 15 145668218 -4 7 9.817955e-01 0 1 65 0 11 1 139697129 352 145668268 46 1 7.742294e-01 0 1 73 0 6 1 1.833333e+00 LUSC-60-2713 131 11 0 48973259 11 0 48997263 inversion 24004 6 0 0 0 26_samples:0 48972977 48973259 283 72 48997085 48997263 179 31 FOLH1 IGR: 195Kb before FOLH1(-) FOLH1 IGR: 171Kb before FOLH1(-) - 7.000000e-02 0 2.000000e-02 2.000000e-02 2 0 2 0 5.481948e-01 -1.124764e+00 1 6 1 6 1 48973259 48997263 1 -1 -48973260 -1 -48997264 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -48973260 -1 -48997264 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-60-2713 134 16 0 26161970 16 1 26167283 deletion 5331 6 0 0 0 26_samples:0 26161705 26161949 245 49 26167280 26167507 228 45 HS3ST4 IGR: 13Kb after HS3ST4(+) HS3ST4 IGR: 18Kb after HS3ST4(+) - 0 0 2.000000e-02 2.000000e-02 2 1 3 1 -3.902944e-01 -5.535099e-01 1 6 1 6 1 26161949 26167280 1 26161970 21 26167283 3 7 9.959874e-01 0 1 75 0 19 1 -1 -26161950 -1 -26167281 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 121 2 1 206734605 2 0 218896011 long_range 12161406 6 0 0 0 26_samples:0 206734605 206734731 127 10 218895870 218896011 142 15 INO80D IGR: 124Kb before INO80D(-) CXCR2P1 IGR: 28Kb before CXCR2P1(-) - 0 0 1.000000e-02 0 3 0 5 0 -1.981646e+00 -1.777626e+00 9.846154e-01 5.907692e+00 1 5.907692e+00 1 206734605 218896011 1 -1 -206734606 -1 -218896012 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -206734606 -1 -218896012 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-60-2713 53 1 0 38766345 3 0 182017327 inter_chr NaN 15 0 0 0 26_samples:0 38766062 38766347 286 53 182016825 182017328 504 100 POU3F1 IGR: 257Kb before POU3F1(-) ATP11B IGR: 494Kb before ATP11B(+) - 1.000000e-02 2.000000e-02 0 0 3 0 3 0 -4.316674e-01 2.175386e+00 3.811216e-01 5.716823e+00 1 5.716823e+00 1 38766347 182017328 1 38766345 -2 182017327 -1 13 9.900719e-01 0 2 79 0 34 1 -1 -38766348 -1 -182017329 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 14 3 0 182877048 3 0 182890818 inversion 13780 23 0 0 0 26_samples:0 182876763 182877046 284 60 182890506 182890826 321 68 LAMP3 Intron of LAMP3(-): 3Kb after exon 1 MCF2L2 IGR: 5Kb before MCF2L2(-) - 0 0 0 0 10 1 6 0 -7.556882e-02 4.087409e-01 2.477620e-01 5.698526e+00 1 5.698526e+00 1 182877046 182890826 1 182877048 2 182890818 -8 20 9.936619e-01 0 3 87 0 76 1 -1 -182877047 -1 -182890827 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 9 8 0 17537707 8 1 17563670 deletion 25965 32 0 0 0 26_samples:0 17537398 17537705 308 64 17563670 17564269 600 101 MTUS1 Intron of MTUS1(-): 4Kb after exon 7 MTUS1 Intron of MTUS1(-): 7Kb after exon 6 Deletion of 1 exon: out of frame 3.000000e-02 0 0 0 2 1 2 1 1.547120e-01 2.682671e+00 1.734821e-01 5.551428e+00 1 5.551428e+00 1 17537705 17563670 1 17537707 2 17563670 0 20 9.489184e-01 0 0 70 2 GT 40 1 -1 -17537706 -1 -17563671 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 143 1 1 86350575 18 0 57071208 inter_chr NaN 5 0 0 0 26_samples:0 86350621 86350836 216 41 57070980 57071183 204 43 COL24A1 Intron of COL24A1(-): 5Kb after exon 32 CCBE1 IGR: 27Kb before CCBE1(-) - 0 0 1.100000e-01 4.000000e-02 3 0 4 4 -6.471650e-01 -5.697508e-01 1 5 1 5 1 86350621 57071183 1 86350575 -46 57071208 25 6 9.786968e-01 1 2 69 0 17 1 -1 -86350622 -1 -57071184 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 145 2 1 232420593 2 1 232425562 inversion 5089 5 0 0 0 26_samples:0 232420604 232420724 121 10 232425693 232425838 146 20 NMUR1 IGR: 33Kb before NMUR1(-) C2orf57 IGR: 32Kb before C2orf57(+) - 6.000000e-02 9.000000e-02 0 0 0 2 2 1 -1.847085e+00 -1.460014e+00 1 5 1 5 1 232420604 232425693 1 232420593 -11 232425562 -131 4 9.908870e-01 1 3 79 0 9 1 -1 -232420605 -1 -232425694 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 150 3 0 172422659 3 1 172443656 deletion 20995 5 0 0 0 26_samples:0 172422397 172422661 265 72 172443656 172443925 270 77 NCEH1 Intron of NCEH1(-): 6Kb after exon 1 ECT2 IGR: 29Kb before ECT2(+) - 2.000000e-02 2.000000e-02 3.000000e-02 6.000000e-02 1 1 3 2 5.527552e-01 7.462907e-01 1 5 1 5 1 172422661 172443656 1 172422659 -2 172443656 0 3 9.906752e-01 0 1 81 0 18 1 -1 -172422662 -1 -172443657 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 155 3 1 187439982 18 0 34426709 inter_chr NaN 5 0 0 0 26_samples:0 187440054 187440300 247 82 34426553 34426713 161 39 BCL6 3'-UTR of BCL6(-): 192bp after coding stop KIAA1328 Intron of KIAA1328(+): 2Kb after exon 4 - 0 0 0 0 3 0 3 0 9.398263e-01 -7.245792e-01 1 5 1 5 1 187440054 34426713 1 187439982 -72 34426709 -4 7 9.970121e-01 1 2 75 0 13 1 -1 -187440055 -1 -34426714 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 159 6 1 75159572 6 0 75164673 tandem_dup 5005 5 0 0 0 26_samples:0 75159633 75159789 157 23 75164464 75164638 175 29 COL12A1 IGR: 634Kb before COL12A1(-) COL12A1 IGR: 629Kb before COL12A1(-) - 0 2.000000e-02 0 0 1 3 1 0 -1.343893e+00 -1.111650e+00 1 5 1 5 1 75159633 75164638 1 75159572 -61 75164673 35 2 8.876632e-01 1 0 63 2 AA 5 1 -1 -75159634 -1 -75164639 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 171 15 0 52496205 15 1 52736273 deletion 240156 5 0 0 0 26_samples:0 52495910 52496175 266 71 52736331 52736645 315 93 MYO5C Intron of MYO5C(-): 887bp after exon 38 MYO5A Intron of MYO5A(-): 11Kb before exon 2 Protein fusion: out of frame (MYO5A-MYO5C) 0 4.000000e-02 0 0 2 1 2 0 5.140481e-01 1.365604e+00 9.534078e-01 4.767039e+00 1 4.767039e+00 1 52496175 52736331 1 52496205 30 52736273 -58 14 9.354487e-01 0 0 78 0 19 1 -1 -52496176 -1 -52736332 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 71 11 1 47398299 12 1 1116524 inter_chr NaN 12 0 0 0 26_samples:0 47398299 47398599 301 76 1116529 1116877 349 103 SPI1 Intron of SPI1(-): 1Kb before exon 2 ERC1 5'-UTR of ERC1(+): 21Kb before coding start Transcript fusion (SPI1-ERC1) 0 0 5.000000e-02 3.000000e-02 3 0 3 1 8.079053e-01 2.206355e+00 3.628974e-01 4.354769e+00 1 4.354769e+00 1 47398299 1116529 1 47398299 0 1116524 -5 11 9.978957e-01 1 3 67 0 22 1 -1 -47398300 -1 -1116530 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 57 23 0 137864630 23 1 137900179 deletion 35585 15 0 0 0 26_samples:0 137864303 137864606 304 62 137900191 137900433 243 46 FGF13 Intron of FGF13(-): 74Kb before exon 5 FGF13 Intron of FGF13(-): 39Kb after exon 4 Deletion within intron 4.000000e-01 5.800000e-01 0 0 3 3 4 0 6.755565e-02 -8.199520e-01 2.681207e-01 4.021810e+00 1 4.021810e+00 1 137864606 137900191 1 137864630 24 137900179 -12 20 9.927942e-01 0 3 83 0 29 1 -1 -137864607 -1 -137900192 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 177 1 1 49505943 1 0 49514372 tandem_dup 8429 4 0 0 0 26_samples:0 49505943 49506066 124 11 49514193 49514372 180 33 AGBL4 Intron of AGBL4(-): 5Kb after exon 5 AGBL4 Intron of AGBL4(-): 3Kb before exon 5 Duplication of 1 exon: out of frame 0 0 0 0 1 0 1 0 -1.590811e+00 -8.235145e-01 1 4 1 4 1 49505943 49514372 1 49505838 -105 49514401 29 1 9.354790e-01 1 2 75 0 5 1 -1 -49505944 -1 -49514373 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2713 203 1 0 49506801 20 1 48086785 inter_chr NaN 4 0 0 0 26_samples:0 49506660 49506794 135 24 48086921 48087024 104 13 AGBL4 Intron of AGBL4(-): 4Kb after exon 5 KCNB1 Intron of KCNB1(-): 12Kb after exon 1 Protein fusion: in frame (KCNB1-AGBL4) 0 0 0 0 1 0 1 0 -1.137408e+00 -1.521057e+00 1 4 1 4 1 49506794 48086921 1 49506801 7 48086785 -136 2 9.913504e-01 0 1 68 0 3 1 -1 -49506795 -1 -48086922 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 204 2 0 232421560 2 1 232425562 deletion 4168 4 0 0 0 26_samples:0 232421237 232421410 174 53 232425578 232425732 155 26 NMUR1 IGR: 34Kb before NMUR1(-) C2orf57 IGR: 32Kb before C2orf57(+) - 1.200000e-01 3.000000e-02 2.000000e-01 0 2 1 2 1 -1.259724e-01 -1.067654e+00 1 4 1 4 1 232421410 232425578 1 232421560 150 232425562 -16 5 9.175401e-01 0 3 77 0 8 1 -1 -232421411 -1 -232425579 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2713 281 16 0 26399089 16 0 26798425 inversion 399336 4 0 0 0 26_samples:0 26398848 26399089 242 63 26798266 26798425 160 40 HS3ST4 IGR: 250Kb after HS3ST4(+) C16orf82 IGR: 280Kb before C16orf82(+) - 0 2.000000e-02 0 0 3 1 1 1 2.227986e-01 -5.793748e-01 1 4 1 4 1 26399089 26798425 1 26399134 45 26798456 31 1 9.784840e-01 0 1 74 0 7 1 -1 -26399090 -1 -26798426 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2722 1 3 1 181546044 3 1 189054246 long_range 7508195 96 0 0 0 26_samples:0 181546049 181546367 319 50 189054244 189054571 328 71 SOX2 IGR: 116Kb before SOX2(+) TPRG1 IGR: 13Kb after TPRG1(+) - 0 0 0 0 5 1 3 1 -1.151546e-01 1.830622e+00 6.356729e-01 6.102460e+01 1 6.102460e+01 1 181546049 189054244 1 181546044 -5 189054246 2 20 9.821546e-01 1 2 75 0 104 1 181546036 -13 189054043 -201 2 7.713470e-01 1 0 74 15 ATTTTTCTTTCTGCA 16 1 6.500000e+00 LUSC-60-2722 3 4 0 94251133 4 0 94252792 inversion 1660 50 0 0 0 26_samples:0 94250799 94251133 335 70 94252502 94252793 292 67 GRID2 Intron of GRID2(+): 66Kb before exon 9 GRID2 Intron of GRID2(+): 64Kb before exon 9 Antisense fusion 0 0 0 0 1 1 0 2 1.737966e+00 1.459998e+00 6.500492e-01 3.250246e+01 1 3.250246e+01 1 94251133 94252793 1 94251133 0 94252792 -1 20 9.333484e-01 0 2 68 0 47 1 94251202 69 94253000 207 1 8.885021e-01 0 6 72 0 14 1 3.357143e+00 LUSC-60-2722 8 9 1 13834377 9 0 13974364 tandem_dup 139994 32 0 0 0 26_samples:0 13834373 13834656 284 61 13974052 13974367 316 64 NFIB IGR: 247Kb before NFIB(-) NFIB IGR: 107Kb before NFIB(-) - 0 4.000000e-02 0 0 3 1 3 1 9.040619e-01 1.182030e+00 9.940046e-01 3.180815e+01 1 3.180815e+01 1 13834373 13974367 1 13834377 4 13974364 -3 15 9.654746e-01 1 3 70 0 35 1 -1 -13834374 -1 -13974368 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 10 4 0 102009312 4 1 102013467 deletion 4149 29 0 0 0 26_samples:0 102009000 102009316 317 59 102013465 102013707 243 53 PPP3CA Intron of PPP3CA(-): 5Kb before exon 7 PPP3CA Intron of PPP3CA(-): 1Kb after exon 6 Deletion within intron 0 0 0 0 1 2 2 0 6.703738e-01 1.677619e-01 1 29 1 29 1 102009316 102013465 1 102009312 -4 102013467 2 20 9.876774e-01 0 0 62 0 28 1 -1 -102009317 -1 -102013466 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 12 2 1 43957316 2 1 44082217 inversion 124894 26 0 0 0 26_samples:0 43957320 43957594 275 62 44082214 44082488 275 59 PLEKHH2 Intron of PLEKHH2(+): 436bp after exon 18 ABCG8 Intron of ABCG8(+): 2Kb after exon 6 - 6.000000e-02 0 0 0 2 0 3 0 9.216797e-01 6.703738e-01 1 26 1 26 1 43957320 44082214 1 43957316 -4 44082217 3 20 9.859893e-01 1 2 66 0 33 1 43957303 -17 44082008 -206 1 8.134575e-01 1 5 77 0 4 1 8.250000e+00 LUSC-60-2722 13 18 1 29555176 18 0 34385375 long_range 4830197 26 0 0 0 26_samples:0 29555191 29555510 320 66 34385147 34385388 242 59 RNF125 IGR: 43Kb before RNF125(+) C18orf10 Exon 4 of C18orf10(-) - 1.000000e-02 2.000000e-02 0 0 3 1 1 2 1.256754e+00 6.703738e-01 9.833558e-01 2.556725e+01 1 2.556725e+01 1 29555191 34385388 1 29555176 -15 34385375 -13 14 9.008107e-01 1 2 81 1 A 33 1 -1 -29555192 -1 -34385389 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 11 10 1 74508144 16 1 22400890 inter_chr NaN 27 0 0 0 26_samples:0 74508139 74508424 286 68 22400886 22401159 274 63 CCDC109A Intron of CCDC109A(+): 56Kb after exon 1 RRN3P3 IGR: 30Kb before RRN3P3(-) - 0 6.000000e-02 0 0 2 0 4 0 1.424292e+00 1.005448e+00 9.290377e-01 2.508402e+01 1 2.508402e+01 1 74508139 22400886 1 74508144 5 22400890 4 9 9.685226e-01 1 3 72 0 19 1 74507968 -171 22400682 -204 7 8.443552e-01 1 3 76 0 5 1 3.800000e+00 LUSC-60-2722 15 9 0 29915979 9 1 29917150 deletion 1208 25 0 0 0 26_samples:0 29915715 29915960 246 42 29917168 29917430 263 45 MIR873 IGR: 1Mb before MIR873(-) MIR873 IGR: 1Mb before MIR873(-) - 0 0 0 0 1 2 0 0 -7.536931e-01 -5.023872e-01 1 25 1 25 1 29915960 29917168 1 29915979 19 29917150 -18 16 9.563957e-01 0 4 74 0 19 1 -1 -29915961 -1 -29917169 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 17 4 1 65020002 6 0 130061528 inter_chr NaN 24 0 0 0 26_samples:0 65020084 65020301 218 32 130061384 130061533 150 22 TECRL IGR: 124Kb before TECRL(-) ARHGAP18 IGR: 30Kb after ARHGAP18(-) - 0 0 0 0 3 0 1 2 -1.591380e+00 -2.429066e+00 1 24 1 24 1 65020084 130061533 1 65020002 -82 130061528 -5 20 9.897288e-01 1 2 69 0 57 1 65019881 -203 130061715 182 1 7.981633e-01 1 2 79 0 10 1 5.700000e+00 LUSC-60-2722 18 11 0 29395225 11 0 44878919 long_range 15483694 24 0 0 0 26_samples:0 29394962 29395225 264 47 44878684 44878919 236 46 KCNA4 IGR: 637Kb before KCNA4(-) TSPAN18 5'-UTR of TSPAN18(+): 49Kb before coding start - 0 0 0 0 2 1 1 1 -3.348499e-01 -4.186186e-01 1 24 1 24 1 29395225 44878919 1 -1 -29395226 -1 -44878920 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -29395226 -1 -44878920 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-60-2722 16 3 1 181738840 3 1 189107198 long_range 7368355 24 0 0 0 26_samples:0 181738839 181739138 300 64 189107194 189107456 263 67 SOX2 IGR: 309Kb before SOX2(+) TPRG1 IGR: 217Kb before TPRG1(+) - 0 0 0 0 4 0 3 1 1.089217e+00 1.340523e+00 9.613316e-01 2.307196e+01 1 2.307196e+01 1 181738839 189107194 1 181738840 1 189107198 4 20 9.843061e-01 1 4 67 0 70 1 -1 -181738840 -1 -189107195 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 20 17 0 35669797 17 0 35670911 inversion 1116 23 0 0 0 26_samples:0 35669533 35669793 261 51 35670653 35670909 257 53 ACACA Intron of ACACA(-): 17Kb after exon 3 ACACA Intron of ACACA(-): 16Kb after exon 3 - 0 0 0 2.000000e-02 2 0 2 0 2.246346e-04 1.677619e-01 1 23 1 23 1 35669793 35670909 1 35669797 4 35670911 2 16 8.897168e-01 0 0 68 1 G 57 1 -1 -35669794 -1 -35670910 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 19 7 0 75332332 7 0 94379640 long_range 19047300 23 0 0 0 26_samples:0 75332031 75332326 296 57 94379351 94379626 276 67 HIP1 Intron of HIP1(-): 36Kb after exon 1 PEG10 IGR: 94Kb before PEG10(+) - 4.000000e-02 3.000000e-02 4.000000e-02 4.000000e-02 2 0 3 0 5.028365e-01 1.340523e+00 9.620143e-01 2.212633e+01 1 2.212633e+01 1 75332326 94379626 1 75332332 6 94379640 14 8 9.333303e-01 0 1 71 4 CCAG 27 1 -1 -75332327 -1 -94379627 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 22 2 0 220678 2 0 11339766 long_range 11119100 22 0 0 0 26_samples:0 220370 220654 285 61 11339445 11339754 310 51 SH3YL1 Intron of SH3YL1(-): 2Kb before exon 9 ROCK2 Intron of ROCK2(-): 854bp before exon 24 - 0 0 4.000000e-02 3.000000e-02 1 0 2 0 8.379110e-01 2.246346e-04 1 22 1 22 1 220654 11339754 1 220678 24 11339766 12 18 9.703368e-01 0 2 72 0 29 1 -1 -220655 -1 -11339755 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 24 5 0 22631548 5 1 22648660 deletion 17116 22 0 0 0 26_samples:0 22631251 22631534 284 53 22648650 22648929 280 53 CDH12 5'-UTR of CDH12(-): 553Kb before coding start CDH12 5'-UTR of CDH12(-): 570Kb before coding start Deletion within transcript 0 2.000000e-02 0 0 2 1 1 0 1.677619e-01 1.677619e-01 1 22 1 22 1 22631534 22648650 1 22631548 14 22648660 10 20 9.922087e-01 0 3 74 0 33 1 -1 -22631535 -1 -22648651 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 25 5 0 29702787 5 1 29704107 deletion 1315 22 0 0 0 26_samples:0 29702519 29702789 271 56 29704104 29704369 266 57 CDH6 IGR: 1Mb before CDH6(+) CDH6 IGR: 1Mb before CDH6(+) - 0 0 2.600000e-01 1.600000e-01 1 0 1 1 4.190678e-01 5.028365e-01 1 22 1 22 1 29702789 29704104 1 29702787 -2 29704107 3 17 9.802664e-01 0 3 74 0 18 1 -1 -29702790 -1 -29704105 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 26 11 1 7652461 11 0 7670627 tandem_dup 18166 22 0 0 0 26_samples:0 7652458 7652717 260 57 7670378 7670624 247 54 PPFIBP2 Intron of PPFIBP2(+): 199bp after exon 11 PPFIBP2 Intron of PPFIBP2(+): 139bp before exon 21 Duplication of 9 exons: in frame 0 0 0 0 2 0 2 0 5.028365e-01 2.515306e-01 1 22 1 22 1 7652458 7670624 1 7652461 3 7670627 3 6 8.617062e-01 1 0 71 23 TTGTATCTACCATTGGCCTCTTG 42 1 -1 -7652459 -1 -7670625 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 27 18 1 48852997 21 0 19081077 inter_chr NaN 22 0 0 0 26_samples:0 48852993 48853264 272 52 19080807 19081073 267 46 MEX3C IGR: 152Kb before MEX3C(-) C21orf91 IGR: 80Kb before C21orf91(-) - 1.300000e-01 9.000000e-02 0 0 3 5 4 1 8.399327e-02 -4.186186e-01 9.920043e-01 2.182409e+01 1 2.182409e+01 1 48852993 19081073 1 48852997 4 19081077 4 20 9.609182e-01 1 0 79 0 33 1 -1 -48852994 -1 -19081074 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 30 4 1 74372412 4 1 74373906 inversion 1489 21 0 0 0 26_samples:0 74372425 74372685 261 51 74373914 74374172 259 54 AFM IGR: 3Kb after AFM(+) AFM IGR: 4Kb after AFM(+) - 0 0 0 0 2 1 2 0 2.246346e-04 2.515306e-01 1 21 1 21 1 74372425 74373914 1 74372412 -13 74373906 -8 20 9.777050e-01 1 3 77 0 55 1 -1 -74372426 -1 -74373915 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 31 21 1 22638036 21 0 22724644 tandem_dup 86601 21 0 0 0 26_samples:0 22638045 22638356 312 63 22724354 22724646 293 65 NCAM2 Intron of NCAM2(+): 15Kb before exon 2 NCAM2 Intron of NCAM2(+): 14Kb after exon 8 Duplication of 7 exons: out of frame 0 0 0 3.000000e-02 1 2 3 0 1.005448e+00 1.172986e+00 9.948501e-01 2.089185e+01 1 2.089185e+01 1 22638045 22724646 1 22638036 -9 22724644 -2 13 9.780072e-01 1 4 58 0 33 1 -1 -22638046 -1 -22724647 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 33 17 1 15847360 17 0 15956339 tandem_dup 108932 20 0 0 0 26_samples:0 15847361 15847622 262 61 15956032 15956293 262 52 ADORA2B Promoter of ADORA2B(+): 870bp from tx start NCOR1 Intron of NCOR1(-): 4Kb before exon 41 - 0 0 0 2.000000e-02 2 0 3 0 8.379110e-01 8.399327e-02 1 20 1 20 1 15847361 15956293 1 15847360 -1 15956339 46 14 9.118447e-01 1 1 67 1 C 20 1 -1 -15847362 -1 -15956294 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 32 3 0 189130127 3 0 189173174 inversion 42934 20 0 0 0 26_samples:0 189129942 189130110 169 49 189172819 189173044 226 52 TP63 IGR: 219Kb before TP63(+) TP63 IGR: 176Kb before TP63(+) - 0 0 0 0 5 1 3 2 -1.673126e-01 8.399327e-02 9.914585e-01 1.982917e+01 1 1.982917e+01 1 189130110 189173044 1 189130127 17 189173174 130 5 8.139362e-01 0 0 69 0 64 1 -1 -189130111 -1 -189173045 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 28 1 1 209582924 1 0 209633954 tandem_dup 51028 21 0 0 0 26_samples:0 209582934 209583182 249 58 209633686 209633962 277 57 LOC642587 IGR: 19Kb before LOC642587(+) MIR205 IGR: 28Kb before MIR205(+) - 2.000000e-02 3.000000e-02 2.000000e-02 2.000000e-02 4 0 6 2 5.866051e-01 5.028365e-01 9.198658e-01 1.931718e+01 1 1.931718e+01 1 209582934 209633962 1 209582924 -10 209633954 -8 16 9.938343e-01 1 0 76 0 39 1 -1 -209582935 -1 -209633963 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 35 7 1 69226307 7 0 69258825 tandem_dup 32527 19 0 0 0 26_samples:0 69226305 69226588 284 53 69258551 69258832 282 59 AUTS2 Intron of AUTS2(+): 138Kb before exon 2 AUTS2 Intron of AUTS2(+): 105Kb before exon 2 Duplication within intron 0 0 0 0 2 0 2 1 1.725024e-01 6.399386e-01 1 19 1 19 1 69226305 69258832 1 69226307 2 69258825 -7 14 8.989041e-01 1 2 67 0 20 1 -1 -69226306 -1 -69258833 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 38 11 1 41665465 11 0 45521534 long_range 3856069 18 0 0 0 26_samples:0 41665465 41665739 275 61 45521294 45521534 241 52 LRRC4C IGR: 2Mb before LRRC4C(-) CHST1 IGR: 149Kb before CHST1(-) - 0 0 3.000000e-02 0 3 0 1 0 7.957507e-01 9.459642e-02 1 18 1 18 1 41665465 45521534 1 41665457 -8 45521543 9 6 7.523039e-01 1 0 75 0 19 1 -1 -41665466 -1 -45521535 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2722 39 11 1 66282070 11 0 66300233 tandem_dup 18140 18 0 0 0 26_samples:0 66282095 66282310 216 39 66299978 66300235 258 40 BBS1 Exon 4 of BBS1(+) BBS1 3'-UTR of BBS1(+): 727bp after coding stop - 0 3.000000e-02 0 0 3 1 1 1 -9.181819e-01 -8.402759e-01 1 18 1 18 1 66282095 66300235 1 66282070 -25 66300233 -2 6 9.006251e-01 1 3 76 0 11 1 66281894 -201 66300078 -157 1 8.059296e-01 1 0 70 23 TGCAGCTGGTGGTAGGGGACCTT 11 1 1 LUSC-60-2722 45 17 0 27487325 17 0 41625807 long_range 14138485 17 0 0 0 26_samples:0 27487081 27487323 243 47 41625574 41625808 235 48 MYO18A Intron of MYO18A(-): 6Kb after exon 2 ETV4 Promoter of ETV4(-): 2Kb from tx start - 0 0 3.000000e-02 2.000000e-02 3 0 2 0 -2.949337e-01 -2.170277e-01 1 17 1 17 1 27487323 41625808 1 27487325 2 41625807 -1 5 8.957517e-01 0 0 74 12 TTGCTCGATCAA 39 1 -1 -27487324 -1 -41625809 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 42 3 0 109527512 3 0 109545656 inversion 18142 17 0 0 0 26_samples:0 109527247 109527514 268 58 109545370 109545656 287 66 FLJ25363 IGR: 399Kb before FLJ25363(+) FLJ25363 IGR: 417Kb before FLJ25363(+) - 0 0 0 0 2 3 3 0 5.620326e-01 1.185281e+00 9.936797e-01 1.689255e+01 1 1.689255e+01 1 109527514 109545656 1 109527512 -2 109545656 0 13 9.934863e-01 0 2 66 0 30 1 109527710 196 109545732 76 1 8.423631e-01 0 1 74 23 AGATGGATGATACTAGAACATAT 12 1 2.500000e+00 LUSC-60-2722 43 3 1 181553820 3 0 181716774 tandem_dup 162863 17 0 0 0 26_samples:0 181553821 181553931 111 15 181716467 181716684 218 38 SOX2 IGR: 124Kb before SOX2(+) SOX2 IGR: 287Kb before SOX2(+) - 2.000000e-02 6.000000e-02 0 0 4 0 5 0 -2.787927e+00 -9.960879e-01 9.846154e-01 1.673846e+01 1 1.673846e+01 1 181553821 181716684 1 181553820 -1 181716774 90 20 9.588871e-01 1 2 72 0 112 1 181553620 -201 181716888 204 1 7.756392e-01 1 3 77 0 22 1 5.090909e+00 LUSC-60-2722 41 18 0 48852984 21 1 19080164 inter_chr NaN 18 0 0 0 26_samples:0 48852681 48852984 304 60 19080164 19080422 259 51 MEX3C IGR: 152Kb before MEX3C(-) C21orf91 IGR: 81Kb before C21orf91(-) - 1.100000e-01 6.000000e-02 1.000000e-02 2.000000e-02 2 6 3 0 7.178446e-01 1.669040e-02 8.888889e-01 16 1 16 1 48852984 19080164 1 48852995 11 19080166 2 1 1.000001e+00 0 1 69 0 14 1 -1 -48852985 -1 -19080165 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2722 48 5 0 114311217 22 0 17565624 inter_chr NaN 16 0 0 0 26_samples:0 114311000 114311218 219 47 17565357 17565556 200 41 TRIM36 IGR: 149Kb before TRIM36(-) IL17RA Promoter of IL17RA(+): 293bp from tx start - 0 0 0 2.000000e-02 2 1 1 0 -2.949337e-01 -7.623699e-01 1 16 1 16 1 114311218 17565556 1 114311217 -1 17565624 68 7 9.162350e-01 0 3 51 0 14 1 -1 -114311219 -1 -17565557 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 46 19 0 55737949 19 1 55892242 deletion 154306 17 0 0 0 26_samples:0 55737646 55737946 301 63 55892252 55892549 298 70 TMEM86B IGR: 57bp before TMEM86B(-) TMEM190 IGR: 4Kb before TMEM190(+) - 0 0 3.000000e-02 9.000000e-02 3 0 2 2 9.515627e-01 1.496905e+00 8.907154e-01 1.514216e+01 1 1.514216e+01 1 55737946 55892252 1 55737949 3 55892242 -10 14 9.374920e-01 0 3 85 0 35 1 -1 -55737947 -1 -55892253 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 52 4 1 46673278 4 1 46674714 inversion 1405 15 0 0 0 26_samples:0 46673309 46673558 250 47 46674714 46674957 244 40 COX7B2 IGR: 64Kb before COX7B2(-) COX7B2 IGR: 62Kb before COX7B2(-) - 1.800000e-01 8.000000e-02 0 0 4 3 1 0 -2.949337e-01 -8.402759e-01 1 15 1 15 1 46673309 46674714 1 46673278 -31 46674714 0 19 9.872316e-01 1 2 77 0 26 1 -1 -46673310 -1 -46674715 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 54 6 1 134813449 6 0 135267311 tandem_dup 453805 15 0 0 0 26_samples:0 134813506 134813725 220 36 135267092 135267311 220 40 SGK1 IGR: 323Kb before SGK1(-) ALDH8A1 Intron of ALDH8A1(-): 2Kb before exon 2 - 0 0 3.000000e-02 4.000000e-02 1 1 2 0 -1.151900e+00 -8.402759e-01 1 15 1 15 1 134813506 135267311 1 134813449 -57 135267311 0 10 9.801926e-01 1 8 77 0 18 1 -1 -134813507 -1 -135267312 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 55 7 1 5518250 7 1 5608133 inversion 89902 15 0 0 0 26_samples:0 5518270 5518469 200 49 5608172 5608414 243 54 FBXL18 3'-UTR of FBXL18(-): 3Kb after coding stop FSCN1 IGR: 24Kb before FSCN1(+) - 0 0 7.000000e-02 9.000000e-02 1 0 4 1 -1.391217e-01 2.504085e-01 1 15 1 15 1 5518270 5608172 1 5518250 -20 5608133 -39 7 9.797034e-01 1 2 74 0 12 1 -1 -5518271 -1 -5608173 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 57 11 1 28875128 11 0 28887103 tandem_dup 11907 15 0 0 0 26_samples:0 28875198 28875400 203 40 28886873 28887105 233 41 METT5D1 IGR: 745Kb before METT5D1(+) METT5D1 IGR: 757Kb before METT5D1(+) - 0 0 1.800000e-01 0 2 2 2 0 -8.402759e-01 -7.623699e-01 1 15 1 15 1 28875198 28887105 1 28875128 -70 28887103 -2 7 8.905906e-01 1 0 69 30 TATACTTAGCAAAATGAGAGAGTTGACGTG 29 1 -1 -28875199 -1 -28887106 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 56 7 0 70247163 7 1 70249308 deletion 2194 15 0 0 0 26_samples:0 70246893 70247121 229 53 70249315 70249534 220 64 AUTS2 Intron of AUTS2(+): 379bp after exon 15 AUTS2 Intron of AUTS2(+): 613bp before exon 16 Deletion within intron 0 0 0 0 0 1 2 1 1.725024e-01 1.029469e+00 9.999744e-01 1.499962e+01 1 1.499962e+01 1 70247121 70249315 1 70247163 42 70249308 -7 8 9.768857e-01 0 2 74 0 13 1 -1 -70247122 -1 -70249316 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 58 16 1 48383571 16 0 48496694 tandem_dup 113127 15 0 0 0 26_samples:0 48383570 48383827 258 52 48496368 48496697 330 66 LONP2 Intron of LONP2(+): 1Kb after exon 14 N4BP1 IGR: 76Kb before N4BP1(-) - 0 0 0 0 2 0 3 0 9.459642e-02 1.185281e+00 9.936797e-01 1.490520e+01 1 1.490520e+01 1 48383570 48496697 1 48383571 1 48496694 -3 6 9.596043e-01 1 5 63 0 16 1 -1 -48383571 -1 -48496698 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 53 5 1 117124613 11 0 39368001 inter_chr NaN 15 0 0 0 26_samples:0 117124609 117124893 285 67 39367741 39368000 260 59 DTWD2 IGR: 1Mb before DTWD2(-) LRRC4C IGR: 768Kb before LRRC4C(-) - 0 0 0 0 2 1 2 0 1.263187e+00 6.399386e-01 9.820962e-01 1.473144e+01 1 1.473144e+01 1 117124609 39368000 1 117124613 4 39368001 1 14 9.948020e-01 1 0 74 0 30 1 -1 -117124610 -1 -39368001 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 62 2 0 141575676 2 1 141848729 deletion 273045 14 0 0 0 26_samples:0 141575359 141575675 317 62 141848720 141848965 246 54 LRP1B Intron of LRP1B(-): 4Kb before exon 32 LRP1B Intron of LRP1B(-): 29Kb before exon 8 Deletion of 24 exons: out of frame 0 0 0 0 2 0 1 1 8.414147e-01 2.528173e-01 1 14 1 14 1 141575675 141848720 1 141575676 1 141848729 9 19 9.722895e-01 0 3 71 0 27 1 -1 -141575676 -1 -141848721 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 63 5 0 104508461 5 0 104669665 inversion 161270 14 0 0 0 26_samples:0 104508152 104508391 240 56 104669420 104669661 242 51 RAB9BP1 IGR: 73Kb before RAB9BP1(+) RAB9BP1 IGR: 234Kb before RAB9BP1(+) - 1.300000e-01 4.000000e-02 0 0 2 2 3 0 3.999667e-01 3.209331e-02 1 14 1 14 1 104508391 104669661 1 104508461 70 104669665 4 18 9.824780e-01 0 4 80 0 38 1 -1 -104508392 -1 -104669662 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 65 11 1 2520874 11 0 14140527 long_range 11619622 14 0 0 0 26_samples:0 2520875 2521101 227 48 14140277 14140497 221 43 KCNQ1 Intron of KCNQ1(+): 28Kb before exon 2 SPON1 Intron of SPON1(+): 16Kb before exon 6 Protein fusion: out of frame (SPON1-KCNQ1) 0 0 0 0 2 1 1 0 -1.886307e-01 -5.565040e-01 1 14 1 14 1 2520875 14140497 1 2520874 -1 14140527 30 9 9.475199e-01 1 0 78 34 AAAACCACATGTGGTTTTCTGTACAATGGTAGTA 32 1 2520674 -201 14140534 37 1 8.511517e-01 1 0 78 1 A 20 1 1.600000e+00 LUSC-60-2722 60 17 0 27194146 17 1 41986131 long_range 14792000 15 0 0 0 26_samples:0 27193867 27194137 271 62 41986137 41986425 289 69 MIR144 IGR: 6Kb before MIR144(-) MPP2 Promoter of MPP2(-): 1Kb from tx start - 3.000000e-02 4.000000e-02 0 0 2 1 2 2 8.736567e-01 1.418999e+00 9.314808e-01 1.397221e+01 1 1.397221e+01 1 27194137 41986137 1 27194146 9 41986131 -6 3 8.861913e-01 0 0 71 11 ATTCTGTGGCT 29 1 -1 -27194138 -1 -41986138 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 66 12 1 125412482 12 0 125424336 tandem_dup 11739 14 0 0 0 26_samples:0 125412599 125412812 214 54 125424110 125424338 229 54 UBC IGR: 16Kb before UBC(-) DHX37 IGR: 7Kb before DHX37(-) - 0 0 2.700000e-01 1.300000e-01 3 0 2 0 2.528173e-01 2.528173e-01 9.936407e-01 1.391097e+01 1 1.391097e+01 1 125412599 125424338 1 125412482 -117 125424336 -2 12 9.693049e-01 1 4 83 0 22 1 -1 -125412600 -1 -125424339 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 61 2 1 57791510 2 1 57799675 inversion 8165 14 0 0 0 26_samples:0 57791506 57791761 256 49 57799671 57799917 247 67 VRK2 IGR: 482Kb before VRK2(+) VRK2 IGR: 474Kb before VRK2(+) - 0 0 0 0 2 0 1 0 -1.150560e-01 1.209288e+00 9.909162e-01 1.387283e+01 1 1.387283e+01 1 57791506 57799671 1 57791510 4 57799675 4 19 9.675742e-01 1 0 76 0 33 1 -1 -57791507 -1 -57799672 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 72 11 0 7999263 11 0 16563467 long_range 8564201 13 0 0 0 26_samples:0 7999004 7999255 252 48 16563246 16563456 211 49 EIF3F IGR: 10Kb before EIF3F(+) C11orf58 IGR: 197Kb before C11orf58(+) - 0 0 9.000000e-02 6.000000e-02 4 0 4 3 -1.886307e-01 -1.150560e-01 1 13 1 13 1 7999255 16563456 1 7999263 8 16563467 11 15 8.339178e-01 0 0 75 0 44 1 -1 -7999256 -1 -16563457 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 69 3 0 181553944 3 0 189157767 long_range 7603823 13 0 0 0 26_samples:0 181553817 181553944 128 15 189157573 189157767 195 32 SOX2 IGR: 124Kb before SOX2(+) TP63 IGR: 191Kb before TP63(+) - 2.000000e-02 6.000000e-02 0 0 4 0 5 0 -2.616595e+00 -1.365825e+00 9.846154e-01 1.280000e+01 1 1.280000e+01 1 181553944 189157767 1 -1 -181553945 -1 -189157768 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -181553945 -1 -189157768 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-60-2722 40 17 1 37334053 17 1 37344597 inversion 10581 18 0 0 0 26_samples:0 37334054 37334335 282 52 37344635 37344840 206 54 CACNB1 Intron of CACNB1(-): 183bp after exon 12 CACNB1 Intron of CACNB1(-): 781bp before exon 4 Antisense fusion 0 0 2.000000e-02 3.000000e-02 7 0 5 0 9.459642e-02 2.504085e-01 6.924768e-01 1.246458e+01 1 1.246458e+01 1 37334054 37344635 1 37334053 -1 37344597 -38 10 9.475889e-01 1 3 77 0 16 1 -1 -37334055 -1 -37344636 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 68 17 1 37580010 17 1 37582919 inversion 2908 14 0 0 0 26_samples:0 37580020 37580270 251 62 37582928 37583184 257 71 MED1 Exon 12 of MED1(-) MED1 Intron of MED1(-): 1Kb after exon 10 Antisense fusion 1.000000e-02 2.000000e-02 3.000000e-02 3.000000e-02 2 1 2 0 8.414147e-01 1.503587e+00 8.867533e-01 1.241455e+01 1 1.241455e+01 1 37580020 37582928 1 37580010 -10 37582919 -9 13 9.663212e-01 1 2 73 0 42 1 -1 -37580021 -1 -37582929 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 73 3 1 181673201 3 0 181690369 tandem_dup 17141 12 0 0 0 26_samples:0 181673202 181673430 229 47 181690098 181690343 246 53 SOX2 IGR: 243Kb before SOX2(+) SOX2 IGR: 261Kb before SOX2(+) - 0 0 0 0 2 0 3 1 -2.622054e-01 1.792427e-01 1 12 1 12 1 181673202 181690343 1 181673201 -1 181690369 26 12 9.929028e-01 1 2 71 0 71 1 -1 -181673203 -1 -181690344 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 77 19 0 37096518 19 1 37099476 deletion 2965 12 0 0 0 26_samples:0 37096287 37096513 227 43 37099478 37099707 230 60 ZNF382 5'-UTR of ZNF382(+): 4Kb before coding start ZNF382 5'-UTR of ZNF382(+): 1Kb before coding start Deletion within transcript 0 0 0 0 0 1 1 0 -5.565040e-01 6.942653e-01 1 12 1 12 1 37096513 37099478 1 37096518 5 37099476 -2 4 9.841823e-01 0 0 69 0 9 1 -1 -37096514 -1 -37099479 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 64 9 1 75422152 9 0 75688789 tandem_dup 266644 14 0 0 0 26_samples:0 75422150 75422448 299 69 75688493 75688794 302 71 TMC1 Intron of TMC1(+): 2Kb after exon 18 ANXA1 IGR: 78Kb before ANXA1(+) - 2.400000e-01 2.100000e-01 0 0 2 1 2 0 1.356437e+00 1.503587e+00 8.483368e-01 1.187672e+01 1 1.187672e+01 1 75422150 75688794 1 75422152 2 75688789 -5 11 9.758303e-01 1 2 65 0 24 1 -1 -75422151 -1 -75688795 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 51 3 1 110450783 17 0 64639649 inter_chr NaN 15 0 0 0 26_samples:0 110450783 110451009 227 72 64639423 64639649 227 46 PVRL3 IGR: 340Kb before PVRL3(+) PRKCA Intron of PRKCA(+): 2Kb before exon 5 - 0 0 0 0 3 0 5 1 1.652717e+00 -3.728397e-01 7.703845e-01 1.155577e+01 1 1.155577e+01 1 110450783 64639649 1 110450767 -16 64639657 8 1 7.823527e-01 1 0 75 0 8 1 -1 -110450784 -1 -64639650 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2722 75 6 1 31539221 6 0 90165115 long_range 58625894 12 0 0 0 26_samples:0 31539217 31539459 243 56 90164786 90165111 326 70 LTA Promoter of LTA(+): 659bp from tx start ANKRD6 5'-UTR of ANKRD6(+): 112Kb before coding start Transcript fusion (ANKRD6-LTA) 0 0 3.000000e-02 3.000000e-02 2 0 1 0 3.999667e-01 1.430012e+00 9.263431e-01 1.111612e+01 1 1.111612e+01 1 31539217 90165111 1 31539221 4 90165115 4 16 9.686083e-01 1 3 58 0 28 1 -1 -31539218 -1 -90165112 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 79 4 1 62565090 6 1 19771714 inter_chr NaN 11 0 0 0 26_samples:0 62565086 62565312 227 46 19771783 19772005 223 50 LPHN3 Intron of LPHN3(+): 22Kb after exon 3 ID4 IGR: 66Kb before ID4(+) - 0 0 4.000000e-02 5.000000e-02 1 1 2 3 -3.016902e-01 -2.483920e-02 1 11 1 11 1 62565086 19771783 1 62565090 4 19771714 -69 8 9.306003e-01 1 0 46 0 15 1 -1 -62565087 -1 -19771784 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 80 7 0 97399197 16 1 15796991 inter_chr NaN 11 0 0 0 26_samples:0 97398926 97399199 274 60 15797024 15797285 262 51 TAC1 IGR: 38Kb before TAC1(+) NDE1 Intron of NDE1(+): 6Kb after exon 8 - 0 0 0 0 2 1 2 0 6.672882e-01 4.437354e-02 1 11 1 11 1 97399199 15797024 1 97399197 -2 15796991 -33 9 9.067236e-01 0 0 76 3 TTT 26 1 -1 -97399200 -1 -15797025 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 81 11 0 39411592 11 0 41672460 long_range 2260857 11 0 0 0 26_samples:0 39411409 39411586 178 30 41672238 41672443 206 39 LRRC4C IGR: 724Kb before LRRC4C(-) LRRC4C IGR: 2Mb before LRRC4C(-) - 0 7.000000e-02 7.000000e-02 0 3 0 3 0 -1.409094e+00 -7.861793e-01 1 11 1 11 1 39411586 41672443 1 39411592 6 41672460 17 9 9.067327e-01 0 0 76 36 CAAAGACATAAATTTTCTTTGATAATTACTGAGGCT 47 1 -1 -39411587 -1 -41672444 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 82 11 1 68997715 11 1 68999079 inversion 1341 11 0 0 0 26_samples:0 68997749 68998018 270 52 68999090 68999343 254 51 MYEOV IGR: 64Kb before MYEOV(+) MYEOV IGR: 63Kb before MYEOV(+) - 0 0 0 0 1 1 1 0 1.135863e-01 4.437354e-02 1 11 1 11 1 68997749 68999090 1 68997715 -34 68999079 -11 8 9.784951e-01 1 3 78 0 24 1 -1 -68997750 -1 -68999091 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 84 16 0 15797983 16 1 15808764 deletion 10837 11 0 0 0 26_samples:0 15797661 15797920 260 55 15808757 15808942 186 44 MYH11 Exon 41 of MYH11(-) MYH11 Intron of MYH11(-): 9bp after exon 40 Deletion within transcript: mid-exon 0 0 0 0 2 1 1 0 3.212245e-01 -4.401156e-01 1 11 1 11 1 15797920 15808757 1 15797983 63 15808764 7 11 9.888261e-01 0 4 58 0 29 1 15797955 35 15808547 -210 4 8.559325e-01 0 9 72 0 10 1 2.900000e+00 LUSC-60-2722 85 17 0 34003182 17 1 39489467 long_range 5486311 11 0 0 0 26_samples:0 34002992 34003171 180 42 39489482 39489678 197 51 AP2B1 Intron of AP2B1(+): 2Kb after exon 17 KRT33A IGR: 13Kb before KRT33A(-) - 0 0 0 0 2 0 1 0 -5.785411e-01 4.437354e-02 1 11 1 11 1 34003171 39489482 1 34003182 11 39489467 -15 4 9.101607e-01 0 2 70 53 CTAGATGCCTCACTGGCTCAGATTACGTACTAATATCCTGTGAATCTACTAAA 24 1 -1 -34003172 -1 -39489483 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 70 3 1 181704464 3 0 181801912 tandem_dup 97434 13 0 0 0 26_samples:0 181704471 181704714 244 67 181801595 181801905 311 72 SOX2 IGR: 275Kb before SOX2(+) SOX2 IGR: 372Kb before SOX2(+) - 0 0 0 0 3 0 1 1 1.209288e+00 1.577161e+00 8.311234e-01 1.080460e+01 1 1.080460e+01 1 181704471 181801905 1 181704464 -7 181801912 7 7 8.867891e-01 1 1 78 0 45 1 -1 -181704472 -1 -181801906 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 50 3 1 109500572 17 0 20941423 inter_chr NaN 15 0 0 0 26_samples:0 109500568 109500860 293 73 20941142 20941422 281 57 FLJ25363 IGR: 372Kb before FLJ25363(+) USP22 Intron of USP22(-): 5Kb after exon 1 - 1.000000e-02 0 0 0 2 1 1 0 1.730623e+00 4.841266e-01 7.194173e-01 1.079126e+01 1 1.079126e+01 1 109500568 20941422 1 109500572 4 20941423 1 9 9.548650e-01 1 2 66 0 17 1 -1 -109500569 -1 -20941423 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 86 2 0 191473085 2 0 191474168 inversion 1136 10 0 0 0 26_samples:0 191472754 191473034 281 64 191473962 191474170 209 52 NAB1 IGR: 41Kb before NAB1(+) NAB1 IGR: 40Kb before NAB1(+) - 2.000000e-02 2.000000e-02 7.000000e-02 7.000000e-02 1 1 0 1 9.441392e-01 1.135863e-01 1 10 1 10 1 191473034 191474170 1 191473085 51 191474168 -2 4 9.671001e-01 0 2 62 0 22 1 -1 -191473035 -1 -191474171 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 88 4 1 65020878 6 1 130061373 inter_chr NaN 10 0 0 0 26_samples:0 65020878 65021026 149 32 130061373 130061523 151 28 TECRL IGR: 123Kb before TECRL(-) ARHGAP18 IGR: 30Kb after ARHGAP18(-) - 0 0 0 0 2 1 1 2 -1.270669e+00 -1.547519e+00 1 10 1 10 1 65020878 130061373 1 65020965 87 130061439 66 2 7.736291e-01 1 0 71 0 11 1 65020965 87 130061439 66 3 7.656298e-01 1 0 71 0 3 0 3.666667e+00 LUSC-60-2722 91 7 0 75379301 7 1 75380956 deletion 1655 10 0 0 0 26_samples:0 75379129 75379301 173 27 75380956 75381108 153 25 CCL26 IGR: 20Kb before CCL26(-) CCL26 IGR: 18Kb before CCL26(-) - 1.000000e-01 1.400000e-01 4.000000e-02 7.000000e-02 3 1 3 0 -1.616732e+00 -1.755158e+00 1 10 1 10 1 75379301 75380956 1 75379260 -41 75380754 -202 4 7.965474e-01 0 5 96 0 16 1 75379503 202 75380841 -115 2 8.535397e-01 0 2 114 10 TGGTCGCCGT 12 0 1.333333e+00 LUSC-60-2722 92 17 1 22086568 17 1 37274616 long_range 15188048 10 0 0 0 26_samples:0 22086568 22086778 211 33 37274616 37274823 208 45 FLJ36000 IGR: 183Kb before FLJ36000(+) PLXDC1 Intron of PLXDC1(-): 9Kb before exon 3 - 0 0 2.000000e-02 7.000000e-02 1 0 1 0 -1.201456e+00 -3.709029e-01 1 10 1 10 1 22086568 37274616 1 22086548 -20 37274613 -3 5 7.967891e-01 1 1 64 7 ACAAGGA 14 1 -1 -22086569 -1 -37274617 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2722 87 3 0 109369117 17 1 22140368 inter_chr NaN 10 0 0 0 26_samples:0 109368866 109369114 249 67 22140384 22140622 239 53 FLJ25363 IGR: 240Kb before FLJ25363(+) FLJ36000 IGR: 236Kb before FLJ36000(+) - 5.000000e-02 6.000000e-02 5.000000e-02 4.000000e-02 2 1 3 0 1.151777e+00 1.827990e-01 9.965158e-01 9.965158e+00 1 9.965158e+00 1 109369114 22140384 1 109369117 3 22140368 -16 6 8.721413e-01 0 1 69 11 TCCCAGAATTA 35 1 -1 -109369115 -1 -22140385 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 67 17 1 30702949 17 1 38594326 long_range 7891380 14 0 0 0 26_samples:0 30702949 30703277 329 68 38594329 38594570 242 48 ZNF207 IGR: 5Kb after ZNF207(+) IGFBP4 IGR: 5Kb before IGFBP4(+) - 0 0 2.200000e-01 9.000000e-02 2 0 7 1 1.282863e+00 -1.886307e-01 6.877318e-01 9.628245e+00 1 9.628245e+00 1 30702949 38594329 1 30702949 0 38594326 -3 10 9.520869e-01 1 2 70 10 TAGAGATGGT 13 1 -1 -30702950 -1 -38594330 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 6 1 0 173381657 17 0 38446352 inter_chr NaN 32 0 0 0 26_samples:0 173381376 173381664 289 47 38446061 38446356 296 43 LOC646870 IGR: 50Kb before LOC646870(-) CDC6 Intron of CDC6(+): 506bp after exon 2 - 0 0 5.000000e-02 1.400000e-01 10 0 5 2 -3.931228e-01 -7.637470e-01 2.846548e-01 9.108952e+00 1 9.108952e+00 1 173381664 38446356 1 173381657 -7 38446352 -4 20 9.473295e-01 0 0 80 0 45 1 -1 -173381665 -1 -38446357 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 94 5 1 113123546 22 0 48310840 inter_chr NaN 9 0 0 0 26_samples:0 113123568 113123765 198 42 48310591 48310817 227 39 YTHDC2 IGR: 274Kb before YTHDC2(+) FLJ46257 IGR: 294Kb before FLJ46257(-) - 3.000000e-02 3.000000e-02 0 0 4 0 2 1 -5.140104e-01 -7.066962e-01 1 9 1 9 1 113123568 48310817 1 113123546 -22 48310840 23 14 9.663734e-01 1 1 72 0 29 1 -1 -113123569 -1 -48310818 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 97 7 0 49022246 7 1 49023129 deletion 895 9 0 0 0 26_samples:0 49021981 49022226 246 52 49023121 49023380 260 64 CDC14C IGR: 58Kb before CDC14C(+) CDC14C IGR: 59Kb before CDC14C(+) - 0 0 0 0 1 1 1 2 1.282753e-01 8.990182e-01 1 9 1 9 1 49022226 49023121 1 49022246 20 49023129 8 11 9.763717e-01 0 1 86 0 14 1 49022337 111 49022919 -202 2 7.644817e-01 0 1 83 0 6 1 2.333333e+00 LUSC-60-2722 98 7 1 75373920 7 1 94379680 long_range 19005760 9 0 0 0 26_samples:0 75373920 75374091 172 34 94379680 94379861 182 35 HIP1 IGR: 6Kb after HIP1(-) PEG10 IGR: 94Kb before PEG10(+) - 6.000000e-02 3.000000e-02 1.900000e-01 1.000000e-01 4 2 4 1 -1.027839e+00 -9.636105e-01 1 9 1 9 1 75373920 94379680 1 75373922 2 94379603 -77 2 7.995364e-01 1 1 75 26 GGCCAAATGAATAAAATAGCCTGTCG 5 1 -1 -75373921 -1 -94379681 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2722 104 17 1 18108889 17 1 26969932 long_range 8861041 9 0 0 0 26_samples:0 18108900 18109107 208 56 26969941 26970221 281 65 ALKBH5 Intron of ALKBH5(+): 1Kb before exon 3 KIAA0100 Exon 5 of KIAA0100(-) Protein fusion: mid-exon (KIAA0100-ALKBH5) 0 0 0 0 2 0 2 0 3.851896e-01 9.632468e-01 1 9 1 9 1 18108900 26969941 1 18108889 -11 26969932 -9 11 9.720351e-01 1 1 72 0 22 1 -1 -18108901 -1 -26969942 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 105 21 1 23173916 21 0 23732314 tandem_dup 558389 9 0 0 0 26_samples:0 23173922 23174161 240 41 23732052 23732311 260 59 NCAM2 IGR: 263Kb after NCAM2(+) NCAM2 IGR: 1Mb before NCAM2(+) - 0 0 3.000000e-02 8.000000e-02 2 0 3 0 -5.782390e-01 5.778753e-01 1 9 1 9 1 23173922 23732311 1 23173916 -6 23732314 3 5 9.392598e-01 1 0 64 26 TCTGCAGAGGTTACTGCTGTCTTTTT 15 1 -1 -23173923 -1 -23732312 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 101 17 0 33324534 17 0 39505394 long_range 6180849 9 0 0 0 26_samples:0 33324325 33324520 196 54 39505167 39505369 203 40 LIG3 Intron of LIG3(+): 237bp before exon 12 KRT33A Intron of KRT33A(-): 229bp after exon 2 Protein fusion: in frame (LIG3-KRT33A) 0 0 7.000000e-02 1.300000e-01 5 0 2 1 2.567325e-01 -6.424676e-01 9.846154e-01 8.861538e+00 1 8.861538e+00 1 33324520 39505369 1 33324534 14 39505394 25 2 9.098507e-01 0 0 74 50 GGTTGGAAAGGAGGGTACAGGGAACCATGCTATTAACATTGTTAATAGGG 30 1 -1 -33324521 -1 -39505370 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 14 2 1 221443 2 1 11339826 long_range 11118387 25 0 0 0 26_samples:0 221435 221730 296 77 11339822 11340119 298 68 SH3YL1 Intron of SH3YL1(-): 2Kb before exon 9 ROCK2 Intron of ROCK2(-): 922bp before exon 24 Antisense fusion 0 0 0 0 2 0 1 1 2.178209e+00 1.424292e+00 3.525007e-01 8.812518e+00 1 8.812518e+00 1 221435 11339822 1 221443 8 11339826 4 20 9.815356e-01 1 2 69 0 39 1 -1 -221436 -1 -11339823 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 95 6 0 48725905 6 0 54949284 long_range 6223394 9 0 0 0 26_samples:0 48725655 48725887 233 60 54949002 54949281 280 70 MUT IGR: 672Kb before MUT(-) HCRTR2 IGR: 90Kb before HCRTR2(+) - 0 6.000000e-02 0 0 1 0 2 1 6.421039e-01 1.284390e+00 9.775164e-01 8.797648e+00 1 8.797648e+00 1 48725887 54949281 1 48725905 18 54949284 3 4 9.670407e-01 0 1 76 0 30 1 -1 -48725888 -1 -54949282 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 96 6 1 76853236 6 1 87434252 long_range 10580982 9 0 0 0 26_samples:0 76853276 76853510 235 71 87434258 87434487 230 64 IMPG1 IGR: 222Kb before IMPG1(-) HTR1E IGR: 213Kb before HTR1E(+) - 2.400000e-01 1.500000e-01 0 0 3 2 2 1 1.348618e+00 8.990182e-01 9.593530e-01 8.634177e+00 1 8.634177e+00 1 76853276 87434258 1 76853236 -40 87434252 -6 4 9.910256e-01 1 6 76 0 12 1 -1 -76853277 -1 -87434259 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 74 4 0 74395355 4 0 74396601 inversion 1247 12 0 0 0 26_samples:0 74395059 74395339 281 57 74396375 74396586 212 51 RASSF6 IGR: 44Kb before RASSF6(-) RASSF6 IGR: 42Kb before RASSF6(-) - 0 0 5.000000e-02 1.100000e-01 7 0 1 2 4.735413e-01 3.209331e-02 7.032967e-01 8.439560e+00 1 8.439560e+00 1 74395339 74396586 1 74395355 16 74396601 15 20 8.860848e-01 0 0 79 10 ATGAAGAGAT 73 1 -1 -74395340 -1 -74396587 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 112 6 0 31599235 7 0 5609521 inter_chr NaN 8 0 0 0 26_samples:0 31598991 31599195 205 54 5609317 5609521 205 47 BAT2 Exon 16 of BAT2(+) FSCN1 IGR: 23Kb before FSCN1(+) - 0 0 0 0 3 0 2 0 2.567325e-01 -1.928676e-01 1 8 1 8 1 31599195 5609521 1 31599235 40 5609521 0 3 8.888946e-01 0 0 66 15 CTGTTCTCATCTGTG 14 1 -1 -31599196 -1 -5609522 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 113 8 0 140780889 8 1 141169177 deletion 388336 8 0 0 0 26_samples:0 140780635 140780892 258 49 141169228 141169388 161 25 TRAPPC9 Intron of TRAPPC9(-): 36Kb before exon 22 TRAPPC9 Intron of TRAPPC9(-): 62Kb after exon 17 Deletion of 4 exons: out of frame 5.000000e-02 0 0 0 1 0 2 0 -6.441042e-02 -1.605896e+00 1 8 1 8 1 140780892 141169228 1 140780889 -3 141169177 -51 7 9.172452e-01 0 0 66 7 TACAATG 24 1 -1 -140780893 -1 -141169229 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 114 8 0 94079596 23 0 11953149 inter_chr NaN 8 0 0 0 26_samples:0 94079349 94079541 193 32 11952984 11953145 162 19 C8orf83 IGR: 184Kb before C8orf83(-) MSL3 IGR: 175Kb before MSL3(+) - 2.000000e-02 2.000000e-02 0 0 2 0 4 0 -1.156296e+00 -1.991268e+00 1 8 1 8 1 94079541 11953145 1 94079596 55 11953149 4 10 9.220106e-01 0 0 64 0 26 1 94079719 178 11953350 205 3 8.432938e-01 0 4 74 0 23 1 1.130435e+00 LUSC-60-2722 115 13 1 19490903 21 0 19080805 inter_chr NaN 8 0 0 0 26_samples:0 19490908 19491147 240 55 19080560 19080801 242 53 LOC284232 IGR: 45Kb after LOC284232(-) C21orf91 IGR: 80Kb before C21orf91(-) - 6.000000e-02 3.000000e-02 1.000000e-02 3.000000e-02 1 1 3 1 3.209610e-01 1.925039e-01 1 8 1 8 1 19490908 19080801 1 19490903 -5 19080805 4 6 9.413413e-01 1 1 74 0 18 1 -1 -19490909 -1 -19080802 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 111 6 1 36602861 6 0 81554658 long_range 44951797 8 0 0 0 26_samples:0 36602861 36603108 248 52 81554385 81554658 274 66 SFRS3 IGR: 41Kb before SFRS3(+) BCKDHB IGR: 499Kb after BCKDHB(+) - 0 0 0 0 1 0 3 0 1.282753e-01 1.027475e+00 9.999793e-01 7.999834e+00 1 7.999834e+00 1 36602861 81554658 1 36602832 -29 81554654 -4 1 7.813967e-01 1 0 65 22 ATGTCTGGACATATATATATAT 16 1 -1 -36602862 -1 -81554659 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2722 106 3 1 181740049 3 0 189130127 long_range 7389924 8 0 0 0 26_samples:0 181740058 181740147 90 17 189129796 189129982 187 35 SOX2 IGR: 310Kb before SOX2(+) TP63 IGR: 219Kb before TP63(+) - 0 3.000000e-02 0 0 4 1 5 1 -2.119725e+00 -9.636105e-01 9.846154e-01 7.876923e+00 1 7.876923e+00 1 181740058 189129982 1 181740049 -9 189130127 145 9 9.668570e-01 1 4 73 0 63 1 -1 -181740059 -1 -189129983 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 109 4 0 127186821 7 1 65750807 inter_chr NaN 8 0 0 0 26_samples:0 127186562 127186821 260 58 65750807 65751023 217 46 MIR2054 IGR: 758Kb before MIR2054(+) TPST1 Intron of TPST1(+): 691bp before exon 3 - 0 0 0 0 5 0 2 2 5.136467e-01 -2.570961e-01 9.846154e-01 7.876923e+00 1 7.876923e+00 1 127186821 65750807 1 -1 -127186822 -1 -65750808 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -127186822 -1 -65750808 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-60-2722 49 22 1 19585689 22 0 19596766 tandem_dup 11054 16 0 0 0 26_samples:0 19585709 19585969 261 57 19596450 19596763 314 77 LOC150185 IGR: 32Kb before LOC150185(-) LOC150185 IGR: 43Kb before LOC150185(-) - 0 0 6.000000e-02 1.400000e-01 4 0 3 1 4.841266e-01 2.042247e+00 4.690055e-01 7.504088e+00 1 7.504088e+00 1 19585709 19596763 1 19585689 -20 19596766 3 11 9.532700e-01 1 4 70 0 43 1 -1 -19585710 -1 -19596764 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 117 1 1 156943895 1 0 157272597 tandem_dup 328608 7 0 0 0 26_samples:0 156943937 156944137 201 57 157272336 157272545 210 54 ARHGEF11 Intron of ARHGEF11(-): 2Kb before exon 8 ETV3 IGR: 170Kb before ETV3(-) - 1.000000e-02 0 0 0 3 0 3 0 4.279923e-01 2.578156e-01 1 7 1 7 1 156943937 157272545 1 156943895 -42 157272597 52 8 9.521495e-01 1 0 66 0 36 1 -1 -156943938 -1 -157272546 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 120 3 0 150346135 9 1 131713772 inter_chr NaN 7 0 0 0 26_samples:0 150345920 150346135 216 39 131713772 131713966 195 37 SELT 3'-UTR of SELT(+): 1Kb after coding stop NUP188 Intron of NUP188(+): 1Kb before exon 3 - 2.000000e-02 2.000000e-02 0 0 2 0 3 1 -5.930675e-01 -7.065186e-01 1 7 1 7 1 150346135 131713772 1 150346339 204 131713772 0 6 7.741716e-01 0 3 74 0 31 1 150346339 204 131713772 0 2 8.180324e-01 0 3 74 0 13 0 2.384615e+00 LUSC-60-2722 122 4 1 136785991 17 1 64638980 inter_chr NaN 7 0 0 0 26_samples:0 136785988 136786152 165 24 64639112 64639229 118 11 PCDH18 IGR: 2Mb before PCDH18(-) PRKCA Intron of PRKCA(+): 2Kb after exon 4 - 0 0 3.000000e-02 4.000000e-02 2 0 3 0 -1.443951e+00 -2.181383e+00 1 7 1 7 1 136785988 64639112 1 136785991 3 64638980 -132 20 9.198088e-01 1 0 70 0 31 1 -1 -136785989 -1 -64639113 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 124 6 1 54800771 6 0 87437852 long_range 32637054 7 0 0 0 26_samples:0 54800771 54800971 201 52 87437628 87437825 198 41 FAM83B Intron of FAM83B(+): 4Kb before exon 5 HTR1E IGR: 209Kb before HTR1E(+) - 0 0 0 0 3 1 2 0 1.443646e-01 -4.796164e-01 1 7 1 7 1 54800771 87437825 1 54800771 0 87437852 27 2 9.409369e-01 1 0 67 15 ACACGGGCTCATGTT 9 1 54800799 28 87437753 -72 1 8.407393e-01 1 0 76 4 TTGN 6 1 1.500000e+00 LUSC-60-2722 125 8 1 50920709 8 0 50928689 tandem_dup 7831 7 0 0 0 26_samples:0 50920845 50920945 101 13 50928494 50928676 183 35 SNTG1 5'-UTR of SNTG1(+): 386Kb before coding start SNTG1 5'-UTR of SNTG1(+): 378Kb before coding start Duplication within transcript 0 0 0 2.000000e-02 1 0 0 0 -2.067932e+00 -8.199697e-01 1 7 1 7 1 50920845 50928676 1 50920709 -136 50928689 13 9 9.758111e-01 1 1 75 0 31 1 -1 -50920846 -1 -50928677 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 129 17 1 33988112 17 1 39473963 long_range 5485851 7 0 0 0 26_samples:0 33988112 33988280 169 54 39473963 39474094 132 28 AP2B1 Intron of AP2B1(+): 3Kb after exon 14 KRTAP17-1 Promoter of KRTAP17-1(-): 2Kb from tx start Transcript fusion (KRTAP17-1-AP2B1) 0 0 1.600000e-01 5.000000e-02 3 1 3 1 2.578156e-01 -1.217049e+00 1 7 1 7 1 33988112 39473963 1 33988114 2 39473910 -53 1 7.997954e-01 1 0 69 58 AAGATAAGGGGCAGTCAAGAGCTTAAAGGGTAATCTGCTTAATTATCTGATTTACCCT 37 1 -1 -33988113 -1 -39473964 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2722 36 2 1 239553776 4 0 46681298 inter_chr NaN 18 0 0 0 26_samples:0 239553777 239554078 302 75 46680955 46681306 352 74 TWIST2 IGR: 203Kb before TWIST2(+) COX7B2 IGR: 56Kb before COX7B2(-) - 3.000000e-02 0 4.000000e-02 8.000000e-02 3 0 3 1 1.886435e+00 1.808529e+00 3.856188e-01 6.941138e+00 1 6.941138e+00 1 239553777 46681306 1 239553776 -1 46681298 -8 20 9.779716e-01 1 0 75 0 39 1 -1 -239553778 -1 -46681307 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 21 19 1 55734270 19 0 55956663 tandem_dup 222381 23 0 0 0 26_samples:0 55734266 55734560 295 79 55956401 55956647 247 54 TMEM86B IGR: 4Kb before TMEM86B(-) SHISA7 Promoter of SHISA7(-): 2Kb from tx start - 0 4.000000e-02 0 0 1 1 2 0 2.345747e+00 2.515306e-01 2.909351e-01 6.691508e+00 1 6.691508e+00 1 55734266 55956647 1 55734270 4 55956663 16 13 9.781319e-01 1 3 70 0 31 1 -1 -55734267 -1 -55956648 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 133 2 1 191473093 11 0 23289704 inter_chr NaN 6 0 0 0 26_samples:0 191473127 191473353 227 67 23289444 23289661 218 49 NAB1 IGR: 41Kb before NAB1(+) SVIP IGR: 446Kb before SVIP(-) - 0 0 0 0 1 0 1 0 9.952477e-01 -2.581208e-02 1 6 1 6 1 191473127 23289661 1 191473093 -34 23289704 43 6 9.856593e-01 1 1 75 0 9 1 191472776 -351 23289786 125 1 8.208422e-01 1 0 65 8 TGTGTGAC 16 1 5.625000e-01 LUSC-60-2722 136 3 0 109501838 17 1 21241961 inter_chr NaN 6 0 0 0 26_samples:0 109501588 109501774 187 33 21242007 21242117 111 22 FLJ25363 IGR: 373Kb before FLJ25363(+) KCNJ12 IGR: 38Kb before KCNJ12(+) - 0 0 0 0 3 1 3 0 -9.334208e-01 -1.557402e+00 1 6 1 6 1 109501774 21242007 1 109501838 64 21241961 -46 5 9.814924e-01 0 4 56 0 11 1 109502125 351 21241942 -65 1 7.802437e-01 0 0 52 28 AATTCCTTCATTTTACAGAAAACTAAAC 27 1 4.074074e-01 LUSC-60-2722 138 4 0 136786009 17 0 64639712 inter_chr NaN 6 0 0 0 26_samples:0 136785745 136786009 265 62 64639511 64639712 202 40 PCDH18 IGR: 2Mb before PCDH18(-) PRKCA Intron of PRKCA(+): 2Kb before exon 5 - 1.200000e-01 1.200000e-01 0 0 2 2 2 1 7.116200e-01 -5.363420e-01 1 6 1 6 1 136786009 64639712 1 -1 -136786010 -1 -64639713 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -136786010 -1 -64639713 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-60-2722 143 7 1 97399195 16 0 15811203 inter_chr NaN 6 0 0 0 26_samples:0 97399195 97399352 158 22 15811081 15811203 123 30 TAC1 IGR: 38Kb before TAC1(+) MYH11 Exon 38 of MYH11(-) - 0 0 0 0 2 0 2 0 -1.557402e+00 -1.103597e+00 1 6 1 6 1 97399195 15811203 1 -1 -97399196 -1 -15811204 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -97399196 -1 -15811204 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-60-2722 144 9 0 101629530 9 1 101630980 deletion 1450 6 0 0 0 26_samples:0 101629354 101629530 177 34 101630980 101631160 181 38 GALNT12 IGR: 60Kb before GALNT12(+) GALNT12 IGR: 61Kb before GALNT12(+) - 0 0 6.000000e-02 0 2 0 1 1 -8.766952e-01 -6.497931e-01 1 6 1 6 1 101629530 101630980 1 101629582 52 101630927 -53 2 8.482706e-01 0 1 76 0 12 1 -1 -101629531 -1 -101630981 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2722 146 11 1 14128110 11 1 29387827 long_range 15259717 6 0 0 0 26_samples:0 14128110 14128296 187 56 29387827 29387971 145 17 SPON1 Intron of SPON1(+): 27Kb after exon 5 KCNA4 IGR: 644Kb before KCNA4(-) - 0 0 0 0 1 1 3 1 3.712667e-01 -1.841029e+00 1 6 1 6 1 14128110 29387827 1 -1 -14128111 -1 -29387828 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -14128111 -1 -29387828 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-60-2722 149 17 1 26101233 17 1 34826727 long_range 8725494 6 0 0 0 26_samples:0 26101233 26101320 88 3 34826727 34826876 150 37 NOS2 Intron of NOS2(-): 50bp after exon 12 ZNHIT3 IGR: 16Kb before ZNHIT3(+) - 0 0 0 0 2 0 4 0 -2.635187e+00 -7.065186e-01 1 6 1 6 1 26101233 34826727 1 26101233 0 34826545 -182 1 9.100671e-01 1 3 79 1 C 10 1 -1 -26101234 -1 -34826728 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2722 150 17 1 34826548 17 1 41996633 long_range 7170085 6 0 0 0 26_samples:0 34826548 34826764 217 50 41996633 41996808 176 51 ZNHIT3 IGR: 16Kb before ZNHIT3(+) C17orf88 IGR: 2Kb before C17orf88(+) - 2.000000e-02 0 4.000000e-02 4.000000e-02 4 1 1 0 3.091346e-02 8.763901e-02 1 6 1 6 1 34826548 41996633 1 -1 -34826549 -1 -41996634 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -34826549 -1 -41996634 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-60-2722 151 17 0 39486110 17 1 41504071 long_range 2017961 6 0 0 0 26_samples:0 39485971 39486110 140 37 41504071 41504232 162 49 KRTAP17-1 IGR: 15Kb before KRTAP17-1(-) MIR2117 IGR: 18Kb before MIR2117(+) - 0 0 1.000000e-02 0 2 0 4 0 -7.065186e-01 -2.581208e-02 1 6 1 6 1 39486110 41504071 1 39486470 360 41503947 -124 2 8.679394e-01 0 20 87 0 14 1 39486470 360 41503947 -124 1 7.885907e-01 0 20 87 0 15 0 9.333333e-01 LUSC-60-2722 141 6 1 52599099 6 0 52607560 tandem_dup 8413 6 0 0 0 26_samples:0 52599102 52599303 202 42 52607254 52607515 262 68 GSTA7P IGR: 5Kb before GSTA7P(-) GSTA7P 3'-UTR of GSTA7P(-): 2Kb after coding stop - 0 0 0 0 1 0 1 1 -4.228909e-01 1.051973e+00 9.998596e-01 5.999158e+00 1 5.999158e+00 1 52599102 52607515 1 52599099 -3 52607560 45 3 9.557148e-01 1 0 70 0 18 1 -1 -52599103 -1 -52607516 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 140 6 0 44014396 6 0 44202575 inversion 188179 6 0 0 0 26_samples:0 44014156 44014396 241 70 44202367 44202575 209 59 C6orf223 IGR: 46Kb before C6orf223(+) SLC29A1 IGR: 687bp after SLC29A1(+) - 0 4.000000e-02 0 0 1 1 2 1 1.165424e+00 5.414434e-01 9.954935e-01 5.972961e+00 1 5.972961e+00 1 44014396 44202575 1 44014471 75 44202935 360 6 8.510934e-01 0 9 73 0 20 1 44014471 75 44202935 360 5 9.268469e-01 0 9 73 0 16 0 1.250000e+00 LUSC-60-2722 37 11 1 39400488 11 0 67591490 long_range 28190997 18 0 0 0 26_samples:0 39400485 39400726 242 47 67591209 67591482 274 53 LRRC4C IGR: 735Kb before LRRC4C(-) LOC645332 IGR: 32Kb before LOC645332(-) - 0 0 2.900000e-01 2.200000e-01 3 1 9 2 -2.949337e-01 1.725024e-01 3.301719e-01 5.943095e+00 1 5.943095e+00 1 39400485 67591482 1 39400488 3 67591490 8 7 9.578547e-01 1 2 60 16 TTCTGTAACAAATCAT 30 1 39400279 -206 67591420 -62 3 8.420792e-01 1 5 78 0 10 1 3 LUSC-60-2722 116 17 0 25316250 17 0 25319922 inversion 3692 8 0 0 0 26_samples:0 25316009 25316230 222 60 25319603 25319922 320 78 WSB1 IGR: 305Kb before WSB1(+) WSB1 IGR: 301Kb before WSB1(+) - 5.000000e-02 1.900000e-01 7.000000e-02 2.800000e-01 1 1 3 1 6.421039e-01 1.798218e+00 6.534623e-01 5.227698e+00 1 5.227698e+00 1 25316230 25319922 1 25316250 20 25319922 0 7 9.878454e-01 0 3 64 0 26 1 -1 -25316231 -1 -25319923 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 152 2 0 36558695 2 0 129379179 long_range 92820484 5 0 0 0 26_samples:0 36558517 36558695 179 45 129379038 129379179 142 43 CRIM1 IGR: 25Kb before CRIM1(+) HS6ST1 IGR: 356Kb before HS6ST1(-) - 0 0 0 0 1 1 1 0 -2.075808e-01 -3.148630e-01 1 5 1 5 1 36558695 129379179 1 36558762 67 129379245 66 1 7.958858e-01 0 1 76 1 G 10 1 -1 -36558696 -1 -129379180 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2722 155 2 1 141341426 2 1 141343988 inversion 2574 5 0 0 0 26_samples:0 141341432 141341618 187 44 141344006 141344240 235 56 LRP1B Intron of LRP1B(-): 15Kb after exon 43 LRP1B Intron of LRP1B(-): 12Kb after exon 43 Antisense fusion 0 0 0 0 0 0 1 1 -2.612219e-01 3.824714e-01 1 5 1 5 1 141341432 141344006 1 141341426 -6 141343988 -18 2 9.840126e-01 1 3 62 0 10 1 -1 -141341433 -1 -141344007 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 156 2 0 141942640 2 1 142067815 deletion 125233 5 0 0 0 26_samples:0 141942441 141942639 199 45 142067872 142068075 204 42 LRP1B Intron of LRP1B(-): 3Kb after exon 7 LRP1B Intron of LRP1B(-): 56Kb before exon 4 Deletion of 4 exons: out of frame 0 0 0 0 1 1 2 0 -2.075808e-01 -3.685041e-01 1 5 1 5 1 141942639 142067872 1 141942640 1 142067815 -57 7 9.770854e-01 0 0 73 0 15 1 -1 -141942640 -1 -142067873 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 162 3 1 109501862 17 0 21242119 inter_chr NaN 5 0 0 0 26_samples:0 109501961 109502147 187 44 21241980 21242118 139 42 FLJ25363 IGR: 373Kb before FLJ25363(+) KCNJ12 IGR: 38Kb before KCNJ12(+) - 0 0 0 0 2 1 3 0 -2.612219e-01 -3.685041e-01 1 5 1 5 1 109501961 21242118 1 109501862 -99 21242119 1 7 9.556971e-01 1 4 68 0 15 1 -1 -109501962 -1 -21242119 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 168 6 1 47578942 6 0 67397046 long_range 19818104 5 0 0 0 26_samples:0 47578942 47579127 186 31 67396877 67397046 170 45 CD2AP Intron of CD2AP(+): 1Kb before exon 17 MCART3P IGR: 899Kb before MCART3P(+) - 0 0 0 0 2 0 2 0 -9.585562e-01 -2.075808e-01 1 5 1 5 1 47578942 67397046 1 47578916 -26 67397101 55 1 9.453980e-01 1 1 75 38 AGACATGTAAAGACATCACCTGGCTCATGTCAATTAGG 14 1 -1 -47578943 -1 -67397047 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2722 170 6 1 166047332 19 1 1021518 inter_chr NaN 5 0 0 0 26_samples:0 166047344 166047556 213 60 1021542 1021738 197 53 PDE10A Intron of PDE10A(-): 28Kb after exon 1 C19orf6 Promoter of C19orf6(-): 401bp from tx start Antisense fusion 0 0 9.000000e-02 4.000000e-02 2 2 2 0 5.970358e-01 2.215481e-01 1 5 1 5 1 166047344 1021542 1 166047332 -12 1021518 -24 4 9.701908e-01 1 1 75 0 12 1 -1 -166047345 -1 -1021543 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 173 8 0 83150247 14 1 53758623 inter_chr NaN 5 0 0 0 26_samples:0 83150034 83150247 214 56 53758623 53758812 190 52 SNX16 IGR: 438Kb before SNX16(-) DDHD1 IGR: 255Kb before DDHD1(-) - 0 3.000000e-02 0 0 3 0 4 1 3.824714e-01 1.679070e-01 1 5 1 5 1 83150247 53758623 1 83150124 -123 53758618 -5 1 9.785366e-01 0 0 76 0 19 1 -1 -83150248 -1 -53758624 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2722 176 11 0 2529261 11 1 16551319 long_range 14022058 5 0 0 0 26_samples:0 2529159 2529261 103 24 16551319 16551447 129 14 KCNQ1 Intron of KCNQ1(+): 20Kb before exon 2 SOX6 IGR: 53Kb after SOX6(-) - 6.000000e-02 7.000000e-02 0 0 4 0 2 0 -1.334044e+00 -1.870455e+00 1 5 1 5 1 2529261 16551319 1 -1 -2529262 -1 -16551320 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -2529262 -1 -16551320 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-60-2722 177 12 0 52882196 12 1 52884352 deletion 2048 5 0 0 0 26_samples:0 52882199 52882324 126 31 52884372 52884507 136 42 KRT6A Exon 7 of KRT6A(-) KRT6A Exon 5 of KRT6A(-) Deletion within transcript: mid-exon 1.700000e-01 2.300000e-01 1.900000e-01 6.000000e-02 1 0 2 0 -9.585562e-01 -3.685041e-01 1 5 1 5 1 52882324 52884372 1 52882196 -128 52884352 -20 2 8.611546e-01 0 2 86 0 10 1 -1 -52882325 -1 -52884373 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 159 3 0 89315656 3 1 140883398 long_range 51567742 5 0 0 0 26_samples:0 89315468 89315656 189 34 140883398 140883488 91 12 EPHA3 Intron of EPHA3(+): 56Kb after exon 3 SPSB4 IGR: 16Kb after SPSB4(+) - 0 0 5.000000e-02 5.000000e-02 5 1 2 0 -7.976329e-01 -1.977737e+00 9.846154e-01 4.923077e+00 1 4.923077e+00 1 89315656 140883398 1 89315687 31 140883042 -356 5 8.089183e-01 0 5 75 0 17 1 89315687 31 140883042 -356 5 8.228511e-01 0 5 75 0 14 0 1.214286e+00 LUSC-60-2722 181 17 1 26112552 17 0 30718224 long_range 4605672 5 0 0 0 26_samples:0 26112552 26112746 195 57 30718093 30718224 132 39 NOS2 Intron of NOS2(-): 2Kb after exon 5 ZNF207 IGR: 41Kb before ZNF207(+) - 0 4.000000e-02 1.600000e-01 2.800000e-01 5 1 1 1 4.361125e-01 -5.294274e-01 9.706382e-01 4.853191e+00 1 4.853191e+00 1 26112552 30718224 1 26112472 -80 30718221 -3 1 8.663045e-01 1 0 73 30 TTTCCTGTCAAGGGCTTGTTCCTGCCAACC 15 1 -1 -26112553 -1 -30718225 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2722 154 2 0 58399762 2 1 58401160 deletion 1490 5 0 0 0 26_samples:0 58399572 58399765 194 56 58401255 58401469 215 51 FANCL Intron of FANCL(-): 7Kb before exon 8 FANCL Intron of FANCL(-): 8Kb before exon 8 Deletion within intron 0 1.000000e-01 2.100000e-01 2.900000e-01 2 2 5 1 3.824714e-01 1.142659e-01 9.600384e-01 4.800192e+00 1 4.800192e+00 1 58399765 58401255 1 58399762 -3 58401160 -95 8 9.875356e-01 0 4 76 0 34 1 -1 -58399766 -1 -58401256 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 123 6 1 44468785 6 0 44480317 tandem_dup 11532 7 0 0 0 26_samples:0 44468785 44469035 251 82 44480071 44480317 247 69 CDC5L IGR: 54Kb after CDC5L(+) CDC5L IGR: 125Kb before CDC5L(+) - 0 0 0 0 1 0 1 1 1.846131e+00 1.108699e+00 6.219528e-01 4.353669e+00 1 4.353669e+00 1 44468785 44480317 1 44468583 -202 44480373 56 5 8.431251e-01 1 1 78 0 12 1 44468583 -202 44480373 56 3 8.649684e-01 1 1 78 0 13 0 9.230769e-01 LUSC-60-2722 217 5 0 22180918 5 1 22182561 deletion 1760 4 0 0 0 26_samples:0 22180731 22180826 96 22 22182586 22182778 193 39 CDH12 5'-UTR of CDH12(-): 102Kb before coding start CDH12 5'-UTR of CDH12(-): 104Kb before coding start Deletion within transcript 1.400000e-01 3.000000e-02 3.000000e-02 1.100000e-01 0 0 1 1 -1.241332e+00 -4.291594e-01 1 4 1 4 1 22180826 22182586 1 22180918 92 22182561 -25 10 9.390038e-01 0 1 78 1 T 14 1 -1 -22180827 -1 -22182587 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 229 7 1 97399194 16 0 15812289 inter_chr NaN 4 0 0 0 26_samples:0 97399324 97399462 139 32 15812186 15812289 104 13 TAC1 IGR: 38Kb before TAC1(+) MYH11 Exon 37 of MYH11(-) - 2.000000e-02 0 0 0 2 1 1 0 -7.635833e-01 -1.671305e+00 1 4 1 4 1 97399324 15812289 1 97399194 -130 15812289 0 4 9.385608e-01 1 1 56 0 16 1 -1 -97399325 -1 -15812290 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2722 251 17 1 34248402 17 1 37671476 long_range 3423081 4 0 0 0 26_samples:0 34248405 34248625 221 58 37671486 37671737 252 67 RDM1 Intron of RDM1(-): 1Kb before exon 5 CDK12 Intron of CDK12(+): 498bp before exon 9 Protein fusion: out of frame (RDM1-CDK12) 0 0 0 0 2 1 3 2 4.785625e-01 9.085360e-01 1 4 1 4 1 34248405 37671486 1 34248402 -3 37671476 -10 3 8.294132e-01 1 2 81 18 CTACACACTAGACCAAAC 19 1 34248333 -72 37671461 -25 1 8.614836e-01 1 3 74 0 16 1 1.187500e+00 LUSC-60-2724 1 8 1 36821693 8 0 38250095 long_range 1428414 129 0 0 0 26_samples:0 36821688 36822025 338 55 38249780 38250102 323 54 KCNU1 IGR: 28Kb after KCNU1(+) LETM2 5'-UTR of LETM2(+): 52bp before coding start - 0 0 1.000000e-02 2.000000e-02 12 1 4 1 -3.102492e-01 -3.821931e-01 3.111114e-01 4.013337e+01 1 4.013337e+01 1 36821688 38250102 1 36821693 5 38250095 -7 20 9.882868e-01 1 5 81 0 147 1 36821621 -67 38250312 210 5 8.215001e-01 1 9 65 0 7 1 21 LUSC-60-2724 6 12 1 67146837 12 1 67149199 inversion 2356 39 0 0 0 26_samples:0 67146842 67147121 280 45 67149198 67149548 351 66 GRIP1 IGR: 406Kb before GRIP1(-) GRIP1 IGR: 408Kb before GRIP1(-) - 0 0 1.000000e-02 0 3 1 3 1 -1.029688e+00 4.811336e-01 1 39 1 39 1 67146842 67149198 1 67146837 -5 67149199 1 20 9.581645e-01 1 0 74 18 ATAAACCTTTGCAGATTT 80 1 -1 -67146843 -1 -67149199 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 8 12 1 69590305 12 1 70359969 inversion 769669 35 0 0 0 26_samples:0 69590302 69590579 278 59 70359971 70360320 350 62 CPSF6 IGR: 43Kb before CPSF6(+) RAB3IP IGR: 187Kb before RAB3IP(+) - 0 0 0 0 4 0 5 2 -2.247364e-02 1.933580e-01 9.950029e-01 3.482510e+01 1 3.482510e+01 1 69590302 70359971 1 69590305 3 70359969 -2 20 9.974714e-01 1 2 71 0 34 1 -1 -69590303 -1 -70359972 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 10 5 0 16426848 5 1 16428349 deletion 1490 30 0 0 0 26_samples:0 16426500 16426854 355 56 16428344 16428603 260 46 ZNF622 IGR: 25Kb before ZNF622(-) ZNF622 IGR: 23Kb before ZNF622(-) - 0 0 0 0 2 2 1 0 -2.383053e-01 -9.577442e-01 1 30 1 30 1 16426854 16428344 1 16426848 -6 16428349 5 17 9.809500e-01 0 2 69 0 34 1 -1 -16426855 -1 -16428345 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 11 8 0 38013332 16 1 27650452 inter_chr NaN 29 0 0 0 26_samples:0 38013068 38013334 267 53 27650459 27650776 318 53 LSM1 IGR: 8Kb before LSM1(-) KIAA0556 Intron of KIAA0556(+): 8Kb after exon 5 - 1.000000e-02 3.000000e-02 0 0 4 2 3 1 -3.720453e-01 -3.720453e-01 1 29 1 29 1 38013334 27650459 1 38013332 -2 27650452 -7 20 9.636709e-01 0 0 72 0 38 1 38013426 92 27650253 -206 9 8.951685e-01 0 9 102 0 20 1 1.900000e+00 LUSC-60-2724 13 12 0 1156997 12 1 1338591 deletion 181589 24 0 0 0 26_samples:0 1156668 1157000 333 71 1338589 1338888 300 65 ERC1 Intron of ERC1(+): 19Kb after exon 2 ERC1 Intron of ERC1(+): 7Kb before exon 13 Deletion of 10 exons: out of frame 0 0 0 3.000000e-02 3 2 3 2 7.697499e-01 3.891515e-01 1 24 1 24 1 1157000 1338589 1 1156997 -3 1338591 2 6 9.724647e-01 0 3 75 0 12 1 -1 -1157001 -1 -1338590 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 14 10 0 77028851 10 1 77095465 deletion 66608 23 0 0 0 26_samples:0 77028563 77028852 290 56 77095460 77095764 305 58 COMTD1 IGR: 35Kb before COMTD1(-) ZNF503 IGR: 62Kb before ZNF503(-) - 1.000000e-02 0 1.000000e-02 1.000000e-02 3 1 3 1 -1.817461e-01 -5.487995e-02 1 23 1 23 1 77028852 77095460 1 77028851 -1 77095465 5 15 9.228976e-01 0 1 74 0 30 1 -1 -77028853 -1 -77095461 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 16 16 0 82779029 16 0 87478228 long_range 4699196 23 0 0 0 26_samples:0 82778707 82779037 331 70 87477933 87478233 301 66 CDH13 Intron of CDH13(+): 113Kb before exon 2 ZCCHC14 Intron of ZCCHC14(-): 11Kb before exon 3 Protein fusion: out of frame (CDH13-ZCCHC14) 3.000000e-02 1.000000e-02 0 0 3 1 1 0 7.063168e-01 4.525846e-01 1 23 1 23 1 82779037 87478233 1 82779029 -8 87478228 -5 20 9.951702e-01 0 2 69 0 28 1 -1 -82779038 -1 -87478234 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 17 10 0 3179870 10 1 3183976 deletion 4114 22 0 0 0 26_samples:0 3179442 3179866 425 69 3183980 3184262 283 49 PITRM1 IGR: 54bp before PITRM1(-) PITRM1 Intron of PITRM1(-): 976bp before exon 24 - 0 2.000000e-02 0 0 1 0 0 1 6.428838e-01 -6.257775e-01 1 22 1 22 1 3179866 3183980 1 3179870 4 3183976 -4 20 9.904835e-01 0 0 64 0 32 1 -1 -3179867 -1 -3183981 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 15 12 0 69578127 12 0 70356531 inversion 778395 23 0 0 0 26_samples:0 69577772 69578136 365 68 70356263 70356531 269 54 CPSF6 IGR: 55Kb before CPSF6(+) RAB3IP IGR: 184Kb before RAB3IP(+) - 0 2.000000e-02 1.000000e-02 0 2 1 6 1 5.794507e-01 -3.086122e-01 9.225346e-01 2.121830e+01 1 2.121830e+01 1 69578136 70356531 1 69578127 -9 70356531 0 20 9.967758e-01 0 2 71 0 34 1 -1 -69578137 -1 -70356532 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 21 16 0 83658943 16 1 85964170 long_range 2305235 21 0 0 0 26_samples:0 83658630 83658943 314 59 85964178 85964487 310 61 CDH13 Intron of CDH13(+): 23Kb after exon 8 IRF8 IGR: 31Kb before IRF8(+) - 0 0 0 0 2 0 2 1 8.553120e-03 1.354193e-01 1 21 1 21 1 83658943 85964178 1 83658943 0 85964170 -8 17 9.893574e-01 0 5 78 0 33 1 -1 -83658944 -1 -85964179 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 19 1 1 209501634 1 0 209614322 tandem_dup 112660 21 0 0 0 26_samples:0 209501647 209501899 253 46 209614040 209614307 268 56 LOC642587 IGR: 101Kb before LOC642587(+) MIR205 IGR: 9Kb before MIR205(+) - 0 0 0 3.000000e-02 3 0 5 3 -8.160767e-01 -1.817461e-01 9.917343e-01 2.082642e+01 1 2.082642e+01 1 209501647 209614307 1 209501634 -13 209614322 15 11 9.844412e-01 1 2 67 0 19 1 -1 -209501648 -1 -209614308 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 22 17 0 30583006 17 1 30612423 deletion 29428 21 0 0 0 26_samples:0 30582669 30582995 327 66 30612423 30612701 279 58 RHBDL3 IGR: 10Kb before RHBDL3(+) RHBDL3 Intron of RHBDL3(+): 587bp after exon 3 - 8.000000e-02 5.000000e-02 0 0 3 1 5 0 4.525846e-01 -5.487995e-02 9.917343e-01 2.082642e+01 1 2.082642e+01 1 30582995 30612423 1 30583006 11 30612423 0 17 9.865634e-01 0 2 69 0 26 1 -1 -30582996 -1 -30612424 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 24 12 0 62062345 12 1 62064508 deletion 2170 20 0 0 0 26_samples:0 62062072 62062347 276 43 62064517 62064848 332 57 FAM19A2 IGR: 40Kb before FAM19A2(-) FAM19A2 IGR: 38Kb before FAM19A2(-) - 0 0 6.000000e-02 0 3 0 1 1 -1.006376e+00 -1.183130e-01 1 20 1 20 1 62062347 62064517 1 62062345 -2 62064508 -9 14 9.986549e-01 0 2 72 0 24 1 -1 -62062348 -1 -62064518 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 25 17 1 2087209 17 0 2841129 tandem_dup 753935 20 0 0 0 26_samples:0 2087202 2087474 273 68 2840799 2841137 339 67 SMG6 Intron of SMG6(-): 3Kb after exon 12 RAP1GAP2 Intron of RAP1GAP2(+): 20Kb before exon 4 Antisense fusion 0 1.000000e-02 0 0 3 1 2 0 5.794507e-01 5.160176e-01 1 20 1 20 1 2087202 2841137 1 2087209 7 2841129 -8 9 9.973033e-01 1 2 68 0 18 1 -1 -2087203 -1 -2841138 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 26 17 0 70511141 17 1 70545185 deletion 34036 20 0 0 0 26_samples:0 70510882 70511144 263 57 70545180 70545460 281 53 SLC39A11 IGR: 131Kb before SLC39A11(-) SLC39A11 IGR: 97Kb before SLC39A11(-) - 0 0 0 0 2 0 2 2 -1.183130e-01 -3.720453e-01 1 20 1 20 1 70511144 70545180 1 70511141 -3 70545185 5 16 9.888453e-01 0 2 76 0 27 1 -1 -70511145 -1 -70545181 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 27 17 0 5262193 17 1 16162480 long_range 10900298 20 0 0 0 26_samples:0 5261900 5262189 290 61 16162487 16162769 283 78 RABEP1 Intron of RABEP1(+): 2Kb before exon 9 PIGL Intron of PIGL(+): 25Kb after exon 2 Protein fusion: out of frame (RABEP1-PIGL) 0 2.000000e-02 0 0 2 1 5 1 1.354193e-01 1.213781e+00 9.818653e-01 1.963731e+01 1 1.963731e+01 1 5262189 16162487 1 5262193 4 16162480 -7 11 9.977498e-01 0 2 82 0 21 1 -1 -5262190 -1 -16162488 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 18 17 1 5602171 17 0 5702330 tandem_dup 100159 22 0 0 0 26_samples:0 5602174 5602578 405 84 5702010 5702333 324 64 NLRP1 IGR: 185Kb before NLRP1(-) WSCD1 IGR: 272Kb before WSCD1(+) - 1.000000e-02 0 0 0 3 1 1 1 1.594380e+00 3.257184e-01 8.264553e-01 1.818202e+01 1 1.818202e+01 1 5602174 5702333 1 5602171 -3 5702330 -3 16 9.877738e-01 1 2 70 0 24 1 -1 -5602175 -1 -5702334 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 29 12 0 68301112 12 1 68305142 deletion 4037 18 0 0 0 26_samples:0 68300864 68301118 255 48 68305155 68305451 297 57 IFNG IGR: 247Kb before IFNG(-) IFNG IGR: 243Kb before IFNG(-) - 0 0 0 0 5 1 1 0 -6.032635e-01 -8.400290e-02 9.846154e-01 1.772308e+01 1 1.772308e+01 1 68301118 68305155 1 68301112 -6 68305142 -13 10 9.995894e-01 0 2 65 0 18 1 -1 -68301119 -1 -68305156 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 32 16 1 83974443 16 1 87638064 long_range 3663639 17 0 0 0 26_samples:0 83974454 83974711 258 54 87638093 87638335 243 52 OSGIN1 IGR: 8Kb before OSGIN1(+) JPH3 Intron of JPH3(+): 959bp after exon 1 - 0 0 0 0 1 0 1 0 -2.570898e-01 -3.724810e-01 1 17 1 17 1 83974454 87638093 1 83974443 -11 87638064 -29 20 9.790903e-01 1 3 82 0 34 1 -1 -83974455 -1 -87638094 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 33 16 0 87215995 16 1 87216841 deletion 838 17 0 0 0 26_samples:0 87215639 87216004 366 75 87216842 87217091 250 56 FBXO31 IGR: 147Kb before FBXO31(-) FBXO31 IGR: 146Kb before FBXO31(-) - 0 0 1.000000e-02 0 1 0 2 0 9.545183e-01 -1.416985e-01 1 17 1 17 1 87216004 87216842 1 87215995 -9 87216841 -1 20 9.956133e-01 0 4 63 0 31 1 -1 -87216005 -1 -87216843 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 34 20 0 40958989 20 1 40966479 deletion 7498 17 0 0 0 26_samples:0 40958722 40958988 267 55 40966486 40966803 318 56 PTPRT Intron of PTPRT(-): 14Kb before exon 12 PTPRT Intron of PTPRT(-): 13Kb after exon 11 Deletion within intron 0 0 0 0 3 0 2 1 -1.993942e-01 -1.416985e-01 1 17 1 17 1 40958988 40966486 1 40958989 1 40966479 -7 11 9.977006e-01 0 0 70 0 14 1 -1 -40958989 -1 -40966487 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 36 17 1 30954225 17 0 31001744 tandem_dup 47498 16 0 0 0 26_samples:0 30954244 30954474 231 43 31001528 31001742 215 38 MYO1D Intron of MYO1D(-): 11Kb after exon 20 MYO1D Intron of MYO1D(-): 15Kb before exon 17 Duplication of 4 exons: in frame 0 0 3.000000e-02 0 1 0 2 2 -8.917416e-01 -1.180220e+00 1 16 1 16 1 30954244 31001742 1 30954225 -19 31001744 2 4 9.239841e-01 1 1 68 21 GAAGCATTGTCAGAAATATAC 21 1 -1 -30954245 -1 -31001743 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 35 17 0 30216478 17 0 30286729 inversion 70245 16 0 0 0 26_samples:0 30216169 30216480 312 63 30286435 30286725 291 58 UTP6 Intron of UTP6(-): 58bp before exon 7 SUZ12 Intron of SUZ12(+): 6Kb before exon 5 Protein fusion: out of frame (SUZ12-UTP6) 0 6.000000e-02 7.000000e-02 8.000000e-02 4 1 5 1 2.621708e-01 -2.630728e-02 9.846154e-01 1.575385e+01 1 1.575385e+01 1 30216480 30286725 1 30216478 -2 30286729 4 7 1 0 7 67 0 20 1 -1 -30216481 -1 -30286726 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 37 17 0 57728477 17 1 57755006 deletion 26540 16 0 0 0 26_samples:0 57728206 57728482 277 47 57755022 57755295 274 48 CLTC Intron of CLTC(+): 82bp before exon 5 CLTC Intron of CLTC(+): 473bp after exon 17 Deletion of 13 exons: in frame 0 0 0 0 5 1 3 1 -6.609591e-01 -6.032635e-01 9.846154e-01 1.575385e+01 1 1.575385e+01 1 57728482 57755022 1 57728477 -5 57755006 -16 8 1 0 3 83 0 18 1 -1 -57728483 -1 -57755023 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 20 12 0 21738886 12 1 21743617 deletion 4734 21 0 0 0 26_samples:0 21738567 21738883 317 62 21743617 21744068 452 86 GYS2 Intron of GYS2(-): 5Kb before exon 2 GYS2 Intron of GYS2(-): 10Kb before exon 2 Deletion within intron 2.000000e-02 0 0 0 2 1 2 3 1.988523e-01 1.721246e+00 7.271728e-01 1.527063e+01 1 1.527063e+01 1 21738883 21743617 1 21738886 3 21743617 0 10 9.817240e-01 0 2 70 0 15 1 -1 -21738884 -1 -21743618 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 40 12 1 108776849 16 1 73424412 inter_chr NaN 15 0 0 0 26_samples:0 108776868 108777175 308 53 73424416 73424684 269 52 CMKLR1 IGR: 44Kb after CMKLR1(-) HTA IGR: 298Kb before HTA(+) - 0 0 0 0 2 0 1 0 -3.147854e-01 -3.724810e-01 1 15 1 15 1 108776868 73424416 1 108776849 -19 73424412 -4 18 9.914562e-01 1 2 61 0 27 1 -1 -108776869 -1 -73424417 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 42 23 0 137412446 23 1 146617355 long_range 9204924 15 0 0 0 26_samples:0 137412144 137412434 291 59 146617358 146617657 300 60 LOC158696 IGR: 284Kb before LOC158696(-) MIR514-2 IGR: 251Kb before MIR514-2(-) - 0 0 0 0 2 1 2 1 3.138834e-02 8.908396e-02 1 15 1 15 1 137412434 146617358 1 137412446 12 146617355 -3 13 9.912120e-01 0 2 76 0 14 1 -1 -137412435 -1 -146617359 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 23 1 1 200408433 12 0 3602637 inter_chr NaN 20 0 0 0 26_samples:0 200408427 200408862 436 86 3602372 3602635 264 50 ZNF281 IGR: 33Kb before ZNF281(-) PRMT8 Intron of PRMT8(+): 2Kb after exon 1 - 1.000000e-02 0 0 2.000000e-02 2 2 2 0 1.721246e+00 -5.623445e-01 7.271728e-01 1.454346e+01 1 1.454346e+01 1 200408427 3602635 1 200408433 6 3602637 2 11 9.884074e-01 1 2 66 0 27 1 -1 -200408428 -1 -3602636 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 4 5 0 40778263 8 0 37880636 inter_chr NaN 59 0 0 0 26_samples:0 40777866 40778272 407 59 37880301 37880639 339 62 PRKAA1 Intron of PRKAA1(-): 584bp before exon 2 EIF4EBP1 IGR: 7Kb before EIF4EBP1(+) - 1.000000e-02 1.000000e-01 1.000000e-02 2.000000e-02 5 3 11 2 -2.247364e-02 1.933580e-01 2.435667e-01 1.437043e+01 1 1.437043e+01 1 40778272 37880639 1 40778263 -9 37880636 -3 20 9.871491e-01 0 3 67 0 69 1 -1 -40778273 -1 -37880640 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 43 2 1 187508354 2 0 187687544 tandem_dup 179173 14 0 0 0 26_samples:0 187508369 187508654 286 65 187687280 187687542 263 61 ITGAV Intron of ITGAV(+): 2Kb after exon 10 ZSWIM2 IGR: 5Kb before ZSWIM2(-) - 0 2.000000e-02 0 0 2 1 2 1 3.748662e-01 1.583405e-01 1 14 1 14 1 187508369 187687542 1 187508354 -15 187687544 2 9 8.003340e-01 1 0 67 0 18 1 -1 -187508370 -1 -187687543 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 44 13 1 73113567 13 0 74192081 long_range 1078458 14 0 0 0 26_samples:0 73113587 73113862 276 62 74191773 74192045 273 51 C13orf37 IGR: 169Kb before C13orf37(-) KLF12 IGR: 68Kb before KLF12(-) - 0 0 0 0 2 0 2 1 2.124719e-01 -3.829738e-01 1 14 1 14 1 73113587 74192045 1 73113567 -20 74192081 36 14 9.755258e-01 1 4 71 0 17 1 -1 -73113588 -1 -74192046 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 45 17 1 15379314 17 0 15687209 tandem_dup 307867 14 0 0 0 26_samples:0 15379340 15379580 241 42 15686960 15687207 248 46 FAM18B2 IGR: 26Kb before FAM18B2(-) MEIS3P1 Promoter of MEIS3P1(+): 3Kb from tx start - 1.000000e-02 0 0 0 2 1 2 0 -8.701567e-01 -6.536310e-01 1 14 1 14 1 15379340 15687207 1 15379314 -26 15687209 2 13 9.290137e-01 1 0 72 0 35 1 -1 -15379341 -1 -15687208 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 2 8 1 36617106 8 1 36848410 inversion 231302 71 0 0 0 26_samples:0 36617105 36617556 452 70 36848407 36848681 275 49 KCNU1 IGR: 25Kb before KCNU1(+) KCNU1 IGR: 55Kb after KCNU1(+) - 1.000000e-02 2.000000e-02 0 0 4 2 12 2 7.689092e-01 -7.419126e-01 1.913943e-01 1.358900e+01 1 1.358900e+01 1 36617105 36848407 1 36617106 1 36848410 3 20 9.957414e-01 1 1 68 0 85 1 -1 -36617106 -1 -36848408 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 41 17 1 14768000 17 1 30736729 long_range 15968706 15 0 0 0 26_samples:0 14768035 14768287 253 54 30736741 30736938 198 43 CDRT7 IGR: 166Kb before CDRT7(+) PSMD11 IGR: 35Kb before PSMD11(+) - 0 2.000000e-02 0 0 6 3 2 0 -2.570898e-01 -8.917416e-01 8.888889e-01 1.333333e+01 1 1.333333e+01 1 14768035 30736741 1 14768000 -35 30736729 -12 6 9.857596e-01 1 5 73 0 12 1 -1 -14768036 -1 -30736742 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 9 8 1 36638289 8 0 36652014 tandem_dup 13735 32 0 0 0 26_samples:0 36638285 36638566 282 55 36651625 36652020 396 71 KCNU1 IGR: 4Kb before KCNU1(+) KCNU1 Intron of KCNU1(+): 7Kb after exon 2 - 1.000000e-02 4.000000e-02 0 0 3 2 9 1 -3.102492e-01 8.408531e-01 4.155527e-01 1.329769e+01 1 1.329769e+01 1 36638285 36652020 1 36638289 4 36652014 -6 20 9.869816e-01 1 2 67 0 78 1 36638084 -201 36652011 -9 3 7.820821e-01 1 0 67 7 AGGGAGG 14 1 5.571429e+00 LUSC-60-2724 39 7 1 17586252 7 0 17675415 tandem_dup 89163 15 0 0 0 26_samples:0 17586252 17586514 263 52 17675166 17675415 250 44 SNX13 IGR: 244Kb before SNX13(-) SNX13 IGR: 155Kb before SNX13(-) - 0 3.000000e-02 0 0 5 1 6 2 -3.724810e-01 -8.340460e-01 8.752137e-01 1.312821e+01 1 1.312821e+01 1 17586252 17675415 1 17586252 0 17675413 -2 7 7.786533e-01 1 0 74 34 AGATAGCATGAGCCTTCAAATGGAATGGCCTTCA 24 1 -1 -17586253 -1 -17675416 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2724 47 17 1 30190750 17 1 30216079 inversion 25336 13 0 0 0 26_samples:0 30190752 30191036 285 63 30216088 30216323 236 46 UTP6 Intron of UTP6(-): 217bp before exon 19 UTP6 Intron of UTP6(-): 216bp after exon 7 Antisense fusion 0 2.000000e-02 4.000000e-02 7.000000e-02 4 1 4 1 2.666034e-01 -6.536310e-01 1 13 1 13 1 30190752 30216088 1 30190750 -2 30216079 -9 4 9.784882e-01 1 2 103 0 14 1 -1 -30190753 -1 -30216089 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 46 17 0 258357 17 1 641834 deletion 383477 13 0 0 0 26_samples:0 258081 258357 277 60 641834 642080 247 53 C17orf97 Promoter of C17orf97(+): 2Kb from tx start FAM57A Intron of FAM57A(+): 547bp after exon 3 Transcript fusion (C17orf97-FAM57A) 8.000000e-02 1.200000e-01 1.000000e-02 0 5 2 4 1 1.042091e-01 -2.747110e-01 9.846154e-01 1.280000e+01 1 1.280000e+01 1 258357 641834 1 258392 35 641632 -202 15 8.068654e-01 0 4 99 0 15 1 258392 35 641632 -202 14 8.042805e-01 0 4 99 0 10 0 1.500000e+00 LUSC-60-2724 51 3 0 174257766 3 1 174261096 deletion 3333 11 0 0 0 26_samples:0 174257495 174257772 278 56 174261105 174261375 271 66 NAALADL2 IGR: 319Kb before NAALADL2(+) NAALADL2 IGR: 316Kb before NAALADL2(+) - 9.000000e-02 1.400000e-01 0 3.000000e-02 1 3 4 1 -8.753409e-02 4.235494e-01 1 11 1 11 1 174257772 174261105 1 174257766 -6 174261096 -9 6 9.791551e-01 0 3 79 0 11 1 -1 -174257773 -1 -174261106 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 53 6 0 162385230 6 1 162399358 deletion 14134 11 0 0 0 26_samples:0 162384963 162385236 274 68 162399370 162399673 304 67 PARK2 Intron of PARK2(-): 9Kb after exon 6 PARK2 Intron of PARK2(-): 5Kb before exon 6 Deletion of 1 exon: out of frame 0 2.000000e-02 0 0 1 2 2 0 5.257661e-01 4.746578e-01 1 11 1 11 1 162385236 162399370 1 162385230 -6 162399358 -12 13 9.974451e-01 0 7 75 0 20 1 -1 -162385237 -1 -162399371 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 55 12 0 118528793 12 1 118760133 deletion 231362 11 0 0 0 26_samples:0 118528499 118528788 290 73 118760150 118760454 305 76 VSIG10 Intron of VSIG10(-): 5Kb after exon 2 TAOK3 5'-UTR of TAOK3(-): 67Kb before coding start Transcript fusion (TAOK3-VSIG10) 1.000000e-02 3.000000e-02 3.000000e-02 3.000000e-02 2 1 3 2 7.813079e-01 9.346330e-01 1 11 1 11 1 118528788 118760150 1 118528793 5 118760133 -17 20 9.842884e-01 0 8 76 0 40 1 118528777 -11 118759949 -201 2 8.218549e-01 0 8 120 0 14 1 2.857143e+00 LUSC-60-2724 57 23 0 96283949 23 1 96289574 deletion 5656 11 0 0 0 26_samples:0 96283671 96283921 251 46 96289577 96289952 376 77 DIAPH2 Intron of DIAPH2(+): 44Kb before exon 18 DIAPH2 Intron of DIAPH2(+): 38Kb before exon 18 Deletion within intron 0 0 0 0 2 1 1 1 -5.986176e-01 9.857413e-01 1 11 1 11 1 96283921 96289577 1 96283949 28 96289574 -3 5 1 0 2 77 0 9 1 -1 -96283922 -1 -96289578 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 49 1 0 97999769 1 1 98337898 deletion 338228 11 0 0 0 26_samples:0 97999470 97999685 216 37 98337913 98338094 182 29 DPYD Intron of DPYD(-): 15Kb after exon 12 DPYD Intron of DPYD(-): 11Kb after exon 2 Deletion of 10 exons: in frame 0 0 3.000000e-02 0 5 1 2 3 -1.058593e+00 -1.467460e+00 9.846154e-01 1.083077e+01 1 1.083077e+01 1 97999685 98337913 1 97999769 84 98337898 -15 6 1 0 3 73 0 10 1 -1 -97999686 -1 -98337914 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 56 16 0 83985396 16 0 84166406 inversion 180912 11 0 0 0 26_samples:0 83985113 83985493 381 85 84166179 84166405 227 63 OSGIN1 Intron of OSGIN1(+): 601bp after exon 2 HSDL1 5'-UTR of HSDL1(-): 1Kb before coding start Transcript fusion (OSGIN1-HSDL1) 5.000000e-02 4.000000e-02 0 0 1 1 5 0 1.394608e+00 2.702244e-01 9.276165e-01 1.020378e+01 1 1.020378e+01 1 83985493 84166405 1 83985396 -97 84166406 1 5 9.210718e-01 0 0 63 10 CAGGATGCAC 23 1 -1 -83985494 -1 -84166406 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 58 1 0 146977852 1 1 147065306 deletion 87454 10 0 0 0 26_samples:0 146977624 146977852 229 34 147065306 147065544 239 43 BCL9 IGR: 35Kb before BCL9(+) BCL9 5'-UTR of BCL9(+): 18Kb before coding start - 0 2.000000e-02 0 0 1 2 4 0 -1.211918e+00 -7.519427e-01 1 10 1 10 1 146977852 147065306 1 -1 -146977853 -1 -147065307 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -146977853 -1 -147065307 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-60-2724 59 2 0 237363765 11 0 50412646 inter_chr NaN 10 0 0 0 26_samples:0 237363504 237363740 237 42 50412435 50412644 210 35 IQCA1 Intron of IQCA1(-): 10Kb after exon 6 LOC646813 IGR: 44Kb before LOC646813(+) - 0 0 9.000000e-02 1.100000e-01 2 1 4 3 -8.030510e-01 -1.160809e+00 1 10 1 10 1 237363740 50412644 1 237363765 25 50412646 2 8 9.972117e-01 0 3 68 0 14 1 -1 -237363741 -1 -50412645 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 61 4 0 1171121 4 1 1176842 deletion 5790 10 0 0 0 26_samples:0 1170860 1171051 192 33 1176841 1177032 192 38 LOC100130872-SPON2 3'-UTR of LOC100130872-SPON2(-): 32Kb after coding stop LOC100130872-SPON2 3'-UTR of LOC100130872-SPON2(-): 26Kb after coding stop - 0 0 0 2.000000e-02 0 0 2 0 -1.263026e+00 -1.007484e+00 1 10 1 10 1 1171051 1176841 1 1171121 70 1176842 1 15 9.606673e-01 0 3 75 0 27 1 -1 -1171052 -1 -1176842 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 62 8 0 88951709 8 1 88953490 deletion 1789 10 0 0 0 26_samples:0 88951427 88951707 281 66 88953496 88953727 232 57 DCAF4L2 IGR: 69Kb before DCAF4L2(-) DCAF4L2 IGR: 71Kb before DCAF4L2(-) - 2.000000e-02 0 0 0 4 1 1 2 4.235494e-01 -3.642573e-02 1 10 1 10 1 88951707 88953496 1 88951709 2 88953490 -6 6 9.922725e-01 0 1 63 0 17 1 -1 -88951708 -1 -88953497 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 52 4 0 91763422 4 1 92187917 deletion 424514 11 0 0 0 26_samples:0 91763014 91763417 404 79 92187931 92188322 392 88 FAM190A Intron of FAM190A(+): 26Kb after exon 8 FAM190A Intron of FAM190A(+): 181Kb after exon 10 Deletion of 2 exons: in frame 0 0 0 0 3 1 4 2 1.087958e+00 1.547933e+00 8.581490e-01 9.439639e+00 1 9.439639e+00 1 91763417 92187931 1 91763422 5 92187917 -14 11 9.956817e-01 0 1 69 0 13 1 -1 -91763418 -1 -92187932 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 64 2 0 229506089 11 1 51562692 inter_chr NaN 9 0 0 0 26_samples:0 229505758 229506089 332 77 51562683 51562970 288 76 PID1 IGR: 383Kb before PID1(-) OR4C46 IGR: 47Kb before OR4C46(+) - 0 0 1.000000e-02 0 3 1 3 0 9.437217e-01 8.961216e-01 1 9 1 9 1 229506089 51562683 1 229506089 0 51562692 9 7 9.750824e-01 0 1 72 2 GC 11 1 -1 -229506090 -1 -51562684 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 60 3 1 175498731 3 0 175625445 tandem_dup 126692 10 0 0 0 26_samples:0 175498728 175499006 279 71 175625148 175625420 273 55 NAALADL2 Intron of NAALADL2(+): 22Kb before exon 14 NAALADL2 IGR: 102Kb after NAALADL2(+) - 0 0 6.000000e-02 4.000000e-02 3 1 6 3 6.790912e-01 -1.386424e-01 8.888889e-01 8.888889e+00 1 8.888889e+00 1 175498728 175625420 1 175498731 3 175625445 25 9 9.811984e-01 1 3 72 0 20 1 -1 -175498729 -1 -175625421 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 66 3 1 123592068 13 0 82044501 inter_chr NaN 9 0 0 0 26_samples:0 123592077 123592331 255 72 82044214 82044506 293 72 MYLK 5'-UTR of MYLK(-): 79Kb before coding start SPRY2 IGR: 1Mb before SPRY2(-) - 0 0 4.000000e-02 0 5 3 5 2 7.057209e-01 7.057209e-01 9.694675e-01 8.725207e+00 1 8.725207e+00 1 123592077 82044506 1 123592068 -9 82044501 -5 7 9.958881e-01 1 3 70 0 9 1 -1 -123592078 -1 -82044507 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 28 10 0 113489154 10 1 113494955 deletion 5791 19 0 0 0 26_samples:0 113488891 113489160 270 64 113494951 113495360 410 95 GPAM IGR: 420Kb before GPAM(-) GPAM IGR: 415Kb before GPAM(-) - 2.000000e-02 0 0 2.000000e-02 1 1 2 3 3.198665e-01 2.108431e+00 4.233989e-01 8.044579e+00 1 8.044579e+00 1 113489160 113494951 1 113489154 -6 113494955 4 9 9.976138e-01 0 1 63 0 19 1 -1 -113489161 -1 -113494952 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 68 12 0 67291899 12 0 67312870 inversion 20969 9 0 0 0 26_samples:0 67291640 67291892 253 51 67312576 67312861 286 57 CAND1 IGR: 371Kb before CAND1(+) CAND1 IGR: 350Kb before CAND1(+) - 1.000000e-02 0 0 0 3 1 6 3 -2.938827e-01 -8.281681e-03 8.888889e-01 8 1 8 1 67291892 67312861 1 67291899 7 67312870 9 14 9.967765e-01 0 2 77 0 29 1 -1 -67291893 -1 -67312862 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 74 6 1 21190604 6 0 21208412 tandem_dup 17781 8 0 0 0 26_samples:0 21190606 21190822 217 44 21208151 21208387 237 54 CDKAL1 Intron of CDKAL1(+): 8Kb before exon 14 CDKAL1 Intron of CDKAL1(+): 7Kb after exon 15 Duplication of 2 exons: in frame 2.000000e-02 2.000000e-02 0 0 2 2 3 0 -6.270839e-01 -1.510822e-01 1 8 1 8 1 21190606 21208387 1 21190604 -2 21208412 25 2 1 1 1 68 0 14 1 -1 -21190607 -1 -21208388 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 77 17 0 12204658 17 1 21970422 long_range 9765747 8 0 0 0 26_samples:0 12204414 12204668 255 52 21970415 21970684 270 69 MIR744 IGR: 219Kb before MIR744(+) FLJ36000 IGR: 57Kb after FLJ36000(+) - 3.000000e-02 3.000000e-02 0 0 4 2 3 0 -2.462825e-01 5.629204e-01 1 8 1 8 1 12204668 21970415 1 12204658 -10 21970422 7 7 9.946765e-01 0 4 70 0 13 1 -1 -12204669 -1 -21970416 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 75 8 1 25011996 8 1 25088059 inversion 76041 8 0 0 0 26_samples:0 25012011 25012243 233 45 25088052 25088311 260 54 DOCK5 IGR: 30Kb before DOCK5(+) DOCK5 Intron of DOCK5(+): 13Kb before exon 2 - 7.000000e-02 4.000000e-02 0 2.000000e-02 5 0 3 2 -5.794837e-01 -1.510822e-01 9.846154e-01 7.876923e+00 1 7.876923e+00 1 25012011 25088052 1 25011996 -15 25088059 7 10 9.919730e-01 1 3 76 0 11 1 -1 -25012012 -1 -25088053 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 73 5 0 44364865 5 1 44365847 deletion 994 8 0 0 0 26_samples:0 44364558 44364868 311 73 44365862 44366142 281 71 FGF10 Intron of FGF10(-): 24Kb after exon 1 FGF10 Intron of FGF10(-): 23Kb after exon 1 Deletion within intron 0 0 0 0 5 0 5 2 7.533210e-01 6.581207e-01 9.694675e-01 7.755740e+00 1 7.755740e+00 1 44364868 44365862 1 44364865 -3 44365847 -15 4 9.944073e-01 0 2 71 0 10 1 -1 -44364869 -1 -44365863 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 38 3 0 88988208 3 1 89849234 deletion 861036 15 0 0 0 26_samples:0 88987824 88988194 371 69 89849230 89849477 248 49 EPHA3 IGR: 168Kb before EPHA3(+) EPHA3 IGR: 318Kb after EPHA3(+) - 0 0 0 0 4 2 8 2 6.083446e-01 -5.455679e-01 5.000000e-01 7.500000e+00 1 7.500000e+00 1 88988194 89849230 1 88988208 14 89849234 4 2 9.980019e-01 0 5 71 0 9 1 -1 -88988195 -1 -89849231 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 70 1 1 198728917 23 1 11731791 inter_chr NaN 8 0 0 0 26_samples:0 198728916 198729171 256 49 11731801 11732051 251 51 PTPRC IGR: 2Kb after PTPRC(+) MSL3 IGR: 44Kb before MSL3(+) - 0 0 0 0 6 4 2 0 -3.890830e-01 -2.938827e-01 8.888889e-01 7.111111e+00 1 7.111111e+00 1 198728916 11731801 1 198728917 1 11731791 -10 12 9.539357e-01 1 1 69 0 15 1 -1 -198728917 -1 -11731802 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 80 4 1 137267504 6 0 63378588 inter_chr NaN 7 0 0 0 26_samples:0 137267525 137267716 192 49 63378309 63378516 208 41 PCDH18 IGR: 1Mb before PCDH18(-) KHDRBS2 IGR: 382Kb after KHDRBS2(-) - 0 0 0 0 1 0 3 1 -3.138606e-01 -6.577307e-01 1 7 1 7 1 137267525 63378516 1 137267504 -21 63378588 72 3 9.784950e-01 1 1 71 0 6 1 -1 -137267526 -1 -63378517 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 82 6 1 125303080 6 0 125879742 tandem_dup 576625 7 0 0 0 26_samples:0 125303098 125303299 202 31 125879458 125879723 266 52 RNF217 Promoter of RNF217(+): 1Kb from tx start HEY2 IGR: 191Kb before HEY2(+) - 0 0 0 0 4 2 1 0 -1.087568e+00 -1.849093e-01 1 7 1 7 1 125303098 125879723 1 125303080 -18 125879742 19 6 1.000001e+00 1 3 79 0 13 1 125303066 -32 125879924 201 1 8.115229e-01 1 2 72 42 CTCAACTCTCCTGCTCAGGAGGCTGAGCTGGTTAATGAGGGA 14 1 9.285714e-01 LUSC-60-2724 90 12 0 70548265 12 0 70549544 inversion 1320 7 0 0 0 26_samples:0 70547974 70548206 233 60 70549328 70549526 199 67 CNOT2 IGR: 89Kb before CNOT2(+) CNOT2 IGR: 87Kb before CNOT2(+) - 0 0 0 0 3 1 2 2 1.589607e-01 4.598471e-01 1 7 1 7 1 70548206 70549526 1 70548265 59 70549544 18 7 9.763115e-01 0 3 76 0 16 1 -1 -70548207 -1 -70549527 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 91 14 0 67018980 14 1 67106826 deletion 87872 7 0 0 0 26_samples:0 67018731 67018976 246 50 67106848 67107072 225 45 GPHN Intron of GPHN(+): 44Kb after exon 1 GPHN Intron of GPHN(+): 41Kb before exon 2 Deletion within intron 0 0 6.000000e-02 2.000000e-02 2 1 3 2 -2.708769e-01 -4.857957e-01 1 7 1 7 1 67018976 67106848 1 67018980 4 67106826 -22 6 9.919111e-01 0 1 72 0 11 1 -1 -67018977 -1 -67106849 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 92 16 0 78668948 16 1 78676164 deletion 7282 7 0 0 0 26_samples:0 78668752 78668942 191 50 78676224 78676492 269 57 WWOX Intron of WWOX(+): 202Kb after exon 8 WWOX Intron of WWOX(+): 210Kb after exon 8 Deletion within intron 0 5.000000e-02 0 0 2 2 1 0 -2.708769e-01 3.000946e-02 1 7 1 7 1 78668942 78676224 1 78668948 6 78676164 -60 9 9.919691e-01 0 3 65 0 21 1 -1 -78668943 -1 -78676225 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 93 16 1 81356373 16 1 83405018 long_range 2048686 7 0 0 0 26_samples:0 81356368 81356612 245 70 83405054 83405307 254 56 GAN Intron of GAN(+): 7Kb after exon 1 CDH13 Intron of CDH13(+): 26Kb after exon 6 - 0 0 0 0 3 1 2 1 5.887983e-01 -1.297430e-02 1 7 1 7 1 81356368 83405054 1 81356373 5 83405018 -36 9 9.840512e-01 1 5 77 0 12 1 -1 -81356369 -1 -83405055 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 95 18 0 37135645 18 1 37140222 deletion 4567 7 0 0 0 26_samples:0 37135366 37135652 287 72 37140219 37140471 253 64 LOC647946 3'-UTR of LOC647946(-): 196Kb after coding stop LOC647946 3'-UTR of LOC647946(-): 192Kb after coding stop - 0 0 0 0 1 2 3 1 6.747659e-01 3.308958e-01 1 7 1 7 1 37135652 37140219 1 37135645 -7 37140222 3 6 9.903290e-01 0 4 66 0 11 1 -1 -37135653 -1 -37140220 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 87 11 0 51563425 11 0 57867781 long_range 6304298 7 0 0 0 26_samples:0 51563227 51563432 206 48 57867481 57867730 250 58 OR4C46 IGR: 48Kb before OR4C46(+) OR9Q1 5'-UTR of OR9Q1(+): 79Kb before coding start - 0 0 0 0 2 3 5 1 -3.568444e-01 7.299322e-02 9.846154e-01 6.892308e+00 1 6.892308e+00 1 51563432 57867730 1 51563425 -7 57867781 51 8 9.838308e-01 0 0 75 0 13 1 -1 -51563433 -1 -57867731 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 96 1 0 154050753 1 1 154053717 deletion 3004 6 0 0 0 26_samples:0 154050470 154050729 260 62 154053733 154053984 252 58 NUP210L Intron of NUP210L(-): 8Kb before exon 17 NUP210L Intron of NUP210L(-): 8Kb after exon 16 Deletion within intron 0 1.000000e-01 0 0 2 1 0 0 2.449283e-01 7.299322e-02 1 6 1 6 1 154050729 154053733 1 154050753 24 154053717 -16 8 1 0 1 72 0 13 1 154051003 274 154053381 -352 3 8.603157e-01 0 1 107 0 10 1 1.300000e+00 LUSC-60-2724 107 2 1 3458982 8 0 84574912 inter_chr NaN 6 0 0 0 26_samples:0 3459004 3459253 250 59 84574628 84574911 284 69 TTC15 Intron of TTC15(+): 2Kb before exon 7 RALYL IGR: 521Kb before RALYL(+) - 1.000000e-02 0 0 0 1 0 3 0 1.159770e-01 5.458146e-01 1 6 1 6 1 3459004 84574911 1 3458982 -22 84574912 1 6 9.964157e-01 1 2 62 0 10 1 -1 -3459005 -1 -84574912 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 112 4 0 67304500 4 1 67320317 deletion 15832 6 0 0 0 26_samples:0 67304162 67304481 320 73 67320313 67320566 254 56 CENPC1 IGR: 1Mb before CENPC1(-) CENPC1 IGR: 1Mb before CENPC1(-) - 0 0 0 0 4 1 3 3 7.177496e-01 -1.297430e-02 1 6 1 6 1 67304481 67320313 1 67304500 19 67320317 4 8 9.784961e-01 0 6 71 0 13 1 -1 -67304482 -1 -67320314 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 120 8 0 22768583 8 0 26470590 long_range 3702013 6 0 0 0 26_samples:0 22768379 22768540 162 45 26470293 26470553 261 68 PEBP4 Intron of PEBP4(-): 9Kb after exon 3 DPYSL2 Intron of DPYSL2(+): 11Kb before exon 4 Protein fusion: out of frame (DPYSL2-PEBP4) 0 0 0 0 2 0 3 1 -4.857957e-01 5.028308e-01 1 6 1 6 1 22768540 26470553 1 22768583 43 26470590 37 3 9.418219e-01 0 0 62 7 CCAGGGC 18 1 -1 -22768541 -1 -26470554 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 121 8 0 25806046 8 1 26469730 deletion 663700 6 0 0 0 26_samples:0 25805821 25806042 222 52 26469742 26470016 275 75 EBF2 Intron of EBF2(-): 40Kb before exon 7 DPYSL2 Intron of DPYSL2(+): 12Kb before exon 4 - 0 0 0 0 1 0 1 1 -1.849093e-01 8.037171e-01 1 6 1 6 1 25806042 26469742 1 25806046 4 26469730 -12 3 1 0 1 74 0 7 1 -1 -25806043 -1 -26469743 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 126 10 1 75500199 10 0 75780023 tandem_dup 279742 6 0 0 0 26_samples:0 75500211 75500384 174 31 75779768 75779953 186 34 SEC24C IGR: 4Kb before SEC24C(+) VCL Intron of VCL(+): 22Kb after exon 1 - 2.000000e-02 7.000000e-02 3.000000e-02 7.000000e-02 4 1 3 2 -1.087568e+00 -9.586170e-01 1 6 1 6 1 75500211 75779953 1 75500199 -12 75780023 70 9 1 1 3 67 0 23 1 -1 -75500212 -1 -75779954 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 122 8 0 25012304 8 1 26589903 long_range 1577612 6 0 0 0 26_samples:0 25012158 25012301 144 24 26589913 26590164 252 55 DOCK5 IGR: 30Kb before DOCK5(+) ADRA1A IGR: 16Kb before ADRA1A(-) - 0 0 0 0 5 0 2 1 -1.388455e+00 -5.595806e-02 9.846154e-01 5.907692e+00 1 5.907692e+00 1 25012301 26589913 1 25012304 3 26589903 -10 3 9.702925e-01 0 0 71 1 C 4 1 -1 -25012302 -1 -26589914 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 48 23 0 107656626 23 1 107890547 deletion 234012 12 0 0 0 26_samples:0 107656208 107656630 423 94 107890642 107890821 180 26 COL4A6 Intron of COL4A6(-): 25Kb after exon 2 COL4A5 Intron of COL4A5(+): 8Kb before exon 37 - 0 0 5.000000e-02 3.300000e-01 2 0 3 2 1.944678e+00 -1.736260e+00 4.921808e-01 5.906170e+00 1 5.906170e+00 1 107656630 107890642 1 107656626 -4 107890547 -95 16 9.835056e-01 0 4 81 0 19 1 -1 -107656631 -1 -107890643 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 84 8 0 90094815 8 1 90246346 deletion 151589 7 0 0 0 26_samples:0 90094438 90094796 359 92 90246385 90246730 346 79 RIPK2 IGR: 675Kb before RIPK2(+) RIPK2 IGR: 524Kb before RIPK2(+) - 0 0 6.000000e-02 1.100000e-01 4 1 5 5 1.534441e+00 9.756522e-01 8.410764e-01 5.887535e+00 1 5.887535e+00 1 90094796 90246385 1 90094815 19 90246346 -39 2 1 0 1 63 0 5 1 90094747 -49 90246180 -205 2 8.825772e-01 0 4 71 0 8 1 6.250000e-01 LUSC-60-2724 3 8 0 37933061 8 1 38173195 deletion 240137 69 0 0 0 26_samples:0 37932754 37933066 313 33 38173203 38173552 350 53 ASH2L IGR: 30Kb before ASH2L(+) WHSC1L1 Intron of WHSC1L1(-): 141bp before exon 11 - 1.500000e-01 4.000000e-01 0 0 6 1 14 0 -1.893015e+00 -4.541370e-01 8.517435e-02 5.877030e+00 1 5.877030e+00 1 37933066 38173203 1 37933061 -5 38173195 -8 20 9.849528e-01 0 0 69 1 C 91 1 -1 -37933067 -1 -38173204 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 130 17 0 19841849 17 1 30747080 long_range 10905231 6 0 0 0 26_samples:0 19841537 19841849 313 86 30747080 30747315 236 53 AKAP10 Intron of AKAP10(-): 1Kb after exon 8 PSMD11 IGR: 24Kb before PSMD11(+) - 4.000000e-02 2.000000e-02 2.000000e-02 3.000000e-02 5 2 3 3 1.276539e+00 -1.419256e-01 9.642241e-01 5.785345e+00 1 5.785345e+00 1 19841849 30747080 1 19841849 0 30747057 -23 2 7.717652e-01 0 0 63 0 22 1 -1 -19841850 -1 -30747081 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2724 115 5 0 52311226 5 1 52326776 deletion 15581 6 0 0 0 26_samples:0 52310984 52311218 235 49 52326799 52327040 242 62 ITGA2 Intron of ITGA2(+): 11Kb before exon 2 ITGA2 Intron of ITGA2(+): 4Kb after exon 2 Deletion of 1 exon: out of frame 0 0 1.000000e-02 0 6 3 2 1 -3.138606e-01 2.449283e-01 8.888889e-01 5.333333e+00 1 5.333333e+00 1 52311218 52326799 1 52311226 8 52326776 -23 7 9.767079e-01 0 0 67 1 A 11 1 -1 -52311219 -1 -52326800 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 116 5 0 42130715 6 0 70199257 inter_chr NaN 6 0 0 0 26_samples:0 42130457 42130690 234 51 70199027 70199254 228 47 FBXO4 IGR: 205Kb before FBXO4(+) LMBRD1 IGR: 186Kb before LMBRD1(-) - 3.000000e-02 2.000000e-02 0 0 3 1 6 0 -2.278931e-01 -3.998281e-01 8.888889e-01 5.333333e+00 1 5.333333e+00 1 42130690 70199254 1 42130715 25 70199257 3 4 1 0 2 71 0 6 1 42130941 251 70199606 352 3 7.901833e-01 0 1 80 0 4 1 1.500000e+00 LUSC-60-2724 127 11 0 51293755 11 0 51295989 inversion 2194 6 0 0 0 26_samples:0 51293547 51293759 213 45 51295728 51295953 226 49 OR4A5 IGR: 118Kb before OR4A5(-) OR4A5 IGR: 115Kb before OR4A5(-) - 2.000000e-02 2.000000e-02 0 2.000000e-02 6 3 4 2 -4.857957e-01 -3.138606e-01 8.888889e-01 5.333333e+00 1 5.333333e+00 1 51293759 51295953 1 51293755 -4 51295989 36 6 9.589019e-01 0 1 75 0 12 1 -1 -51293760 -1 -51295954 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 160 11 1 51563419 11 1 57867783 long_range 6304356 5 0 0 0 26_samples:0 51563444 51563663 220 54 57867800 57867975 176 32 OR4C46 IGR: 48Kb before OR4C46(+) OR9Q1 5'-UTR of OR9Q1(+): 79Kb before coding start - 8.000000e-02 3.000000e-02 0 0 4 2 4 0 -6.186054e-02 -9.523027e-01 1 5 1 5 1 51563444 57867800 1 51563419 -25 57867783 -17 6 1 1 5 75 0 8 1 -1 -51563445 -1 -57867801 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 161 14 0 66998800 14 1 67017804 deletion 19004 5 0 0 0 26_samples:0 66998573 66998800 228 53 67017804 67018013 210 46 GPHN Intron of GPHN(+): 23Kb after exon 1 GPHN Intron of GPHN(+): 42Kb after exon 1 Deletion within intron 0 0 0 4.000000e-02 3 2 4 1 -1.023352e-01 -3.856577e-01 1 5 1 5 1 66998800 67017804 1 66998813 13 67017773 -31 1 1.000001e+00 0 1 76 0 11 1 -1 -66998801 -1 -67017805 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2724 135 1 0 216750161 1 1 216874652 deletion 124525 5 0 0 0 26_samples:0 216749844 216750164 321 86 216874689 216874894 206 70 ESRRG Intron of ESRRG(-): 9Kb before exon 6 ESRRG Intron of ESRRG(-): 22Kb after exon 1 Deletion of 4 exons: out of frame 0 0 0 0 3 1 2 2 1.233328e+00 5.857338e-01 9.874565e-01 4.937282e+00 1 4.937282e+00 1 216750164 216874689 1 216750161 -3 216874652 -37 6 9.962025e-01 0 2 76 0 9 1 216750148 -16 216874607 -82 1 9.140072e-01 0 1 70 0 3 1 3 LUSC-60-2724 85 10 0 113366958 10 1 113443637 deletion 76709 7 0 0 0 26_samples:0 113366661 113366934 274 64 113443643 113443993 351 97 ADRA2A IGR: 530Kb before ADRA2A(+) GPAM IGR: 466Kb before GPAM(-) - 0 0 0 3.000000e-02 1 0 3 2 3.308958e-01 1.749360e+00 7.038310e-01 4.926817e+00 1 4.926817e+00 1 113366934 113443643 1 113366958 24 113443637 -6 9 9.684740e-01 0 0 72 0 10 1 -1 -113366935 -1 -113443644 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 145 4 0 93552320 4 1 93692835 deletion 140515 5 0 0 0 26_samples:0 93552091 93552320 230 50 93692835 93693006 172 37 GRID2 Intron of GRID2(+): 41Kb after exon 2 GRID2 Intron of GRID2(+): 181Kb after exon 2 Deletion within intron 0 0 0 0 4 1 5 0 -2.237591e-01 -7.499295e-01 9.846154e-01 4.923077e+00 1 4.923077e+00 1 93552320 93692835 1 -1 -93552321 -1 -93692836 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -93552321 -1 -93692836 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-60-2724 81 5 1 44214860 6 0 77131624 inter_chr NaN 7 0 0 0 26_samples:0 44214871 44215165 295 76 77131281 77131622 342 83 FGF10 IGR: 90Kb before FGF10(-) IMPG1 IGR: 501Kb before IMPG1(-) - 0 0 0 0 7 3 5 1 8.467009e-01 1.147587e+00 6.902578e-01 4.831804e+00 1 4.831804e+00 1 44214871 77131622 1 44214860 -11 77131624 2 7 9.937854e-01 1 1 74 0 11 1 -1 -44214872 -1 -77131623 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 170 1 0 245666114 1 1 245681746 deletion 15632 4 0 0 0 26_samples:0 245665845 245666114 270 74 245681746 245681998 253 67 KIF26B Intron of KIF26B(+): 38Kb before exon 5 KIF26B Intron of KIF26B(+): 22Kb before exon 5 Deletion within intron 4.000000e-02 0 1.000000e-02 0 2 1 2 1 7.133961e-01 4.575718e-01 1 4 1 4 1 245666114 245681746 1 245666388 274 245681381 -365 7 8.193042e-01 0 19 128 0 22 1 245666388 274 245681381 -365 17 8.730604e-01 0 19 128 0 22 0 1 LUSC-60-2724 242 4 0 160946272 4 1 161052195 deletion 105987 4 0 0 0 26_samples:0 160945956 160946213 258 79 161052200 161052400 201 45 RAPGEF2 IGR: 757Kb before RAPGEF2(+) RAPGEF2 IGR: 863Kb before RAPGEF2(+) - 0 0 0 0 3 1 3 0 8.961278e-01 -3.464476e-01 1 4 1 4 1 160946213 161052200 1 160946272 59 161052195 -5 6 8.688292e-01 0 0 73 1 T 8 1 -1 -160946214 -1 -161052201 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 280 7 1 46381314 20 1 2245842 inter_chr NaN 4 0 0 0 26_samples:0 46381314 46381603 290 79 2245842 2245946 105 2 IGFBP3 IGR: 429Kb before IGFBP3(-) TGM3 IGR: 31Kb before TGM3(+) - 6.000000e-02 1.100000e-01 4.000000e-02 8.000000e-02 3 3 3 0 8.961278e-01 -1.917940e+00 1 4 1 4 1 46381314 2245842 1 46381235 -79 2245851 9 3 1.000001e+00 1 60 137 0 69 1 46381235 -79 2245851 9 2 1.000001e+00 1 60 137 0 55 -1 1.254545e+00 LUSC-60-2724 285 8 0 21806734 18 1 36071710 inter_chr NaN 4 0 0 0 26_samples:0 21806499 21806739 241 66 36071746 36071976 231 62 XPO7 Intron of XPO7(+): 18Kb before exon 2 LOC647946 IGR: 715Kb before LOC647946(-) - 0 0 0 0 3 1 3 3 4.210254e-01 2.748401e-01 1 4 1 4 1 21806739 36071746 1 21806734 -5 36071710 -36 5 9.965479e-01 0 0 70 0 8 1 -1 -21806740 -1 -36071747 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 321 17 0 31036215 17 0 31037606 inversion 1404 4 0 0 0 26_samples:0 31035916 31036205 290 78 31037393 31037609 217 48 MYO1D Intron of MYO1D(-): 3Kb after exon 16 MYO1D Intron of MYO1D(-): 1Kb after exon 16 - 0 0 0 0 1 1 3 2 8.595814e-01 -2.368086e-01 1 4 1 4 1 31036205 31037609 1 31036215 10 31037606 -3 7 8.999890e-01 0 0 73 1 T 14 1 -1 -31036206 -1 -31037610 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2724 323 18 0 36320706 18 0 37138975 inversion 818303 4 0 0 0 26_samples:0 36320471 36320679 209 51 37138739 37138982 244 77 LOC647946 IGR: 466Kb before LOC647946(-) LOC647946 3'-UTR of LOC647946(-): 193Kb after coding stop - 0 0 0 0 2 0 3 2 -1.271696e-01 8.230351e-01 1 4 1 4 1 36320679 37138982 1 36320706 27 37138975 -7 6 9.718088e-01 0 2 79 0 13 1 -1 -36320680 -1 -37138983 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 53870 11 1 70047684 11 0 78197596 long_range 8149924 568 7 0 0 26_samples:0 70047678 70048198 521 70 78197108 78197602 495 74 FADD Promoter of FADD(+): 2Kb from tx start NARS2 Intron of NARS2(-): 7Kb after exon 7 - 1.000000e-02 1.000000e-02 0 1.000000e-02 14 5 41 3 2.791880e-01 5.788913e-01 9.999844e-01 5.679911e+02 1 5.679911e+02 1 70047678 78197602 1 70047684 6 78197596 -6 20 9.980313e-01 1 3 80 0 630 1 70047684 6 78197596 -6 9 9.989466e-01 1 3 80 0 18 1 35 LUSC-60-2726 52444 11 0 71459842 11 0 82495393 long_range 11035547 425 6 0 0 26_samples:0 71459344 71459854 511 75 82494969 82495401 433 72 FAM86C IGR: 39Kb before FAM86C(+) PRCP IGR: 40Kb before PRCP(-) - 8.000000e-02 1.000000e-01 0 0 6 2 10 2 6.538171e-01 4.290397e-01 1 425 1 425 1 71459854 82495401 1 71459842 -12 82495393 -8 20 9.951714e-01 0 3 71 0 429 1 71459842 -12 82495393 -8 8 9.962659e-01 0 3 71 0 22 1 1.950000e+01 LUSC-60-2726 53871 11 0 76819466 11 0 76833456 inversion 13994 380 7 0 0 26_samples:0 76818989 76819468 480 73 76832989 76833462 474 73 CAPN5 Intron of CAPN5(+): 4Kb before exon 4 CAPN5 Intron of CAPN5(+): 160bp before exon 12 Antisense fusion 0 0 0 0 7 2 4 3 5.039655e-01 5.039655e-01 1 380 1 380 1 76819468 76833462 1 76819466 -2 76833456 -6 20 9.950808e-01 0 4 64 0 644 1 76819466 -2 76833456 -6 5 9.992001e-01 0 4 64 0 37 1 1.740541e+01 LUSC-60-2726 45337 11 1 76534525 11 1 76543384 inversion 8855 260 3 0 0 26_samples:0 76534521 76534972 452 77 76543376 76543761 386 73 ACER3 IGR: 37Kb before ACER3(+) ACER3 IGR: 29Kb before ACER3(+) - 0 0 0 0 2 2 5 1 8.036688e-01 5.039655e-01 1 260 1 260 1 76534521 76543376 1 76534525 4 76543384 8 20 9.780007e-01 1 0 63 1 C 237 1 76534525 4 76543384 8 1 9.891313e-01 1 0 63 1 C 7 1 3.385714e+01 LUSC-60-2726 1 1 1 118026657 2 0 61148479 inter_chr NaN 99 0 0 0 26_samples:0 118026653 118027047 395 74 61147998 61148484 487 74 MAN1A2 Intron of MAN1A2(+): 9Kb before exon 9 REL Intron of REL(+): 414bp before exon 11 Protein fusion: in frame (REL-MAN1A2) 0 0 1.000000e-02 0 6 1 5 1 5.788913e-01 5.788913e-01 9.875363e-01 9.776609e+01 1 9.776609e+01 1 118026653 61148484 1 118026657 4 61148479 -5 20 9.932165e-01 1 2 67 0 137 1 118026657 4 61148479 -5 1 1 1 2 67 0 9 1 1.522222e+01 LUSC-60-2726 36376 11 0 46422530 11 1 46424343 deletion 1807 95 1 0 0 26_samples:0 46422216 46422532 317 63 46424339 46424707 369 68 AMBRA1 Intron of AMBRA1(-): 3Kb before exon 19 AMBRA1 Intron of AMBRA1(-): 5Kb before exon 19 Deletion within intron 2.000000e-02 2.000000e-02 0 0 3 2 1 1 -2.452927e-01 1.293364e-01 1 95 1 95 1 46422532 46424339 1 46422530 -2 46424343 4 20 9.976444e-01 0 3 66 0 116 1 46422530 -2 46424343 4 3 9.985093e-01 0 3 66 0 13 1 8.923077e+00 LUSC-60-2726 36377 2 0 58095144 2 1 58244371 deletion 149215 70 1 0 0 26_samples:0 58094793 58095151 359 66 58244366 58244828 463 78 VRK2 IGR: 179Kb before VRK2(+) VRK2 IGR: 29Kb before VRK2(+) - 0 0 0 0 6 1 6 2 -2.051527e-02 8.785946e-01 9.424491e-01 6.597144e+01 1 6.597144e+01 1 58095151 58244366 1 58095144 -7 58244371 5 20 9.883563e-01 0 2 74 0 105 1 -1 -58095152 -1 -58244367 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 36379 14 0 25102090 14 1 33339271 long_range 8237170 60 1 0 0 26_samples:0 25101663 25102093 431 71 33339263 33339674 412 69 GZMB Intron of GZMB(-): 28bp after exon 2 AKAP6 IGR: 37Kb after AKAP6(+) - 2.000000e-02 3.000000e-02 0 0 1 2 3 3 3.541138e-01 2.042622e-01 1 60 1 60 1 25102093 33339263 1 25102090 -3 33339271 8 20 9.908726e-01 0 0 71 0 72 1 25102090 -3 33339271 8 2 1 0 0 71 0 18 1 4 LUSC-60-2726 36380 6 0 88585661 11 0 47146527 inter_chr NaN 56 1 0 0 26_samples:0 88585312 88585668 357 65 47146153 47146530 378 66 SPACA1 IGR: 172Kb before SPACA1(+) C11orf49 Intron of C11orf49(+): 13Kb before exon 4 - 0 0 0 0 1 1 1 2 -9.544109e-02 -2.051527e-02 1 56 1 56 1 88585668 47146530 1 88585661 -7 47146527 -3 20 9.655898e-01 0 2 82 0 51 1 -1 -88585669 -1 -47146531 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 36381 14 1 35429093 14 0 39344230 long_range 3915147 56 1 0 0 26_samples:0 35429088 35429393 306 57 39343775 39344235 461 81 C14orf19 IGR: 20Kb before C14orf19(+) SEC23A IGR: 157Kb before SEC23A(-) - 0 0 0 0 4 1 3 2 -6.948477e-01 1.103372e+00 9.988966e-01 5.593821e+01 1 5.593821e+01 1 35429088 39344235 1 35429093 5 39344230 -5 20 9.827857e-01 1 0 77 0 77 1 35429093 5 39344230 -5 1 1.000001e+00 1 0 77 0 6 1 1.283333e+01 LUSC-60-2726 2 2 1 57941619 2 1 61373319 long_range 3431710 63 0 0 0 26_samples:0 57941614 57942047 434 76 61373324 61373694 371 73 VRK2 IGR: 332Kb before VRK2(+) C2orf74 5'-UTR of C2orf74(+): 17Kb before coding start - 0 0 0 0 7 2 4 0 7.287430e-01 5.039655e-01 8.563216e-01 5.394826e+01 1 5.394826e+01 1 57941614 61373324 1 57941619 5 61373319 -5 20 9.982912e-01 1 0 79 0 100 1 -1 -57941615 -1 -61373325 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 36382 20 1 47233237 20 0 47250640 tandem_dup 17415 51 1 0 0 26_samples:0 47233232 47233587 356 73 47250343 47250647 305 64 PREX1 IGR: 8Kb before PREX1(-) PREX1 Intron of PREX1(-): 567bp after exon 33 - 0 0 1.000000e-02 1.000000e-02 3 1 4 2 5.039655e-01 -1.703669e-01 1 51 1 51 1 47233232 47250647 1 47233237 5 47250640 -7 20 9.935082e-01 1 3 77 0 73 1 47233237 5 47250640 -7 1 1.000001e+00 1 3 77 0 16 1 4.562500e+00 LUSC-60-2726 5 7 0 101246091 7 0 118600315 long_range 17354222 48 0 0 0 26_samples:0 101245778 101246098 321 68 118600004 118600320 317 61 MYL10 IGR: 11Kb before MYL10(-) ANKRD7 IGR: 736Kb before ANKRD7(+) - 0 0 1.000000e-02 3.000000e-02 2 1 5 2 1.293364e-01 -3.951444e-01 9.971449e-01 4.786295e+01 1 4.786295e+01 1 101246098 118600320 1 101246091 -7 118600315 -5 20 9.875080e-01 0 1 72 0 80 1 -1 -101246099 -1 -118600321 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 6 14 0 41291648 14 1 41292640 deletion 984 45 0 0 0 26_samples:0 41291336 41291653 318 67 41292637 41293111 475 78 LRFN5 IGR: 785Kb before LRFN5(+) LRFN5 IGR: 784Kb before LRFN5(+) - 0 0 0 0 1 0 3 3 5.441056e-02 8.785946e-01 1 45 1 45 1 41291653 41292637 1 41291648 -5 41292640 3 20 9.652709e-01 0 2 77 0 49 1 -1 -41291654 -1 -41292638 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 8 7 0 19214628 7 1 19216490 deletion 1855 37 0 0 0 26_samples:0 19214287 19214634 348 69 19216489 19216798 310 67 FERD3L IGR: 30Kb before FERD3L(-) FERD3L IGR: 32Kb before FERD3L(-) - 0 0 0 0 2 1 1 0 2.042622e-01 5.441056e-02 1 37 1 37 1 19214634 19216489 1 19214628 -6 19216490 1 20 9.894021e-01 0 3 72 0 32 1 19214628 -6 19216490 1 1 1 0 3 72 0 8 1 4 LUSC-60-2726 9 14 1 46330721 14 1 46367143 inversion 36429 35 0 0 0 26_samples:0 46330716 46331013 298 54 46367145 46367512 368 64 C14orf106 IGR: 658Kb before C14orf106(-) C14orf106 IGR: 695Kb before C14orf106(-) - 1.000000e-02 1.000000e-02 0 0 5 2 4 0 -9.196251e-01 -1.703669e-01 9.950029e-01 3.482510e+01 1 3.482510e+01 1 46330716 46367145 1 46330721 5 46367143 -2 17 8.831384e-01 1 0 81 2 CA 41 1 46330721 5 46367143 -2 1 8.892620e-01 1 0 81 2 CA 5 1 8.200000e+00 LUSC-60-2726 11 7 1 26810408 7 0 27419644 tandem_dup 609230 32 0 0 0 26_samples:0 26810400 26810702 303 63 27419325 27419630 306 59 SKAP2 Intron of SKAP2(-): 31Kb before exon 5 EVX1 IGR: 137Kb before EVX1(+) - 1.000000e-02 1.000000e-02 0 0 4 0 2 1 -2.452927e-01 -5.449960e-01 1 32 1 32 1 26810400 27419630 1 26810408 8 27419644 14 20 9.946570e-01 1 3 79 0 34 1 -1 -26810401 -1 -27419631 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 12 11 0 68317349 11 0 98681334 long_range 30363976 31 0 0 0 26_samples:0 68317024 68317355 332 64 98681038 98681331 294 60 SAPS3 Intron of SAPS3(+): 1Kb before exon 7 CNTN5 IGR: 211Kb before CNTN5(+) - 0 0 0 0 2 0 1 1 -1.703669e-01 -4.700702e-01 1 31 1 31 1 68317355 98681331 1 68317349 -6 98681334 3 20 9.948092e-01 0 2 70 0 38 1 68317349 -6 98681334 3 1 1 0 2 70 0 8 1 4.750000e+00 LUSC-60-2726 13 12 1 4627485 12 1 4629552 inversion 2076 31 0 0 0 26_samples:0 4627479 4627791 313 72 4629555 4629870 316 74 C12orf4 Intron of C12orf4(-): 58bp before exon 8 C12orf4 Intron of C12orf4(-): 2Kb before exon 7 Antisense fusion 0 8.000000e-02 0 1.000000e-02 2 1 1 0 4.290397e-01 5.788913e-01 1 31 1 31 1 4627479 4629555 1 4627485 6 4629552 -3 20 9.848649e-01 1 2 65 0 45 1 -1 -4627480 -1 -4629556 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 14 3 0 24434603 3 1 24502407 deletion 67801 30 0 0 0 26_samples:0 24434278 24434605 328 64 24502406 24502790 385 66 THRB 5'-UTR of THRB(-): 164Kb before coding start THRB 5'-UTR of THRB(-): 232Kb before coding start Deletion within transcript 0 0 0 0 2 2 1 1 -1.703669e-01 -2.051527e-02 1 30 1 30 1 24434605 24502406 1 24434603 -2 24502407 1 11 9.379576e-01 0 1 80 6 GCTTTT 26 1 -1 -24434606 -1 -24502407 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 17 7 1 106534549 7 0 107283809 tandem_dup 749269 28 0 0 0 26_samples:0 106534547 106534869 323 76 107283476 107283816 341 72 PIK3CG Intron of PIK3CG(+): 8Kb after exon 10 LOC286002 IGR: 13Kb before LOC286002(-) - 0 0 0 0 2 0 2 1 6.684700e-01 4.042575e-01 1 28 1 28 1 106534547 107283816 1 106534549 2 107283809 -7 20 9.885295e-01 1 0 73 0 40 1 106534549 2 107283809 -7 1 1 1 0 73 0 4 1 10 LUSC-60-2726 20 15 0 22315086 15 1 74907339 long_range 52592244 28 0 0 0 26_samples:0 22314628 22315090 463 83 74907334 74907671 338 77 LOC727924 5'-UTR of LOC727924(+): 56Kb before coding start CLK3 5'-UTR of CLK3(+): 4Kb before coding start Transcript fusion (LOC727924-CLK3) 1.000000e-02 0 0 0 4 2 2 0 1.130842e+00 7.345231e-01 9.977650e-01 2.793742e+01 1 2.793742e+01 1 22315090 74907334 1 22315086 -4 74907339 5 18 9.728847e-01 0 2 76 0 41 1 -1 -22315091 -1 -74907335 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 21 3 1 173568357 3 0 173577200 tandem_dup 8857 27 0 0 0 26_samples:0 173568352 173568675 324 78 173576848 173577209 362 79 NLGN1 Intron of NLGN1(+): 43Kb after exon 4 NLGN1 Intron of NLGN1(+): 52Kb after exon 4 Duplication within intron 0 1.000000e-02 0 0 3 1 0 1 8.005763e-01 8.666294e-01 1 27 1 27 1 173568352 173577209 1 173568357 5 173577200 -9 16 9.964181e-01 1 1 69 0 28 1 -1 -173568353 -1 -173577210 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 15 7 0 57856017 7 1 57857324 deletion 1300 29 0 0 0 26_samples:0 57855670 57856016 347 76 57857316 57857698 383 77 ZNF716 IGR: 346Kb before ZNF716(+) ZNF716 IGR: 347Kb before ZNF716(+) - 5.000000e-02 1.000000e-02 1.300000e-01 2.000000e-02 6 3 5 1 6.684700e-01 7.345231e-01 9.244108e-01 2.680791e+01 1 2.680791e+01 1 57856016 57857316 1 57856017 1 57857324 8 20 9.875145e-01 0 2 73 0 39 1 57856017 1 57857324 8 1 9.784920e-01 0 2 73 0 11 1 3.545455e+00 LUSC-60-2726 24 10 0 50362884 10 1 50364285 deletion 1428 26 0 0 0 26_samples:0 50362541 50362862 322 62 50364290 50364736 447 86 C10orf128 IGR: 1Kb before C10orf128(-) C10orf128 Intron of C10orf128(-): 336bp before exon 6 - 0 0 0 0 1 1 0 0 -2.562739e-01 1.329001e+00 9.656129e-01 2.510593e+01 1 2.510593e+01 1 50362862 50364290 1 50362884 22 50364285 -5 13 9.885515e-01 0 3 74 0 29 1 -1 -50362863 -1 -50364291 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 25 16 1 25097928 22 1 20996767 inter_chr NaN 25 0 0 0 26_samples:0 25097925 25098280 356 65 20996787 20997058 272 54 LCMT1 IGR: 25Kb before LCMT1(+) POM121L4P IGR: 47Kb before POM121L4P(+) - 1.000000e-02 1.000000e-02 0 0 2 0 4 1 -5.811445e-02 -7.846989e-01 1 25 1 25 1 25097925 20996787 1 25097928 3 20996767 -20 20 9.841496e-01 1 3 75 0 35 1 -1 -25097926 -1 -20996788 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 23 7 0 8871477 7 1 8882238 deletion 10766 26 0 0 0 26_samples:0 8871161 8871465 305 73 8882231 8882610 380 82 NXPH1 IGR: 398Kb before NXPH1(+) NXPH1 IGR: 409Kb before NXPH1(+) - 0 0 0 0 6 0 3 0 4.703106e-01 1.064789e+00 9.261921e-01 2.408099e+01 1 2.408099e+01 1 8871465 8882231 1 8871477 12 8882238 7 20 9.435443e-01 0 2 70 0 40 1 8871667 202 8882333 102 2 7.999063e-01 0 1 71 0 12 1 3.333333e+00 LUSC-60-2726 26 5 0 59522696 5 1 59748212 deletion 225517 24 0 0 0 26_samples:0 59522350 59522703 354 61 59748220 59748513 294 65 PDE4D 5'-UTR of PDE4D(-): 41Kb before coding start PDE4D 5'-UTR of PDE4D(-): 267Kb before coding start Deletion within transcript 0 0 0 0 2 4 4 1 -3.223270e-01 -5.811445e-02 1 24 1 24 1 59522703 59748220 1 59522696 -7 59748212 -8 20 9.789323e-01 0 1 70 0 35 1 -1 -59522704 -1 -59748221 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 18 11 1 69712298 16 1 77179859 inter_chr NaN 28 0 0 0 26_samples:0 69712325 69712647 323 68 77179870 77180122 253 52 FGF3 IGR: 88Kb before FGF3(-) MON1B IGR: 45Kb before MON1B(+) - 0 0 0 0 7 2 2 0 1.400449e-01 -9.168052e-01 7.752811e-01 2.170787e+01 1 2.170787e+01 1 69712325 77179870 1 69712298 -27 77179859 -11 19 9.938252e-01 1 1 65 0 45 1 69712298 -27 77179859 -11 1 1.000001e+00 1 1 65 0 7 1 6.428571e+00 LUSC-60-2726 28 7 0 107208624 7 1 118575995 long_range 11367380 20 0 0 0 26_samples:0 107208309 107208615 307 70 118575995 118576260 266 48 DUS4L Intron of DUS4L(+): 984bp after exon 3 ANKRD7 IGR: 711Kb before ANKRD7(+) - 0 0 0 0 3 1 3 1 2.721512e-01 -1.181018e+00 1 20 1 20 1 107208615 118575995 1 107208624 9 118575995 0 19 9.905273e-01 0 3 73 0 27 1 -1 -107208616 -1 -118575996 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 29 8 0 972652 8 1 974216 deletion 1517 20 0 0 0 26_samples:0 972302 972676 375 70 974193 974455 263 57 ERICH1 IGR: 358Kb before ERICH1(-) ERICH1 IGR: 360Kb before ERICH1(-) - 4.000000e-02 2.000000e-02 1.100000e-01 1.200000e-01 0 0 2 1 2.721512e-01 -5.865395e-01 1 20 1 20 1 972676 974193 1 972652 -24 974216 23 2 9.871427e-01 0 16 130 0 217 1 -1 -972677 -1 -974194 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 30 8 0 59757865 22 1 29065469 inter_chr NaN 20 0 0 0 26_samples:0 59757579 59757868 290 63 29065487 29065772 286 62 TOX Intron of TOX(-): 6Kb after exon 4 TTC28 Intron of TTC28(-): 10Kb after exon 1 Protein fusion: in frame (TTC28-TOX) 0 0 0 0 1 1 5 1 -1.902207e-01 -2.562739e-01 9.914585e-01 1.982917e+01 1 1.982917e+01 1 59757868 29065487 1 59757865 -3 29065469 -18 6 9.952962e-01 0 2 73 0 21 1 -1 -59757869 -1 -29065488 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 27 1 0 118874811 14 0 65765937 inter_chr NaN 20 0 0 0 26_samples:0 118874451 118874814 364 73 65765617 65765932 316 79 SPAG17 IGR: 379Kb before SPAG17(-) LOC645431 IGR: 111Kb before LOC645431(-) - 0 0 4.000000e-02 3.000000e-02 4 0 6 4 4.703106e-01 8.666294e-01 9.185127e-01 1.837025e+01 1 1.837025e+01 1 118874814 65765932 1 118874811 -3 65765937 5 20 9.947751e-01 0 1 76 0 51 1 -1 -118874815 -1 -65765933 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 35 6 1 30505538 6 1 30507469 inversion 1937 17 0 0 0 26_samples:0 30505534 30505834 301 66 30507471 30507759 289 59 GNL1 IGR: 4Kb before GNL1(-) GNL1 IGR: 2Kb before GNL1(-) - 3.000000e-02 0 2.000000e-02 3.000000e-02 1 0 4 3 2.823891e-02 -3.939347e-01 1 17 1 17 1 30505534 30507471 1 30505538 4 30507469 -2 19 9.979296e-01 1 2 69 0 35 1 -1 -30505535 -1 -30507472 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 36 10 0 129583889 10 1 129588886 deletion 5007 17 0 0 0 26_samples:0 129583613 129583893 281 56 129588900 129589197 298 62 FOXI2 IGR: 48Kb before FOXI2(+) FOXI2 IGR: 53Kb before FOXI2(+) - 2.000000e-02 0 0 0 2 1 2 0 -5.748662e-01 -2.130032e-01 1 17 1 17 1 129583893 129588900 1 129583889 -4 129588886 -14 11 1 0 3 78 0 23 1 -1 -129583894 -1 -129588901 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 39 14 0 25518376 14 1 25532591 deletion 14251 17 0 0 0 26_samples:0 25518083 25518378 296 52 25532629 25532872 244 41 STXBP6 5'-UTR of STXBP6(-): 74Kb before coding start STXBP6 IGR: 14Kb after STXBP6(-) - 0 0 0 0 1 0 3 0 -8.161083e-01 -1.479524e+00 1 17 1 17 1 25518378 25532629 1 25518376 -2 25532591 -38 20 9.659398e-01 0 1 75 0 38 1 -1 -25518379 -1 -25532630 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 40 14 1 25804077 16 0 19143065 inter_chr NaN 17 0 0 0 26_samples:0 25804079 25804371 293 62 19142752 19143040 289 60 STXBP6 IGR: 285Kb after STXBP6(-) ITPRIPL2 IGR: 18Kb before ITPRIPL2(+) - 0 0 0 0 2 2 1 0 -2.130032e-01 -3.336242e-01 1 17 1 17 1 25804079 19143040 1 25804077 -2 19143065 25 15 9.657829e-01 1 1 67 0 22 1 -1 -25804080 -1 -19143041 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 36375 11 0 77001751 11 0 77018497 inversion 16749 113 1 0 0 26_samples:0 77001194 77001754 561 80 77018137 77018503 367 73 GDPD4 IGR: 3Kb after GDPD4(-) PAK1 IGR: 15Kb before PAK1(-) - 0 1.000000e-02 0 0 14 2 4 1 1.028446e+00 5.039655e-01 1.488705e-01 1.682236e+01 1 1.682236e+01 1 77001754 77018503 1 77001751 -3 77018497 -6 20 9.959170e-01 0 3 83 0 163 1 77001751 -3 77018497 -6 2 9.933796e-01 0 3 83 0 7 1 2.328571e+01 LUSC-60-2726 41 15 0 87996219 15 1 88044847 deletion 48650 17 0 0 0 26_samples:0 87995839 87996219 381 74 88044869 88045158 290 73 NCRNA00052 IGR: 124Kb before NCRNA00052(+) NCRNA00052 IGR: 75Kb before NCRNA00052(+) - 0 0 0 0 5 0 3 1 5.107230e-01 4.504125e-01 9.846154e-01 1.673846e+01 1 1.673846e+01 1 87996219 88044869 1 87996219 0 88044847 -22 19 9.777359e-01 0 2 64 0 27 1 -1 -87996220 -1 -88044870 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 45 6 1 87076496 6 1 87077949 inversion 1454 16 0 0 0 26_samples:0 87076511 87076817 307 73 87077965 87078232 268 71 HTR1E IGR: 571Kb before HTR1E(+) HTR1E IGR: 569Kb before HTR1E(+) - 0 0 0 1.000000e-02 1 0 1 1 4.504125e-01 3.297915e-01 1 16 1 16 1 87076511 87077965 1 87076496 -15 87077949 -16 11 9.906515e-01 1 4 63 0 20 1 -1 -87076512 -1 -87077966 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 46 10 0 53199609 10 1 53201115 deletion 1524 16 0 0 0 26_samples:0 53199321 53199611 291 68 53201135 53201471 337 82 PRKG1 Intron of PRKG1(+): 28Kb before exon 3 PRKG1 Intron of PRKG1(+): 26Kb before exon 3 Deletion within intron 0 0 0 0 1 1 1 0 1.488599e-01 9.932072e-01 1 16 1 16 1 53199611 53201135 1 53199609 -2 53201115 -20 8 9.903442e-01 0 2 75 0 11 1 -1 -53199612 -1 -53201136 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 3 1 1 120226661 2 0 63354735 inter_chr NaN 61 0 0 0 26_samples:0 120226665 120227153 489 64 63354395 63354738 344 54 PHGDH IGR: 28Kb before PHGDH(+) C2orf86 Intron of C2orf86(-): 6Kb before exon 18 - 0 0 3.000000e-02 2.000000e-02 9 2 9 2 -1.703669e-01 -9.196251e-01 2.477957e-01 1.511553e+01 1 1.511553e+01 1 120226665 63354738 1 120226661 -4 63354735 -3 20 9.556167e-01 1 0 73 0 65 1 120226661 -4 63354735 -3 4 9.631035e-01 1 0 73 0 6 1 1.083333e+01 LUSC-60-2726 47 2 0 51891102 2 0 51893310 inversion 2261 15 0 0 0 26_samples:0 51890783 51891057 275 61 51893081 51893318 238 53 NRXN1 IGR: 2Mb before NRXN1(-) NRXN1 IGR: 2Mb before NRXN1(-) - 0 0 0 0 1 1 0 0 -2.733137e-01 -7.557978e-01 1 15 1 15 1 51891057 51893318 1 51891102 45 51893310 -8 7 9.955494e-01 0 2 63 0 17 1 51891251 194 51893523 205 1 7.609282e-01 0 4 67 0 5 1 3.400000e+00 LUSC-60-2726 48 2 0 141975950 2 1 142132177 deletion 156232 15 0 0 0 26_samples:0 141975625 141975950 326 71 142132182 142132484 303 74 LRP1B Intron of LRP1B(-): 11Kb after exon 6 LRP1B Intron of LRP1B(-): 106Kb after exon 3 Deletion of 3 exons: in frame 0 0 0 0 3 2 2 0 3.297915e-01 5.107230e-01 1 15 1 15 1 141975950 142132182 1 141975950 0 142132177 -5 7 9.444016e-01 0 2 70 1 C 12 1 -1 -141975951 -1 -142132183 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 10 14 0 46496406 14 0 47176659 inversion 680251 35 0 0 0 26_samples:0 46496118 46496415 298 64 47176336 47176666 331 63 RPL10L IGR: 624Kb before RPL10L(-) RPL10L IGR: 56Kb before RPL10L(-) - 1.000000e-02 2.000000e-02 0 0 9 1 5 0 -1.703669e-01 -2.452927e-01 4.214020e-01 1.474907e+01 1 1.474907e+01 1 46496415 47176666 1 46496406 -9 47176659 -7 20 9.728167e-01 0 1 64 0 57 1 46496406 -9 47176659 -7 2 9.892425e-01 0 1 64 0 12 1 4.750000e+00 LUSC-60-2726 49 7 0 106653317 7 1 106674778 deletion 21473 15 0 0 0 26_samples:0 106653033 106653321 289 67 106674794 106675084 291 64 PRKAR2B IGR: 32Kb before PRKAR2B(+) PRKAR2B IGR: 10Kb before PRKAR2B(+) - 0 0 0 1.000000e-02 5 0 5 1 8.854942e-02 -9.238212e-02 9.694675e-01 1.454201e+01 1 1.454201e+01 1 106653321 106674794 1 106653317 -4 106674778 -16 17 9.513697e-01 0 0 62 8 AAAAAAAT 32 1 -1 -106653322 -1 -106674795 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 52 2 0 82007001 2 1 82008849 deletion 1870 14 0 0 0 26_samples:0 82006724 82007001 278 63 82008871 82009253 383 80 LOC1720 IGR: 1Mb before LOC1720(+) LOC1720 IGR: 1Mb before LOC1720(+) - 8.000000e-02 7.000000e-02 0 0 4 2 5 2 -1.214954e-01 8.271047e-01 9.846154e-01 1.378462e+01 1 1.378462e+01 1 82007001 82008871 1 82007001 0 82008849 -22 10 8.575270e-01 0 4 73 0 25 1 -1 -82007002 -1 -82008872 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 22 13 0 50977475 13 1 50978748 deletion 1261 27 0 0 0 26_samples:0 50977037 50977482 446 96 50978743 50979070 328 74 FAM10A4 IGR: 231Kb before FAM10A4(+) FAM10A4 IGR: 233Kb before FAM10A4(+) - 0 0 0 0 1 2 0 1 1.989533e+00 5.363637e-01 5.078912e-01 1.371306e+01 1 1.371306e+01 1 50977482 50978743 1 50977475 -7 50978748 5 20 9.919964e-01 0 4 71 0 48 1 -1 -50977483 -1 -50978744 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 58 1 0 72753058 1 1 72758309 deletion 5299 13 0 0 0 26_samples:0 72752767 72753033 267 69 72758332 72758621 290 67 NEGR1 IGR: 5Kb after NEGR1(-) NEGR1 IGR: 10Kb after NEGR1(-) - 0 3.000000e-02 0 0 2 2 2 3 2.133046e-01 1.017046e-01 1 13 1 13 1 72753033 72758332 1 72753058 25 72758309 -23 9 9.888503e-01 0 2 76 0 17 1 -1 -72753034 -1 -72758333 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 59 2 0 140728706 2 1 140735562 deletion 6860 13 0 0 0 26_samples:0 140728447 140728707 261 50 140735567 140735938 372 74 LRP1B IGR: 260Kb before LRP1B(-) LRP1B IGR: 253Kb before LRP1B(-) - 1.000000e-02 0 0 0 0 1 5 1 -8.468955e-01 4.923047e-01 9.846154e-01 1.280000e+01 1 1.280000e+01 1 140728707 140735567 1 140728706 -1 140735562 -5 14 9.939705e-01 0 1 78 0 25 1 -1 -140728708 -1 -140735568 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 61 1 0 102725239 16 1 34991357 inter_chr NaN 12 0 0 0 26_samples:0 102724991 102725244 254 55 34991410 34991710 301 76 HEJ1 IGR: 388Kb before HEJ1(+) LOC146481 IGR: 280Kb before LOC146481(-) - 0 2.000000e-02 0 0 2 1 1 1 -5.678955e-01 6.039047e-01 1 12 1 12 1 102725244 34991410 1 102725239 -5 34991357 -53 14 9.839854e-01 0 0 77 0 22 1 102725381 137 34991209 -201 1 8.526382e-01 0 0 82 1 A 5 1 4.400000e+00 LUSC-60-2726 62 2 0 119441849 2 1 209093090 long_range 89651241 12 0 0 0 26_samples:0 119441622 119441849 228 43 209093090 209093321 232 41 EN1 IGR: 158Kb before EN1(-) IDH1 IGR: 8Kb before IDH1(-) - 1.000000e-02 2.000000e-02 0 0 4 1 3 2 -1.237496e+00 -1.349096e+00 1 12 1 12 1 119441849 209093090 1 119441799 -50 209092886 -204 2 8.025781e-01 0 3 82 0 18 1 119441799 -50 209092886 -204 2 7.889618e-01 0 3 82 0 9 0 2 LUSC-60-2726 66 14 1 36819808 14 0 50524421 long_range 13704525 12 0 0 0 26_samples:0 36819809 36820095 287 65 50524088 50524334 247 63 MBIP IGR: 52Kb before MBIP(-) C14orf183 IGR: 26Kb before C14orf183(-) - 0 0 0 0 3 1 2 0 -9.895399e-03 -1.214954e-01 1 12 1 12 1 36819809 50524334 1 36819808 -1 50524421 87 16 9.941836e-01 1 1 73 0 28 1 36819808 -1 50524421 87 1 1 1 1 73 0 3 1 9.333333e+00 LUSC-60-2726 63 2 1 119441465 2 0 209093531 long_range 89652075 12 0 0 0 26_samples:0 119441463 119441777 315 81 209093200 209093538 339 90 EN1 IGR: 158Kb before EN1(-) IDH1 IGR: 7Kb before IDH1(-) - 1.000000e-02 2.000000e-02 0 0 4 1 3 2 8.829047e-01 1.385105e+00 9.459725e-01 1.135167e+01 1 1.135167e+01 1 119441463 209093538 1 119441465 2 209093531 -7 15 9.839542e-01 1 0 68 0 31 1 -1 -119441464 -1 -209093539 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 70 4 0 19582640 4 1 19585617 deletion 3031 11 0 0 0 26_samples:0 19582370 19582627 258 52 19585658 19585902 245 57 SLIT2 IGR: 673Kb before SLIT2(+) SLIT2 IGR: 670Kb before SLIT2(+) - 0 0 0 0 0 1 2 1 -6.688735e-01 -4.093331e-01 1 11 1 11 1 19582627 19585658 1 19582640 13 19585617 -41 16 9.958504e-01 0 0 67 0 20 1 -1 -19582628 -1 -19585659 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 73 5 0 8184197 16 1 19146705 inter_chr NaN 11 0 0 0 26_samples:0 8183813 8184205 393 82 19146724 19147027 304 75 MTRR IGR: 315Kb before MTRR(+) ITPRIPL2 IGR: 21Kb before ITPRIPL2(+) - 0 0 0 0 2 0 2 0 8.883688e-01 5.250123e-01 1 11 1 11 1 8184205 19146724 1 8184197 -8 19146705 -19 20 9.670748e-01 0 0 67 0 30 1 -1 -8184206 -1 -19146725 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 71 5 1 26555718 5 0 26693253 tandem_dup 137525 11 0 0 0 26_samples:0 26555720 26556030 311 72 26692907 26693245 339 86 CDH9 IGR: 325Kb before CDH9(-) CDH9 IGR: 187Kb before CDH9(-) - 0 0 0 0 3 1 3 1 3.692881e-01 1.096001e+00 9.991160e-01 1.099028e+01 1 1.099028e+01 1 26555720 26693245 1 26555718 -2 26693253 8 9 9.789574e-01 1 0 80 0 21 1 -1 -26555721 -1 -26693246 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 77 2 0 4492674 2 1 4494094 deletion 1428 10 0 0 0 26_samples:0 4492404 4492666 263 57 4494094 4494374 281 60 ALLC IGR: 787Kb before ALLC(+) ALLC IGR: 788Kb before ALLC(+) - 1.100000e-01 3.000000e-02 0 0 2 2 1 0 -4.093331e-01 -2.536089e-01 1 10 1 10 1 4492666 4494094 1 4492674 8 4494094 0 8 9.798765e-01 0 1 66 1 C 14 1 -1 -4492667 -1 -4494095 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 75 22 0 43423874 22 1 43425112 deletion 1238 11 0 0 0 26_samples:0 43423656 43423874 219 48 43425112 43425316 205 41 TTLL1 IGR: 12Kb before TTLL1(-) TTLL1 IGR: 10Kb before TTLL1(-) - 8.000000e-02 8.000000e-02 1.000000e-01 1.400000e-01 5 4 6 3 -8.765058e-01 -1.239862e+00 8.752137e-01 9.627350e+00 1 9.627350e+00 1 43423874 43425112 1 43423778 -96 43424911 -201 1 8.478599e-01 0 1 98 0 15 1 -1 -43423875 -1 -43425113 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2726 83 2 0 82321240 2 1 82322759 deletion 1565 9 0 0 0 26_samples:0 82320892 82321200 309 84 82322765 82323013 249 60 LOC1720 IGR: 763Kb before LOC1720(+) LOC1720 IGR: 761Kb before LOC1720(+) - 0 0 4.000000e-02 2.000000e-02 1 1 2 2 9.507493e-01 -2.099653e-01 1 9 1 9 1 82321200 82322765 1 82321240 40 82322759 -6 15 9.755053e-01 0 2 71 0 25 1 -1 -82321201 -1 -82322766 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 80 2 1 58725237 4 1 61615342 inter_chr NaN 10 0 0 0 26_samples:0 58725237 58725492 256 56 61615342 61615659 318 61 FANCL IGR: 339Kb before FANCL(-) LPHN3 IGR: 747Kb before LPHN3(+) - 0 2.000000e-02 0 0 6 1 5 2 -4.612412e-01 -2.017008e-01 8.752137e-01 8.752137e+00 1 8.752137e+00 1 58725237 61615342 1 58725036 -201 61615406 64 1 7.809723e-01 1 0 74 20 AATAAAGACTACTACTGAAG 64 1 -1 -58725238 -1 -61615343 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2726 93 14 1 21739634 14 0 43902345 long_range 22162669 9 0 0 0 26_samples:0 21739682 21739960 279 83 43901994 43902351 358 91 HNRNPC Promoter of HNRNPC(-): 2Kb from tx start FSCB IGR: 1Mb before FSCB(-) - 1.000000e-02 0 0 0 3 1 5 1 9.023862e-01 1.289291e+00 9.613408e-01 8.652067e+00 1 8.652067e+00 1 21739682 43902351 1 21739634 -48 43902345 -6 16 9.835179e-01 1 4 69 0 28 1 21739634 -48 43902345 -6 2 9.900840e-01 1 4 69 0 5 1 5.600000e+00 LUSC-60-2726 37 11 1 46592868 11 1 46596189 inversion 3325 17 0 0 0 26_samples:0 46592875 46593148 274 64 46596200 46596493 294 73 AMBRA1 5'-UTR of AMBRA1(-): 23Kb before coding start AMBRA1 5'-UTR of AMBRA1(-): 26Kb before coding start Antisense fusion 1.000000e-02 0 0 0 8 1 1 2 -9.238212e-02 4.504125e-01 5.000000e-01 8.500000e+00 1 8.500000e+00 1 46592875 46596200 1 46592868 -7 46596189 -11 12 9.074526e-01 1 3 77 2 CA 21 1 46592868 -7 46596189 -11 1 9.120817e-01 1 3 77 2 CA 8 1 2.625000e+00 LUSC-60-2726 99 6 0 63412717 6 1 63448475 deletion 35840 8 0 0 0 26_samples:0 63412563 63412715 153 16 63448555 63448771 217 36 KHDRBS2 IGR: 417Kb after KHDRBS2(-) KHDRBS2 IGR: 452Kb after KHDRBS2(-) - 0 0 6.000000e-02 3.000000e-02 6 4 5 1 -2.337942e+00 -1.370680e+00 8.752137e-01 7.001709e+00 1 7.001709e+00 1 63412715 63448555 1 63412717 2 63448475 -80 13 9.929672e-01 0 4 79 0 18 1 -1 -63412716 -1 -63448556 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 107 1 1 195786034 14 0 89494290 inter_chr NaN 7 0 0 0 26_samples:0 195786134 195786332 199 52 89494113 89494293 181 36 KCNT2 IGR: 409Kb before KCNT2(-) FOXN3 IGR: 128Kb before FOXN3(-) - 1.000000e-02 0 0 0 3 1 1 0 -4.952741e-01 -1.183497e+00 1 7 1 7 1 195786134 89494293 1 195786034 -100 89494290 -3 6 9.914818e-01 1 1 55 0 14 1 -1 -195786135 -1 -89494294 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 124 22 1 30844373 22 0 30851379 tandem_dup 6948 7 0 0 0 26_samples:0 30844427 30844647 221 49 30851231 30851375 145 14 SEC14L3 IGR: 11Kb before SEC14L3(-) SEC14L3 IGR: 4Kb before SEC14L3(-) - 0 0 0 0 1 1 3 0 -6.243159e-01 -2.129804e+00 1 7 1 7 1 30844427 30851375 1 30844373 -54 30851379 4 5 1 1 4 90 0 16 1 -1 -30844428 -1 -30851376 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 56 11 1 71459964 11 1 98623807 long_range 27163769 14 0 0 0 26_samples:0 71460039 71460280 242 37 98623808 98623995 188 32 FAM86C IGR: 39Kb before FAM86C(+) CNTN5 IGR: 268Kb before CNTN5(+) - 2.300000e-01 1.700000e-01 1.000000e-02 1.000000e-02 8 1 6 2 -1.572296e+00 -1.851296e+00 4.444444e-01 6.222222e+00 1 6.222222e+00 1 71460039 98623808 1 71459964 -75 98623807 -1 20 9.977336e-01 1 0 56 0 32 1 -1 -71460040 -1 -98623809 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 140 4 1 42711575 10 0 126328081 inter_chr NaN 6 0 0 0 26_samples:0 42711733 42711877 145 32 126327908 126328073 166 24 ATP8A1 IGR: 53Kb after ATP8A1(-) FAM53B Intron of FAM53B(-): 16Kb before exon 5 - 0 0 0 0 2 0 1 1 -1.355553e+00 -1.699664e+00 1 6 1 6 1 42711733 126328073 1 42711575 -158 126328081 8 4 9.568396e-01 1 1 75 0 24 1 -1 -42711734 -1 -126328074 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 141 4 1 42710779 10 1 126327911 inter_chr NaN 6 0 0 0 26_samples:0 42710898 42711074 177 29 126327914 126328082 169 30 ATP8A1 IGR: 52Kb after ATP8A1(-) FAM53B Intron of FAM53B(-): 16Kb before exon 5 - 0 0 0 0 1 0 1 1 -1.484595e+00 -1.441581e+00 1 6 1 6 1 42710898 126327914 1 42710779 -119 126327911 -3 17 9.870299e-01 1 1 75 0 28 1 -1 -42710899 -1 -126327915 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 34 4 1 19793589 4 0 20207128 tandem_dup 413532 17 0 0 0 26_samples:0 19793595 19794047 453 103 20206846 20207127 282 61 SLIT2 IGR: 462Kb before SLIT2(+) SLIT2 IGR: 48Kb before SLIT2(+) - 0 0 0 0 2 1 3 1 2.259728e+00 -2.733137e-01 3.334355e-01 5.668404e+00 1 5.668404e+00 1 19793595 20207127 1 19793589 -6 20207128 1 11 9.979899e-01 1 5 68 0 27 1 19793392 -203 20207175 48 3 8.138038e-01 1 2 69 0 13 1 2.076923e+00 LUSC-60-2726 79 2 0 58750192 2 1 60308851 long_range 1558736 10 0 0 0 26_samples:0 58749880 58750132 253 54 60308868 60309293 426 103 FANCL IGR: 364Kb before FANCL(-) BCL11A IGR: 369Kb before BCL11A(-) - 0 0 0 1.000000e-02 2 1 4 0 -5.650573e-01 1.978438e+00 5.163422e-01 5.163422e+00 1 5.163422e+00 1 58750132 60308868 1 58750192 60 60308851 -17 7 9.983353e-01 0 1 80 0 65 1 -1 -58750133 -1 -60308869 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 200 4 1 61929902 22 1 29065672 inter_chr NaN 5 0 0 0 26_samples:0 61929902 61930124 223 51 29065672 29065887 216 57 LPHN3 IGR: 433Kb before LPHN3(+) TTC28 Intron of TTC28(-): 10Kb after exon 1 - 0 0 0 0 3 0 4 0 -4.677433e-01 -2.286693e-01 1 5 1 5 1 61929902 29065672 1 61929893 -9 29065321 -351 11 8.424603e-01 1 0 73 16 GAAGTTTCTTTTTCTT 25 1 61929893 -9 29065321 -351 4 8.631887e-01 1 0 73 16 GAAGTTTCTTTTTCTT 11 0 2.272727e+00 LUSC-60-2726 203 5 0 25791277 23 1 11952993 inter_chr NaN 5 0 0 0 26_samples:0 25791106 25791277 172 31 11952993 11953128 136 16 CDH9 IGR: 1Mb before CDH9(-) MSL3 IGR: 175Kb before MSL3(+) - 0 0 0 0 2 1 4 1 -1.264657e+00 -1.862342e+00 1 5 1 5 1 25791277 11952993 1 25791402 125 11953191 198 1 9.751630e-01 0 0 73 0 6 1 -1 -25791278 -1 -11952994 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2726 204 5 1 25791384 23 0 11953134 inter_chr NaN 5 0 0 0 26_samples:0 25791527 25791712 186 36 11952991 11953131 141 23 CDH9 IGR: 1Mb before CDH9(-) MSL3 IGR: 175Kb before MSL3(+) - 0 0 0 0 2 0 4 1 -1.065428e+00 -1.583422e+00 1 5 1 5 1 25791527 11953131 1 25791384 -143 11953134 3 3 9.187292e-01 1 1 58 42 GATGAGTTCATATCCTTTGTAGGGACATGGATGAAATTGGAA 15 1 -1 -25791528 -1 -11953132 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 206 6 0 31805213 6 1 31807318 deletion 2178 5 0 0 0 26_samples:0 31804939 31805143 205 43 31807321 31807537 217 44 C6orf48 Exon 4 of C6orf48(+) C6orf48 Exon 5 of C6orf48(+) Deletion within transcript: mid-exon 0 0 0 0 3 0 2 1 -7.865087e-01 -7.466630e-01 1 5 1 5 1 31805143 31807321 1 31805213 70 31807318 -3 3 1 0 2 70 0 20 1 -1 -31805144 -1 -31807322 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 246 19 1 12670358 21 1 35099388 inter_chr NaN 5 0 0 0 26_samples:0 12670358 12670491 134 14 35099388 35099522 135 17 ZNF490 IGR: 17Kb before ZNF490(-) ITSN1 Intron of ITSN1(+): 4Kb after exon 4 - 0 0 0 0 4 0 2 1 -1.942033e+00 -1.822496e+00 1 5 1 5 1 12670358 35099388 1 12670079 -279 35099033 -355 2 7.846438e-01 1 5 117 0 15 1 12670079 -279 35099033 -355 4 7.918840e-01 1 5 117 0 11 0 1.363636e+00 LUSC-60-2726 16 5 1 169874897 11 0 77739751 inter_chr NaN 28 0 0 0 26_samples:0 169874892 169875060 169 24 77739348 77739712 365 58 KCNIP1 Intron of KCNIP1(+): 94Kb after exon 1 KCTD14 IGR: 5Kb after KCTD14(-) - 0 0 0 1.000000e-02 8 0 10 2 -2.766293e+00 -5.204864e-01 1.611099e-01 4.511076e+00 1 4.511076e+00 1 169874892 77739712 1 169874897 5 77739751 39 16 9.763243e-01 1 0 82 0 108 1 169875053 161 77739663 -49 1 9.502473e-01 1 1 72 0 16 1 6.750000e+00 LUSC-60-2726 31 5 0 169875063 11 0 77741776 inter_chr NaN 18 0 0 0 26_samples:0 169874904 169875063 160 29 77741602 77741776 175 25 KCNIP1 Intron of KCNIP1(+): 94Kb after exon 1 KCTD14 IGR: 7Kb after KCTD14(-) - 0 0 0 0 8 0 8 1 -2.203250e+00 -2.444492e+00 2.500000e-01 4.500000e+00 1 4.500000e+00 1 169875063 77741776 1 169875132 69 77741982 206 5 8.308375e-01 0 5 77 0 126 1 169875264 201 77741643 -133 1 7.742626e-01 0 4 85 2 CA 20 0 6.300000e+00 LUSC-60-2726 116 6 1 31804917 11 0 80112156 inter_chr NaN 7 0 0 0 26_samples:0 31804968 31805204 237 57 80111745 80112146 402 106 C6orf48 5'-UTR of C6orf48(+): 138bp before coding start MIR708 IGR: 999Kb before MIR708(-) - 0 0 0 0 3 0 2 0 -2.802045e-01 1.827478e+00 6.383287e-01 4.468301e+00 1 4.468301e+00 1 31804968 80112146 1 31804917 -51 80112156 10 2 9.936971e-01 1 1 75 0 8 1 31804766 -202 80112031 -115 1 7.786359e-01 1 2 78 43 TCCTCCCTTTCTAACGTCCACTCCTGGACTCATTTGTTAGATC 18 1 4.444444e-01 LUSC-60-2726 172 2 0 59096216 2 0 59101178 inversion 4891 5 0 0 0 26_samples:0 59096083 59096225 143 20 59100883 59101116 234 53 FANCL IGR: 710Kb before FANCL(-) FANCL IGR: 715Kb before FANCL(-) - 0 0 0 0 6 1 3 1 -1.702959e+00 -3.880520e-01 8.888889e-01 4.444444e+00 1 4.444444e+00 1 59096225 59101116 1 59096216 -9 59101178 62 11 9.989404e-01 0 1 70 0 103 1 -1 -59096226 -1 -59101117 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 344 3 1 67997539 8 0 118744869 inter_chr NaN 4 0 0 0 26_samples:0 67997607 67997765 159 25 118744821 118744934 114 6 FAM19A1 IGR: 56Kb before FAM19A1(+) EXT1 IGR: 67Kb before EXT1(-) - 2.000000e-02 2.000000e-02 0 4.000000e-02 3 1 2 1 -1.297224e+00 -1.972491e+00 1 4 1 4 1 67997607 118744934 1 67997539 -68 118744869 -65 3 9.755190e-01 1 20 117 0 18 1 -1 -67997608 -1 -118744935 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 352 3 1 123595275 13 1 79297677 inter_chr NaN 4 0 0 0 26_samples:0 123595275 123595389 115 6 79297677 79297838 162 49 MYLK 5'-UTR of MYLK(-): 83Kb before coding start RNF219 IGR: 109Kb before RNF219(-) - 0 2.000000e-02 0 0 2 0 1 2 -1.972491e+00 -4.442557e-01 1 4 1 4 1 123595275 79297677 1 123595246 -29 79297589 -88 1 7.538012e-01 1 0 70 0 10 1 -1 -123595276 -1 -79297678 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-60-2726 408 6 1 90431268 12 1 38041156 inter_chr NaN 4 0 0 0 26_samples:0 90431288 90431522 235 76 38041204 38041395 192 42 MDN1 Intron of MDN1(-): 1Kb after exon 40 ALG10B IGR: 669Kb before ALG10B(+) - 1.000000e-02 2.000000e-02 2.000000e-02 3.000000e-02 3 1 3 1 5.153337e-01 -6.930381e-01 1 4 1 4 1 90431288 38041204 1 90431268 -20 38041156 -48 4 9.936077e-01 1 3 77 0 10 1 -1 -90431289 -1 -38041205 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-60-2726 414 7 1 30032106 7 1 30033321 inversion 1215 4 0 0 0 26_samples:0 30032106 30032316 211 79 30033321 30033476 156 35 SCRN1 Promoter of SCRN1(-): 2Kb from tx start SCRN1 IGR: 3Kb after SCRN1(-) - 1.000000e-02 0 6.000000e-02 0 1 0 2 1 6.219547e-01 -9.418205e-01 1 4 1 4 1 30032106 30033321 1 -1 -30032107 -1 -30033322 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -30032107 -1 -30033322 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2756 4252 9 0 25220031 9 0 25309740 inversion 89703 443 2 0 0 26_samples:0 25219774 25220046 273 49 25309388 25309749 362 55 TUSC1 IGR: 456Kb before TUSC1(-) TUSC1 IGR: 367Kb before TUSC1(-) - 0 0 2.000000e-02 1.200000e-01 29 2 6 3 -4.153781e-01 9.912293e-02 9.065667e-01 4.016091e+02 1 4.016091e+02 1 25220046 25309749 1 25220031 -15 25309740 -9 20 9.782373e-01 0 5 74 0 282 1 25220031 -15 25309740 -9 1 9.914170e-01 0 5 74 0 19 1 1.484211e+01 LUSC-66-2756 4253 9 1 25219775 9 0 25310387 tandem_dup 90623 440 2 0 0 26_samples:0 25219771 25220042 272 53 25310047 25310394 348 60 TUSC1 IGR: 457Kb before TUSC1(-) TUSC1 IGR: 366Kb before TUSC1(-) - 0 0 0 0 29 2 5 1 -7.237742e-02 5.278738e-01 8.840979e-01 3.890031e+02 1 3.890031e+02 1 25219771 25310394 1 25219775 4 25310387 -7 20 9.783161e-01 1 5 68 0 448 1 25219775 4 25310387 -7 1 9.784794e-01 1 5 68 0 9 1 4.977778e+01 LUSC-66-2756 2 9 0 28169401 9 0 28176571 inversion 7170 130 0 0 0 26_samples:0 28169094 28169405 312 56 28176248 28176575 328 57 LINGO2 5'-UTR of LINGO2(-): 219Kb before coding start LINGO2 5'-UTR of LINGO2(-): 226Kb before coding start - 0 0 0 0 2 2 1 2 1.848731e-01 2.706233e-01 1 130 1 130 1 28169405 28176575 1 28169401 -4 28176571 -4 20 9.982507e-01 0 5 77 0 175 1 28169611 206 28176458 -117 9 8.959244e-01 0 6 76 0 24 1 7.291667e+00 LUSC-66-2756 3 7 0 122422382 7 0 122424358 inversion 1980 124 0 0 0 26_samples:0 122422054 122422381 328 59 122424031 122424361 331 57 CADPS2 Intron of CADPS2(-): 45Kb before exon 2 CADPS2 Intron of CADPS2(-): 47Kb before exon 2 - 0 0 0 0 1 0 0 0 4.421236e-01 2.706233e-01 1 124 1 124 1 122422381 122424361 1 122422382 1 122424358 -3 20 9.562186e-01 0 1 76 7 GTTTGGT 121 1 122422382 1 122424358 -3 1 8.460305e-01 0 1 76 7 GTTTGGT 23 1 5.260870e+00 LUSC-66-2756 4 5 0 55828785 5 0 55987070 inversion 158289 118 0 0 0 26_samples:0 55828521 55828779 259 55 55986760 55987068 309 56 MAP3K1 IGR: 282Kb before MAP3K1(+) MAP3K1 IGR: 124Kb before MAP3K1(+) - 0 0 0 0 3 1 4 1 9.912293e-02 1.848731e-01 1 118 1 118 1 55828779 55987068 1 55828785 6 55987070 2 20 8.901447e-01 0 2 66 0 145 1 -1 -55828780 -1 -55987069 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 5 5 1 55814751 5 1 55822696 inversion 7946 109 0 0 0 26_samples:0 55814750 55815072 323 54 55822696 55823043 348 54 MAP3K1 IGR: 296Kb before MAP3K1(+) MAP3K1 IGR: 288Kb before MAP3K1(+) - 0 0 0 0 1 0 3 0 1.337275e-02 1.337275e-02 1 109 1 109 1 55814750 55822696 1 55814751 1 55822696 0 20 9.465383e-01 1 1 79 1 A 96 1 -1 -55814751 -1 -55822697 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 6 7 1 122413984 7 0 124918635 long_range 2504664 103 0 0 0 26_samples:0 122413979 122414292 314 57 124918287 124918643 357 59 CADPS2 Intron of CADPS2(-): 37Kb before exon 2 POT1 IGR: 456Kb before POT1(-) - 0 0 0 0 4 1 4 1 2.706233e-01 4.421236e-01 1 103 1 103 1 122413979 124918643 1 122413984 5 124918635 -8 20 9.711106e-01 1 3 75 0 114 1 -1 -122413980 -1 -124918644 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 7 9 0 27907154 9 0 27908871 inversion 1720 97 0 0 0 26_samples:0 27906838 27907156 319 57 27908591 27908876 286 56 LINGO2 IGR: 41Kb before LINGO2(-) LINGO2 IGR: 40Kb before LINGO2(-) - 0 0 0 0 2 0 4 0 2.706233e-01 1.848731e-01 1 97 1 97 1 27907156 27908876 1 27907154 -2 27908871 -5 20 9.235079e-01 0 0 66 20 TGTGGTATTCAATTGATTTT 228 1 27907358 202 27908806 -70 2 8.291020e-01 0 1 73 19 TTGAAAACATATTGGACAT 24 1 9.500000e+00 LUSC-66-2756 9 9 0 29225881 9 0 29227161 inversion 1274 88 0 0 0 26_samples:0 29225554 29225888 335 58 29226866 29227162 297 59 MIR873 IGR: 337Kb before MIR873(-) MIR873 IGR: 338Kb before MIR873(-) - 0 0 0 0 2 1 0 0 3.563735e-01 4.421236e-01 1 88 1 88 1 29225888 29227162 1 29225881 -7 29227161 -1 20 9.337079e-01 0 0 68 0 104 1 -1 -29225889 -1 -29227163 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 11 2 0 55449325 2 0 56700590 long_range 1251260 71 0 0 0 26_samples:0 55449005 55449332 328 59 56700299 56700592 294 52 C2orf63 Intron of C2orf63(-): 39bp after exon 3 CCDC85A IGR: 289Kb before CCDC85A(+) - 0 2.000000e-02 0 0 2 1 2 2 4.421236e-01 -1.581276e-01 1 71 1 71 1 55449332 56700592 1 55449325 -7 56700590 -2 20 9.480767e-01 0 0 79 0 76 1 -1 -55449333 -1 -56700593 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 12 8 1 53763615 8 0 56387710 long_range 2624105 69 0 0 0 26_samples:0 53763610 53763923 314 63 56387419 56387715 297 64 NPBWR1 IGR: 89Kb before NPBWR1(+) XKR4 Intron of XKR4(+): 48Kb before exon 3 - 2.000000e-02 7.000000e-02 0 0 3 1 5 1 7.851243e-01 8.708745e-01 9.991501e-01 6.894136e+01 1 6.894136e+01 1 53763610 56387715 1 53763615 5 56387710 -5 20 9.907178e-01 1 1 72 0 89 1 -1 -53763611 -1 -56387716 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 13 2 1 51458013 2 0 51640943 tandem_dup 182938 61 0 0 0 26_samples:0 51458007 51458351 345 56 51640628 51640945 318 60 NRXN1 IGR: 198Kb after NRXN1(-) NRXN1 IGR: 381Kb after NRXN1(-) - 0 0 0 0 1 1 3 0 1.848731e-01 5.278738e-01 1 61 1 61 1 51458007 51640945 1 51458013 6 51640943 -2 20 9.938738e-01 1 1 73 0 65 1 -1 -51458008 -1 -51640946 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 14 8 1 53414859 8 1 54511857 long_range 1097004 60 0 0 0 26_samples:0 53414857 53415168 312 64 54511861 54512177 317 61 FAM150A IGR: 32Kb before FAM150A(-) ATP6V1H IGR: 116Kb before ATP6V1H(-) - 0 0 0 0 2 0 4 1 8.708745e-01 6.136240e-01 1 60 1 60 1 53414857 54511861 1 53414859 2 54511857 -4 20 9.593112e-01 1 0 78 0 70 1 -1 -53414858 -1 -54511862 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 15 7 1 148544486 7 1 148593429 inversion 48940 58 0 0 0 26_samples:0 148544483 148544785 303 66 148593423 148593714 292 62 EZH2 5'-UTR of EZH2(-): 93bp before coding start EZH2 IGR: 12Kb after EZH2(-) - 0 0 0 0 2 0 3 1 1.042375e+00 6.993742e-01 9.999239e-01 5.799559e+01 1 5.799559e+01 1 148544483 148593423 1 148544486 3 148593429 6 20 9.890416e-01 1 1 75 0 79 1 -1 -148544484 -1 -148593424 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 16 8 0 54647073 8 1 55185909 deletion 538830 57 0 0 0 26_samples:0 54646779 54647079 301 54 55185909 55186234 326 61 ATP6V1H Intron of ATP6V1H(-): 9Kb after exon 13 MRPL15 IGR: 138Kb before MRPL15(+) - 0 0 0 0 4 0 3 0 1.337275e-02 6.136240e-01 1 57 1 57 1 54647079 55185909 1 54647073 -6 55185909 0 20 9.890486e-01 0 0 71 0 61 1 -1 -54647080 -1 -55185910 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 17 2 1 50236945 2 0 80187995 long_range 29951060 54 0 0 0 26_samples:0 50236941 50237241 301 52 80187730 80188001 272 48 NRXN1 Intron of NRXN1(-): 43Kb after exon 22 CTNNA2 Intron of CTNNA2(+): 51Kb after exon 7 Antisense fusion 0 0 0 0 3 0 2 1 -1.581276e-01 -5.011283e-01 1 54 1 54 1 50236941 80188001 1 50236945 4 80187995 -6 20 9.914287e-01 1 2 70 0 76 1 50236960 19 80188207 206 3 7.991226e-01 1 6 72 0 10 1 7.600000e+00 LUSC-66-2756 8 9 1 28548374 9 1 28569947 inversion 21573 96 0 0 0 26_samples:0 28548369 28548662 294 48 28569942 28570334 393 63 LINGO2 5'-UTR of LINGO2(-): 598Kb before coding start LINGO2 5'-UTR of LINGO2(-): 619Kb before coding start Antisense fusion 0 5.000000e-02 0 0 7 1 9 1 -5.011283e-01 7.851243e-01 5.600125e-01 5.376120e+01 1 5.376120e+01 1 28548369 28569942 1 28548374 5 28569947 5 20 9.965502e-01 1 1 70 0 141 1 -1 -28548370 -1 -28569943 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 18 2 1 153884064 2 0 153938352 tandem_dup 54301 52 0 0 0 26_samples:0 153884061 153884336 276 47 153938102 153938362 261 43 ARL6IP6 IGR: 310Kb before ARL6IP6(+) ARL6IP6 IGR: 364Kb before ARL6IP6(+) - 0 0 1.000000e-02 5.000000e-02 2 1 2 0 -5.868785e-01 -9.298792e-01 1 52 1 52 1 153884061 153938362 1 153884064 3 153938352 -10 20 9.438402e-01 1 1 76 33 TATAGTGCTACCAGCACTAAGCAGAATATGACT 97 1 -1 -153884062 -1 -153938363 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 19 7 0 124686514 7 1 124705178 deletion 18668 51 0 0 0 26_samples:0 124686264 124686521 258 53 124705189 124705470 282 57 POT1 IGR: 224Kb before POT1(-) POT1 IGR: 243Kb before POT1(-) - 2.000000e-02 5.000000e-02 0 0 2 1 3 1 -7.237742e-02 2.706233e-01 1 51 1 51 1 124686521 124705189 1 124686514 -7 124705178 -11 20 9.834705e-01 0 2 63 0 56 1 124686514 -7 124705178 -11 1 1 0 2 63 0 21 1 2.666667e+00 LUSC-66-2756 20 9 1 28172814 9 1 28174180 inversion 1370 51 0 0 0 26_samples:0 28172808 28173140 333 62 28174178 28174467 290 57 LINGO2 5'-UTR of LINGO2(-): 222Kb before coding start LINGO2 5'-UTR of LINGO2(-): 224Kb before coding start Antisense fusion 0 0 0 0 2 0 4 0 6.993742e-01 2.706233e-01 1 51 1 51 1 28172808 28174178 1 28172814 6 28174180 2 20 9.978401e-01 1 2 75 0 90 1 -1 -28172809 -1 -28174179 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 21 9 1 26941934 9 1 35528605 long_range 8586667 49 0 0 0 26_samples:0 26941933 26942248 316 62 35528600 35528924 325 63 PLAA Intron of PLAA(-): 5Kb after exon 1 RUSC2 5'-UTR of RUSC2(+): 18Kb before coding start Transcript fusion (PLAA-RUSC2) 0 0 3.000000e-02 0 4 2 4 0 6.993742e-01 7.851243e-01 1 49 1 49 1 26941933 35528600 1 26941934 1 35528605 5 20 9.655592e-01 1 1 66 0 84 1 -1 -26941934 -1 -35528601 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 23 5 0 55814981 5 0 55821608 inversion 6604 46 0 0 0 26_samples:0 55814770 55814985 216 40 55821285 55821589 305 46 MAP3K1 IGR: 296Kb before MAP3K1(+) MAP3K1 IGR: 289Kb before MAP3K1(+) - 0 0 0 0 1 0 4 1 -1.187130e+00 -6.726286e-01 1 46 1 46 1 55814985 55821589 1 55814981 -4 55821608 19 20 9.888786e-01 0 0 70 0 77 1 -1 -55814986 -1 -55821590 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 24 2 0 40305514 2 0 185016549 long_range 144711037 45 0 0 0 26_samples:0 40305185 40305513 329 61 185016258 185016550 293 56 SLC8A1 IGR: 34Kb before SLC8A1(-) ZNF804A IGR: 447Kb before ZNF804A(+) - 0 0 0 0 1 0 2 1 6.136240e-01 1.848731e-01 1 45 1 45 1 40305513 185016550 1 40305514 1 185016549 -1 20 9.694023e-01 0 3 82 0 61 1 -1 -40305514 -1 -185016551 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 25 2 0 78283737 2 1 78664410 deletion 380681 45 0 0 0 26_samples:0 78283416 78283734 319 55 78664415 78664695 281 49 SNAR-H IGR: 102Kb before SNAR-H(-) SNAR-H IGR: 482Kb before SNAR-H(-) - 1.000000e-02 0 2.000000e-02 0 3 2 3 1 9.912293e-02 -4.153781e-01 1 45 1 45 1 78283734 78664415 1 78283737 3 78664410 -5 20 9.906099e-01 0 4 79 0 40 1 -1 -78283735 -1 -78664416 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 26 2 1 133308414 2 1 135038463 long_range 1730053 45 0 0 0 26_samples:0 133308408 133308764 357 64 135038461 135038769 309 62 GPR39 Intron of GPR39(+): 94Kb before exon 2 MGAT5 Intron of MGAT5(+): 10Kb after exon 2 - 0 0 0 0 2 1 2 0 8.708745e-01 6.993742e-01 1 45 1 45 1 133308408 135038461 1 133308414 6 135038463 2 20 9.951950e-01 1 3 71 0 49 1 -1 -133308409 -1 -135038462 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 27 8 0 30470038 8 1 107146687 long_range 76676634 45 0 0 0 26_samples:0 30469714 30470049 336 63 107146683 107146982 300 58 GTF2E2 Intron of GTF2E2(-): 51bp before exon 5 OXR1 IGR: 136Kb before OXR1(+) - 0 0 0 0 3 1 1 0 7.851243e-01 3.563735e-01 1 45 1 45 1 30470049 107146683 1 30470038 -11 107146687 4 20 9.956960e-01 0 2 77 0 39 1 -1 -30470050 -1 -107146684 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 29 2 1 13651183 2 1 155936886 long_range 142285701 44 0 0 0 26_samples:0 13651179 13651483 305 55 155936880 155937152 273 53 TRIB2 IGR: 794Kb before TRIB2(+) KCNJ3 IGR: 382Kb before KCNJ3(+) - 0 0 0 0 1 1 1 0 9.912293e-02 -7.237742e-02 1 44 1 44 1 13651179 155936880 1 13651183 4 155936886 6 20 9.911383e-01 1 2 82 0 32 1 -1 -13651180 -1 -155936881 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 30 2 0 144078603 2 1 153639027 long_range 9560423 44 0 0 0 26_samples:0 144078281 144078602 322 46 153639025 153639272 248 47 ARHGAP15 Intron of ARHGAP15(+): 70Kb after exon 6 ARL6IP6 IGR: 21Kb after ARL6IP6(+) - 0 0 0 4.000000e-02 3 1 2 1 -6.726286e-01 -5.868785e-01 1 44 1 44 1 144078602 153639025 1 144078603 1 153639027 2 20 8.848036e-01 0 1 73 26 AATGGTACCAGCTCATGGTTATGATA 61 1 -1 -144078603 -1 -153639026 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 28 1 1 40105704 5 0 138171039 inter_chr NaN 44 0 0 0 26_samples:0 40105709 40106031 323 66 138170762 138171038 277 66 HEYL Promoter of HEYL(-): 361bp from tx start CTNNA1 Intron of CTNNA1(+): 8Kb after exon 7 Antisense fusion 0 0 5.000000e-02 8.000000e-02 3 0 2 1 1.042375e+00 1.042375e+00 9.998478e-01 4.399330e+01 1 4.399330e+01 1 40105709 138171038 1 40105704 -5 138171039 1 20 9.719996e-01 1 2 67 0 38 1 -1 -40105710 -1 -138171039 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 31 9 0 35572253 9 0 36086280 inversion 514026 44 0 0 0 26_samples:0 35571974 35572259 286 61 36085938 36086285 348 68 FAM166B IGR: 10Kb before FAM166B(-) RECK Intron of RECK(+): 1Kb before exon 9 - 0 0 0 3.000000e-02 3 0 2 0 6.136240e-01 1.213875e+00 9.903116e-01 4.357371e+01 1 4.357371e+01 1 35572259 36086285 1 35572253 -6 36086280 -5 20 9.645774e-01 0 1 80 0 55 1 -1 -35572260 -1 -36086286 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 32 2 0 23489463 2 0 117553591 long_range 94064134 41 0 0 0 26_samples:0 23489172 23489464 293 51 117553321 117553598 278 45 KLHL29 IGR: 119Kb before KLHL29(+) DDX18 IGR: 1Mb before DDX18(+) - 0 0 3.000000e-02 1.100000e-01 4 0 3 1 -2.438778e-01 -7.583788e-01 1 41 1 41 1 23489464 117553598 1 23489463 -1 117553591 -7 20 9.891515e-01 0 1 70 0 76 1 23489463 -1 117553591 -7 1 1 0 1 70 0 21 1 3.619048e+00 LUSC-66-2756 33 2 1 113899246 2 1 184172514 long_range 70273276 41 0 0 0 26_samples:0 113899245 113899545 301 64 184172521 184172855 335 57 IL1RN IGR: 8Kb after IL1RN(+) NUP35 IGR: 183Kb before NUP35(+) - 0 0 0 0 2 1 2 1 8.708745e-01 2.706233e-01 1 41 1 41 1 113899245 184172521 1 113899246 1 184172514 -7 20 9.739556e-01 1 1 70 0 44 1 -1 -113899246 -1 -184172522 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 34 7 0 122454724 7 0 123658448 long_range 1203730 40 0 0 0 26_samples:0 122454410 122454726 317 63 123658164 123658456 293 59 CADPS2 Intron of CADPS2(-): 71Kb after exon 1 TMEM229A IGR: 13Kb before TMEM229A(-) - 0 0 0 0 3 2 2 0 7.851243e-01 4.421236e-01 1 40 1 40 1 122454726 123658456 1 122454724 -2 123658448 -8 20 9.746382e-01 0 1 76 0 36 1 122454927 201 123658643 187 1 7.808183e-01 0 1 80 49 TTTCATTAAATTTGCCATATTCTGGGTAAGTAGAAACTTCCTTTAGACA 28 1 1.285714e+00 LUSC-66-2756 35 2 0 125309357 2 1 144082386 long_range 18773022 39 0 0 0 26_samples:0 125309079 125309361 283 50 144082383 144082663 281 51 CNTNAP5 Intron of CNTNAP5(+): 11Kb before exon 11 ARHGAP15 Intron of ARHGAP15(+): 74Kb after exon 6 Protein fusion: out of frame (CNTNAP5-ARHGAP15) 0 0 0 0 2 0 1 1 -3.296279e-01 -2.438778e-01 1 39 1 39 1 125309361 144082383 1 125309357 -4 144082386 3 20 9.722626e-01 0 0 73 2 AG 39 1 -1 -125309362 -1 -144082384 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 37 1 0 79506659 5 0 137178467 inter_chr NaN 38 0 0 0 26_samples:0 79506388 79506669 282 54 137178166 137178465 300 57 ELTD1 IGR: 34Kb after ELTD1(-) MYOT IGR: 25Kb before MYOT(+) - 0 0 0 0 1 0 2 0 1.337275e-02 2.706233e-01 1 38 1 38 1 79506669 137178465 1 79506659 -10 137178467 2 20 9.890271e-01 0 0 83 0 43 1 -1 -79506670 -1 -137178466 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 38 2 0 154103189 2 1 218818842 long_range 64715647 38 0 0 0 26_samples:0 154102930 154103193 264 45 218818840 218819101 262 57 RPRM IGR: 231Kb before RPRM(-) TNS1 IGR: 10Kb after TNS1(-) - 3.000000e-02 5.000000e-02 0 0 2 1 3 0 -7.583788e-01 2.706233e-01 1 38 1 38 1 154103193 218818840 1 154103189 -4 218818842 2 20 9.373497e-01 0 0 66 18 GGCTGGAGAGACAAGGAG 68 1 -1 -154103194 -1 -218818841 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 39 2 1 56565184 2 0 219331406 long_range 162766220 37 0 0 0 26_samples:0 56565189 56565462 274 51 219331117 219331409 293 48 CCDC85A Intron of CCDC85A(+): 5Kb before exon 3 USP37 Intron of USP37(-): 510bp before exon 21 - 0 4.000000e-02 0 0 2 0 3 0 -2.438778e-01 -5.011283e-01 1 37 1 37 1 56565189 219331409 1 56565184 -5 219331406 -3 20 9.557412e-01 1 0 75 0 69 1 56564983 -206 219331526 117 13 8.556872e-01 1 5 127 0 35 1 1.971429e+00 LUSC-66-2756 40 3 0 192943062 3 1 192946159 deletion 3106 37 0 0 0 26_samples:0 192942785 192943063 279 60 192946169 192946462 294 64 HRASLS IGR: 16Kb before HRASLS(+) HRASLS IGR: 13Kb before HRASLS(+) - 0 3.000000e-02 2.000000e-02 3.000000e-02 1 1 0 0 5.278738e-01 8.708745e-01 1 37 1 37 1 192943063 192946169 1 192943062 -1 192946159 -10 17 9.239529e-01 0 2 75 0 36 1 192943267 204 192946296 127 1 7.545734e-01 0 3 85 0 9 1 4 LUSC-66-2756 42 8 1 32038490 8 0 39454903 long_range 7416422 37 0 0 0 26_samples:0 32038483 32038782 300 60 39454627 39454905 279 53 NRG1 Intron of NRG1(+): 415Kb before exon 2 ADAM18 Intron of ADAM18(+): 9Kb before exon 3 Protein fusion: out of frame (ADAM18-NRG1) 0 0 0 0 5 0 2 2 5.278738e-01 -7.237742e-02 9.953848e-01 3.682924e+01 1 3.682924e+01 1 32038483 39454905 1 32038490 7 39454903 -2 20 9.932737e-01 1 0 76 0 48 1 -1 -32038484 -1 -39454906 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 41 7 0 151534670 7 0 151536346 inversion 1678 37 0 0 0 26_samples:0 151534328 151534676 349 69 151536023 151536354 332 67 PRKAG2 Intron of PRKAG2(-): 39Kb after exon 1 PRKAG2 Intron of PRKAG2(-): 37Kb after exon 1 - 0 0 2.000000e-02 1.000000e-01 5 1 1 2 1.299625e+00 1.128125e+00 9.672769e-01 3.578924e+01 1 3.578924e+01 1 151534676 151536354 1 151534670 -6 151536346 -8 20 9.885658e-01 0 1 62 0 75 1 -1 -151534677 -1 -151536355 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 36 8 1 30016638 8 0 32053954 long_range 2037333 39 0 0 0 26_samples:0 30016631 30016948 318 71 32053658 32053964 307 65 DCTN6 Intron of DCTN6(+): 3Kb after exon 1 NRG1 Intron of NRG1(+): 399Kb before exon 2 Protein fusion: out of frame (NRG1-DCTN6) 0 0 0 0 4 1 2 1 1.471126e+00 9.566247e-01 9.053290e-01 3.530783e+01 1 3.530783e+01 1 30016631 32053964 1 30016638 7 32053954 -10 20 9.879463e-01 1 2 76 0 50 1 -1 -30016632 -1 -32053965 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 45 8 0 56977543 8 1 57090199 deletion 112645 35 0 0 0 26_samples:0 56977221 56977550 330 63 57090195 57090470 276 62 RPS20 IGR: 3Kb before RPS20(-) PLAG1 5'-UTR of PLAG1(-): 9Kb before coding start - 0 0 0 0 3 1 3 1 7.851243e-01 6.993742e-01 1 35 1 35 1 56977550 57090195 1 56977543 -7 57090199 4 20 9.964364e-01 0 4 77 0 52 1 -1 -56977551 -1 -57090196 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 46 2 1 135017798 2 1 158337743 long_range 23319948 34 0 0 0 26_samples:0 135017794 135018121 328 66 158337742 158338010 269 59 MGAT5 Intron of MGAT5(+): 6Kb after exon 1 ACVR1C IGR: 46Kb before ACVR1C(-) - 0 0 1.000000e-02 4.000000e-02 3 1 3 1 1.042375e+00 4.421236e-01 9.999239e-01 3.399741e+01 1 3.399741e+01 1 135017794 158337742 1 135017798 4 158337743 1 20 9.570082e-01 1 1 78 20 TAAATAACTGTATGTTATTT 45 1 -1 -135017795 -1 -158337743 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 48 8 0 53821282 8 0 53823395 inversion 2108 33 0 0 0 26_samples:0 53820990 53821285 296 57 53823150 53823393 244 50 NPBWR1 IGR: 31Kb before NPBWR1(+) NPBWR1 IGR: 29Kb before NPBWR1(+) - 0 0 0 0 2 1 1 0 2.706233e-01 -3.296279e-01 1 33 1 33 1 53821285 53823393 1 53821282 -3 53823395 2 17 8.771250e-01 0 1 72 1 G 47 1 -1 -53821286 -1 -53823394 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 49 9 0 26704149 9 1 36079397 long_range 9375241 33 0 0 0 26_samples:0 26703860 26704156 297 55 36079397 36079690 294 62 C9orf82 IGR: 137Kb before C9orf82(-) RECK Intron of RECK(+): 1Kb before exon 7 - 0 0 0 0 4 0 2 0 9.912293e-02 6.993742e-01 1 33 1 33 1 26704156 36079397 1 26704149 -7 36079397 0 20 8.860770e-01 0 0 69 0 77 1 -1 -26704157 -1 -36079398 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 43 8 1 32067024 8 0 36595646 long_range 4528632 36 0 0 0 26_samples:0 32067019 32067347 329 66 36595303 36595651 349 71 NRG1 Intron of NRG1(+): 386Kb before exon 2 KCNU1 IGR: 46Kb before KCNU1(+) - 4.000000e-02 0 0 0 1 1 1 1 1.042375e+00 1.471126e+00 9.052601e-01 3.258936e+01 1 3.258936e+01 1 32067019 36595651 1 32067024 5 36595646 -5 20 9.967078e-01 1 4 73 0 42 1 -1 -32067020 -1 -36595652 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 50 1 1 72838391 5 0 159738348 inter_chr NaN 32 0 0 0 26_samples:0 72838402 72838685 284 51 159738064 159738352 289 52 NEGR1 IGR: 90Kb after NEGR1(-) CCNJL Intron of CCNJL(-): 513bp after exon 2 - 0 0 0 0 2 0 2 0 -2.438778e-01 -1.581276e-01 1 32 1 32 1 72838402 159738352 1 72838391 -11 159738348 -4 20 9.554199e-01 1 2 74 0 36 1 -1 -72838403 -1 -159738353 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 52 9 1 27950875 9 1 28015486 inversion 64872 32 0 0 0 26_samples:0 27950804 27951102 299 61 28015676 28015991 316 61 LINGO2 5'-UTR of LINGO2(-): 135bp before coding start LINGO2 5'-UTR of LINGO2(-): 65Kb before coding start Antisense fusion 0 0 0 0 4 1 4 0 6.136240e-01 6.136240e-01 1 32 1 32 1 27950804 28015676 1 27950875 71 28015486 -190 20 9.349447e-01 1 0 75 0 53 1 27950875 71 28015486 -190 3 8.767517e-01 1 0 75 0 12 1 4.416667e+00 LUSC-66-2756 53 9 0 35053039 9 0 36131989 long_range 1078902 32 0 0 0 26_samples:0 35052772 35053042 271 52 36131681 36131944 264 49 VCP IGR: 3Kb before VCP(-) GLIPR2 IGR: 5Kb before GLIPR2(+) - 2.000000e-02 5.000000e-02 9.000000e-02 8.000000e-02 3 1 3 1 -1.581276e-01 -4.153781e-01 1 32 1 32 1 35053042 36131944 1 35053039 -3 36131989 45 20 9.966072e-01 0 1 71 0 62 1 -1 -35053043 -1 -36131945 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 51 8 1 30815420 8 0 35689852 long_range 4874436 32 0 0 0 26_samples:0 30815418 30815748 331 67 35689536 35689854 319 62 PURG IGR: 38Kb before PURG(-) UNC5D IGR: 38Kb after UNC5D(+) - 2.000000e-02 0 0 0 1 0 2 1 1.128125e+00 6.993742e-01 9.979011e-01 3.193284e+01 1 3.193284e+01 1 30815418 35689854 1 30815420 2 35689852 -2 19 9.616566e-01 1 2 67 0 24 1 -1 -30815419 -1 -35689855 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 55 3 1 138166291 3 1 184001839 long_range 45835546 31 0 0 0 26_samples:0 138166294 138166608 315 64 184001840 184002105 266 54 ESYT3 Intron of ESYT3(+): 5Kb before exon 2 ECE2 Intron of ECE2(+): 79bp after exon 8 - 0 0 0 6.000000e-02 2 0 2 1 8.708745e-01 1.337275e-02 1 31 1 31 1 138166294 184001840 1 138166291 -3 184001839 -1 12 9.948657e-01 1 4 67 0 20 1 -1 -138166295 -1 -184001841 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 56 7 1 123651246 7 1 126138878 long_range 2487619 31 0 0 0 26_samples:0 123651248 123651544 297 35 126138867 126139187 321 52 TMEM229A IGR: 20Kb before TMEM229A(-) GRM8 Intron of GRM8(-): 34Kb after exon 8 - 0 0 0 0 1 1 2 0 -1.615881e+00 -1.581276e-01 1 31 1 31 1 123651248 126138867 1 123651246 -2 126138878 11 20 9.957987e-01 1 3 75 0 40 1 -1 -123651249 -1 -126138868 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 57 8 1 37194037 8 0 37878226 tandem_dup 684177 31 0 0 0 26_samples:0 37194039 37194308 270 52 37877952 37878216 265 52 ZNF703 IGR: 359Kb before ZNF703(+) EIF4EBP1 IGR: 10Kb before EIF4EBP1(+) - 0 0 1.000000e-02 2.000000e-02 2 1 3 1 -1.581276e-01 -1.581276e-01 1 31 1 31 1 37194039 37878216 1 37194037 -2 37878226 10 19 9.871504e-01 1 3 75 0 32 1 37194037 -2 37878226 10 1 1 1 3 75 0 20 1 1.600000e+00 LUSC-66-2756 54 2 1 29002568 2 0 54234849 long_range 25232284 31 0 0 0 26_samples:0 29002574 29002844 271 59 54234584 54234858 275 37 PPP1CB Intron of PPP1CB(+): 669bp after exon 3 PSME4 IGR: 37Kb after PSME4(-) - 0 0 2.000000e-02 6.000000e-02 5 1 5 1 4.421236e-01 -1.444380e+00 9.883894e-01 3.064007e+01 1 3.064007e+01 1 29002574 54234858 1 29002568 -6 54234849 -9 20 9.877790e-01 1 2 63 0 32 1 -1 -29002575 -1 -54234859 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 59 8 0 32038596 8 0 33267499 long_range 1228904 30 0 0 0 26_samples:0 32038273 32038600 328 67 33267235 33267504 270 58 NRG1 Intron of NRG1(+): 415Kb before exon 2 FUT10 Intron of FUT10(-): 20Kb before exon 4 Protein fusion: in frame (NRG1-FUT10) 0 0 5.000000e-02 6.000000e-02 5 0 2 0 1.128125e+00 3.563735e-01 9.918721e-01 2.975616e+01 1 2.975616e+01 1 32038600 33267504 1 32038596 -4 33267499 -5 20 9.948345e-01 0 0 76 0 45 1 -1 -32038601 -1 -33267505 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 61 7 0 124354881 7 0 124384460 inversion 29559 27 0 0 0 26_samples:0 124354612 124354884 273 56 124384176 124384443 268 53 GPR37 IGR: 31Kb before GPR37(-) GPR37 IGR: 2Kb before GPR37(-) - 0 0 0 0 4 0 2 1 1.899893e-01 -4.600130e-02 1 27 1 27 1 124354884 124384443 1 124354881 -3 124384460 17 20 9.982044e-01 0 0 75 0 44 1 -1 -124354885 -1 -124384444 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 63 8 1 35684745 8 1 37239348 long_range 1554598 26 0 0 0 26_samples:0 35684742 35685065 324 64 37239340 37239641 302 57 UNC5D IGR: 33Kb after UNC5D(+) ZNF703 IGR: 314Kb before ZNF703(+) - 0 0 0 0 2 1 3 0 8.192975e-01 2.686528e-01 1 26 1 26 1 35684742 37239340 1 35684745 3 37239348 8 20 9.796616e-01 1 0 64 0 36 1 -1 -35684743 -1 -37239341 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 64 8 1 34729607 8 1 89565940 long_range 54836350 26 0 0 0 26_samples:0 34729599 34729874 276 51 89565949 89566244 296 54 UNC5D IGR: 363Kb before UNC5D(+) MMP16 IGR: 484Kb before MMP16(-) - 0 0 0 0 2 0 1 0 -2.033283e-01 3.266223e-02 1 26 1 26 1 34729599 89565949 1 34729607 8 89565940 -9 20 9.779828e-01 1 0 65 1 T 35 1 -1 -34729600 -1 -89565950 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 65 10 0 68072784 10 0 79804346 long_range 11731566 26 0 0 0 26_samples:0 68072462 68072783 322 67 79804066 79804349 284 70 CTNNA3 Intron of CTNNA3(-): 32Kb before exon 13 RPS24 Intron of RPS24(+): 7Kb after exon 4 Protein fusion: out of frame (RPS24-CTNNA3) 4.000000e-02 4.000000e-02 0 0 2 1 2 0 1.055288e+00 1.291279e+00 9.757181e-01 2.536867e+01 1 2.536867e+01 1 68072783 79804349 1 68072784 1 79804346 -3 16 9.922943e-01 0 1 69 0 37 1 -1 -68072784 -1 -79804350 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 68 7 1 122443385 7 1 123672132 long_range 1228819 25 0 0 0 26_samples:0 122443377 122443683 307 60 123672196 123672399 204 41 CADPS2 Intron of CADPS2(-): 66Kb before exon 2 TMEM229A Exon 1 of TMEM229A(-) Antisense fusion 0 0 0 0 1 0 1 0 5.046434e-01 -9.899636e-01 1 25 1 25 1 122443377 123672196 1 122443385 8 123672132 -64 13 9.757371e-01 1 1 62 0 21 1 -1 -122443378 -1 -123672197 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 69 8 0 32838466 8 1 32983172 deletion 144716 25 0 0 0 26_samples:0 32838218 32838457 240 51 32983173 32983457 285 47 NRG1 IGR: 259Kb before NRG1(+) FUT10 IGR: 245Kb before FUT10(-) - 3.000000e-02 5.000000e-02 3.000000e-02 3.000000e-02 2 0 2 0 -2.033283e-01 -5.179824e-01 1 25 1 25 1 32838457 32983173 1 32838466 9 32983172 -1 20 9.330946e-01 0 2 81 1 G 26 1 -1 -32838458 -1 -32983174 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 70 8 0 35277362 8 1 50640095 long_range 15362754 25 0 0 0 26_samples:0 35277081 35277347 267 54 50640101 50640377 277 58 UNC5D Intron of UNC5D(+): 129Kb before exon 2 SNTG1 IGR: 184Kb before SNTG1(+) - 0 0 2.000000e-02 0 2 0 2 0 3.266223e-02 3.473163e-01 1 25 1 25 1 35277347 50640101 1 35277362 15 50640095 -6 20 9.709811e-01 0 1 71 0 25 1 -1 -35277348 -1 -50640102 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 72 14 1 54856751 14 0 54863153 tandem_dup 6386 25 0 0 0 26_samples:0 54856763 54857057 295 51 54862899 54863149 251 47 CDKN3 IGR: 7Kb before CDKN3(+) CDKN3 Promoter of CDKN3(+): 524bp from tx start - 3.000000e-02 4.000000e-02 0 0 2 2 1 0 -2.033283e-01 -5.179824e-01 1 25 1 25 1 54856763 54863149 1 54856751 -12 54863153 4 15 9.891246e-01 1 11 94 0 30 1 54856559 -204 54863259 110 7 8.193605e-01 1 4 122 0 20 1 1.500000e+00 LUSC-66-2756 73 8 1 33661611 8 0 34736701 long_range 1075096 24 0 0 0 26_samples:0 33661609 33661900 292 65 34736411 34736705 295 51 DUSP26 IGR: 213Kb before DUSP26(-) UNC5D IGR: 356Kb before UNC5D(+) - 0 0 0 0 2 0 1 0 8.979610e-01 -2.033283e-01 1 24 1 24 1 33661609 34736705 1 33661611 2 34736701 -4 17 9.898196e-01 1 0 69 0 32 1 -1 -33661610 -1 -34736706 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 74 8 0 116716618 8 0 117986606 long_range 1269990 24 0 0 0 26_samples:0 116716361 116716620 260 57 117986320 117986610 291 66 TRPS1 IGR: 35Kb after TRPS1(-) SLC30A8 5'-UTR of SLC30A8(+): 173Kb before coding start - 0 0 3.000000e-02 1.000000e-01 3 1 3 2 2.686528e-01 9.766245e-01 1 24 1 24 1 116716620 117986610 1 116716618 -2 117986606 -4 13 1 0 0 75 0 31 1 -1 -116716621 -1 -117986611 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 75 2 1 42555247 2 1 43570945 long_range 1015705 23 0 0 0 26_samples:0 42555240 42555539 300 54 43570945 43571247 303 64 EML4 Intron of EML4(+): 786bp before exon 21 THADA Intron of THADA(-): 316bp after exon 30 Protein fusion: out of frame (THADA-EML4) 0 0 0 0 2 1 1 0 3.266223e-02 8.192975e-01 1 23 1 23 1 42555240 43570945 1 42555247 7 43570945 0 20 9.989252e-01 1 3 82 0 40 1 -1 -42555241 -1 -43570946 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 79 9 0 29201941 9 0 29206427 inversion 4485 23 0 0 0 26_samples:0 29201648 29201946 299 59 29206146 29206431 286 58 MIR873 IGR: 313Kb before MIR873(-) MIR873 IGR: 318Kb before MIR873(-) - 0 0 0 0 2 0 2 0 4.259798e-01 3.473163e-01 1 23 1 23 1 29201946 29206431 1 29201941 -5 29206427 -4 19 9.787422e-01 0 4 71 0 76 1 -1 -29201947 -1 -29206432 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 80 1 1 73852361 5 1 159605128 inter_chr NaN 22 0 0 0 26_samples:0 73852382 73852625 244 45 159605128 159605354 227 44 LRRIQ3 IGR: 639Kb before LRRIQ3(-) FABP6 IGR: 9Kb before FABP6(+) - 0 0 0 7.000000e-02 3 0 3 1 -6.753095e-01 -7.539730e-01 1 22 1 22 1 73852382 159605128 1 73852361 -21 159605128 0 20 8.694989e-01 1 2 72 0 37 1 -1 -73852383 -1 -159605129 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 81 1 0 40256233 5 0 153421457 inter_chr NaN 22 0 0 0 26_samples:0 40255967 40256234 268 46 153421211 153421450 240 42 BMP8B Promoter of BMP8B(-): 2Kb from tx start MFAP3 5'-UTR of MFAP3(+): 8Kb before coding start Transcript fusion (MFAP3-BMP8B) 0 0 0 0 2 1 2 0 -5.966460e-01 -9.113001e-01 1 22 1 22 1 40256234 153421450 1 40256233 -1 153421457 7 16 9.984115e-01 0 2 76 0 27 1 40256437 203 153421522 72 1 8.808505e-01 0 2 69 0 13 1 2.076923e+00 LUSC-66-2756 82 2 1 55436503 2 1 153634512 long_range 98197968 22 0 0 0 26_samples:0 55436543 55436855 313 64 153634511 153634672 162 23 C2orf63 Exon 5 of C2orf63(-) ARL6IP6 IGR: 60Kb before ARL6IP6(+) - 0 0 3.000000e-02 4.000000e-02 3 0 3 1 8.192975e-01 -2.405907e+00 1 22 1 22 1 55436543 153634511 1 55436503 -40 153634512 1 20 9.836288e-01 1 0 72 0 40 1 -1 -55436544 -1 -153634512 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 84 8 0 88297423 8 1 108126671 long_range 19829251 22 0 0 0 26_samples:0 88297115 88297415 301 49 108126666 108126959 294 47 CNBD1 Intron of CNBD1(+): 372bp after exon 7 ANGPT1 IGR: 135Kb before ANGPT1(-) - 0 0 1.000000e-02 0 2 0 2 0 -3.606554e-01 -5.179824e-01 1 22 1 22 1 88297415 108126666 1 88297423 8 108126671 5 14 9.669105e-01 0 2 65 0 29 1 -1 -88297416 -1 -108126667 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 85 8 0 108220472 8 0 113470592 long_range 5250122 22 0 0 0 26_samples:0 108220185 108220476 292 60 113470306 113470598 293 66 ANGPT1 IGR: 41Kb before ANGPT1(-) CSMD3 Intron of CSMD3(-): 14Kb after exon 33 - 0 0 0 0 1 0 2 0 5.046434e-01 9.766245e-01 1 22 1 22 1 108220476 113470598 1 108220472 -4 113470592 -6 17 9.949570e-01 0 5 65 0 38 1 -1 -108220477 -1 -113470599 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 86 8 1 108239462 8 0 114633222 long_range 6393769 22 0 0 0 26_samples:0 108239459 108239747 289 57 114632881 114633228 348 63 ANGPT1 IGR: 22Kb before ANGPT1(-) CSMD3 IGR: 184Kb after CSMD3(-) - 0 0 0 0 2 1 3 1 2.686528e-01 7.406339e-01 1 22 1 22 1 108239459 114633228 1 108239462 3 114633222 -6 16 9.941516e-01 1 2 86 0 38 1 -1 -108239460 -1 -114633229 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 87 8 1 116671169 8 0 118018736 long_range 1347556 22 0 0 0 26_samples:0 116671185 116671457 273 51 118018461 118018741 281 57 TRPS1 5'-UTR of TRPS1(-): 35Kb before coding start SLC30A8 5'-UTR of SLC30A8(+): 141Kb before coding start Antisense fusion 0 0 0 0 2 1 2 1 -2.033283e-01 2.686528e-01 1 22 1 22 1 116671185 118018741 1 116671169 -16 118018736 -5 20 9.829310e-01 1 0 69 0 38 1 -1 -116671186 -1 -118018742 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 88 9 0 27660003 9 1 27666041 deletion 6033 22 0 0 0 26_samples:0 27659714 27660000 287 51 27666033 27666326 294 49 C9orf72 IGR: 100Kb before C9orf72(-) C9orf72 IGR: 106Kb before C9orf72(-) - 0 0 0 0 4 2 4 1 -2.033283e-01 -3.606554e-01 1 22 1 22 1 27660000 27666033 1 27660003 3 27666041 8 16 9.787977e-01 0 2 67 0 100 1 -1 -27660001 -1 -27666034 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 89 10 0 44558612 10 1 56564317 long_range 12005733 22 0 0 0 26_samples:0 44558359 44558613 255 58 56564346 56564644 299 60 HNRNPA3P1 IGR: 276Kb before HNRNPA3P1(-) PCDH15 IGR: 3Kb after PCDH15(-) - 0 0 0 0 1 0 3 0 3.473163e-01 5.046434e-01 1 22 1 22 1 44558613 56564346 1 44558612 -1 56564317 -29 15 9.614953e-01 0 3 68 0 23 1 -1 -44558614 -1 -56564347 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 90 3 1 186685366 3 1 196440995 long_range 9755624 21 0 0 0 26_samples:0 186685371 186685647 277 65 196440995 196441287 293 64 ST6GAL1 5'-UTR of ST6GAL1(+): 75Kb before coding start PIGX Intron of PIGX(+): 1Kb after exon 1 - 0 0 0 3.000000e-02 2 0 3 0 8.979610e-01 8.192975e-01 1 21 1 21 1 186685371 196440995 1 186685366 -5 196440995 0 12 8.903852e-01 1 1 58 0 17 1 186685169 -202 196441158 163 5 8.396982e-01 1 4 114 0 15 1 1.133333e+00 LUSC-66-2756 93 8 0 57164837 8 1 57399357 deletion 234507 20 0 0 0 26_samples:0 57164593 57164848 256 54 57399355 57399666 312 64 CHCHD7 IGR: 41Kb before CHCHD7(+) PENK IGR: 46Kb before PENK(-) - 0 0 0 0 2 1 3 1 3.266223e-02 8.192975e-01 1 20 1 20 1 57164848 57399355 1 57164837 -11 57399357 2 20 9.952876e-01 0 2 75 0 49 1 -1 -57164849 -1 -57399356 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 94 9 0 27878764 9 0 27892459 inversion 13696 20 0 0 0 26_samples:0 27878477 27878757 281 59 27892201 27892453 253 57 LINGO2 IGR: 70Kb before LINGO2(-) LINGO2 IGR: 56Kb before LINGO2(-) - 0 0 0 0 3 0 3 0 4.259798e-01 2.686528e-01 1 20 1 20 1 27878757 27892453 1 27878764 7 27892459 6 12 9.933319e-01 0 3 64 0 152 1 -1 -27878758 -1 -27892454 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 96 10 1 68036521 10 0 78661223 long_range 10624697 20 0 0 0 26_samples:0 68036512 68036768 257 51 78660899 78661209 311 58 CTNNA3 Intron of CTNNA3(-): 4Kb after exon 13 KCNMA1 Intron of KCNMA1(-): 9Kb after exon 25 Protein fusion: in frame (CTNNA3-KCNMA1) 0 0 0 0 1 0 2 1 -2.033283e-01 3.473163e-01 1 20 1 20 1 68036512 78661209 1 68036521 9 78661223 14 20 9.945521e-01 1 1 69 0 31 1 -1 -68036513 -1 -78661210 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 97 12 0 120565565 20 1 58321065 inter_chr NaN 20 0 0 0 26_samples:0 120565267 120565572 306 66 58321074 58321357 284 64 GCN1L1 3'-UTR of GCN1L1(-): 81bp after coding stop PHACTR3 Intron of PHACTR3(+): 2Kb before exon 3 - 0 0 0 0 2 1 1 1 9.766245e-01 8.192975e-01 1 20 1 20 1 120565572 58321074 1 120565565 -7 58321065 -9 14 9.856539e-01 0 0 57 1 G 28 1 120565571 -1 58320872 -202 3 8.454423e-01 0 1 68 0 9 1 3.111111e+00 LUSC-66-2756 67 2 1 33206609 2 0 44438233 long_range 11231624 25 0 0 0 26_samples:0 33206607 33206923 317 57 44437978 44438231 254 58 LTBP1 Intron of LTBP1(+): 33Kb after exon 2 PPM1B Intron of PPM1B(+): 2Kb after exon 3 Protein fusion: in frame (PPM1B-LTBP1) 1.000000e-02 0 4.000000e-02 4.000000e-02 7 1 2 1 2.686528e-01 3.473163e-01 7.677841e-01 1.919460e+01 1 1.919460e+01 1 33206607 44438231 1 33206609 2 44438233 2 16 9.718777e-01 1 2 80 0 33 1 33206609 2 44438233 2 1 1 1 2 80 0 8 1 4.125000e+00 LUSC-66-2756 98 19 0 42135435 19 0 42488898 inversion 353460 20 0 0 0 26_samples:0 42135162 42135441 280 64 42488591 42488901 311 71 CEACAM4 Promoter of CEACAM4(-): 2Kb from tx start ATP1A3 Intron of ATP1A3(-): 169bp after exon 8 - 0 0 4.000000e-02 7.000000e-02 1 0 2 1 8.192975e-01 1.369942e+00 9.518106e-01 1.903621e+01 1 1.903621e+01 1 42135441 42488901 1 42135435 -6 42488898 -3 9 9.976111e-01 0 1 60 0 28 1 -1 -42135442 -1 -42488902 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 99 1 0 73249405 3 1 140908437 inter_chr NaN 19 0 0 0 26_samples:0 73249148 73249404 257 61 140908452 140908750 299 64 NEGR1 IGR: 501Kb after NEGR1(-) ACPL2 IGR: 42Kb before ACPL2(+) - 0 0 3.000000e-02 3.000000e-02 3 1 4 0 5.621819e-01 7.825176e-01 1 19 1 19 1 73249404 140908452 1 73249405 1 140908437 -15 18 9.723640e-01 0 1 67 0 34 1 73249339 -65 140908248 -204 2 9.076657e-01 0 3 86 0 17 1 2 LUSC-66-2756 102 3 1 169354972 3 0 183939022 long_range 14584055 19 0 0 0 26_samples:0 169354972 169355226 255 50 183938761 183939027 267 51 MECOM Intron of MECOM(-): 26Kb after exon 1 VWA5B2 IGR: 9Kb before VWA5B2(+) - 0 0 9.000000e-02 1.700000e-01 2 0 3 1 -2.457155e-01 -1.722703e-01 1 19 1 19 1 169354972 183939027 1 169354972 0 183939022 -5 3 9.316716e-01 1 0 88 47 CCCATGGCAACCTGCATATATGTACACATATATATGTACATATATAT 32 1 -1 -169354973 -1 -183939028 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 104 8 1 56817717 8 0 56978780 tandem_dup 161053 19 0 0 0 26_samples:0 56817723 56818023 301 59 56978487 56978776 290 52 LYN 5'-UTR of LYN(+): 37Kb before coding start RPS20 IGR: 2Kb before RPS20(-) - 1.000000e-02 1.400000e-01 0 0 3 2 3 1 4.152915e-01 -9.882507e-02 1 19 1 19 1 56817723 56978776 1 56817717 -6 56978780 4 15 9.962796e-01 1 4 61 0 38 1 56817683 -40 56978978 202 3 8.411035e-01 1 1 94 0 13 1 2.923077e+00 LUSC-66-2756 105 8 0 117841578 8 0 117848246 inversion 6670 19 0 0 0 26_samples:0 117841262 117841577 316 71 117847987 117848247 261 56 RAD21 IGR: 17Kb before RAD21(-) RAD21 IGR: 10Kb before RAD21(-) - 0 2.000000e-02 0 0 2 1 0 0 1.296634e+00 1.949558e-01 9.745626e-01 1.851669e+01 1 1.851669e+01 1 117841577 117848247 1 117841578 1 117848246 -1 14 9.856027e-01 0 0 69 0 32 1 -1 -117841578 -1 -117848248 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 110 23 1 43225486 23 0 43716198 tandem_dup 490715 19 0 0 0 26_samples:0 43225488 43225782 295 71 43715927 43716203 277 60 MAOA IGR: 290Kb before MAOA(+) MAOB Intron of MAOB(-): 13Kb before exon 2 - 0 6.000000e-02 0 0 3 0 1 0 1.296634e+00 4.887367e-01 9.745626e-01 1.851669e+01 1 1.851669e+01 1 43225488 43716203 1 43225486 -2 43716198 -5 12 9.956449e-01 1 2 61 0 18 1 -1 -43225489 -1 -43716204 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 108 11 1 118520593 11 0 119059966 tandem_dup 539361 19 0 0 0 26_samples:0 118520603 118520918 316 72 119059676 119059964 289 68 PHLDB1 Intron of PHLDB1(+): 179bp before exon 18 PDZD3 Intron of PDZD3(+): 50bp after exon 10 Protein fusion: in frame (PDZD3-PHLDB1) 0 0 0 0 2 0 1 2 1.370079e+00 1.076298e+00 9.513370e-01 1.807540e+01 1 1.807540e+01 1 118520603 119059964 1 118520593 -10 119059966 2 7 9.306992e-01 1 3 78 0 14 1 -1 -118520604 -1 -119059965 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 111 1 1 117968191 17 0 26904220 inter_chr NaN 18 0 0 0 26_samples:0 117968190 117968483 294 63 26903953 26904222 270 53 MAN1A2 Intron of MAN1A2(+): 5Kb after exon 5 ALDOC Promoter of ALDOC(-): 271bp from tx start - 0 0 0 0 2 1 1 2 7.090723e-01 -2.537985e-02 1 18 1 18 1 117968190 26904222 1 117968191 1 26904220 -2 7 9.797602e-01 1 0 74 1 G 19 1 -1 -117968191 -1 -26904223 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 113 2 0 50126227 5 0 90636 inter_chr NaN 18 0 0 0 26_samples:0 50125896 50126201 306 57 90405 90636 232 49 NRXN1 IGR: 19Kb before NRXN1(-) PLEKHG4B IGR: 50Kb before PLEKHG4B(+) - 0 2.000000e-02 0 0 1 1 4 0 2.684010e-01 -3.191607e-01 1 18 1 18 1 50126201 90636 1 50126227 26 90636 0 18 9.954187e-01 0 1 63 0 44 1 -1 -50126202 -1 -90637 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 114 3 1 119987231 3 1 155910359 long_range 35923131 18 0 0 0 26_samples:0 119987224 119987508 285 66 155910355 155910633 279 63 LRRC58 IGR: 56Kb before LRRC58(-) KCNAB1 Intron of KCNAB1(+): 49Kb after exon 1 - 0 0 0 0 2 1 2 0 9.294080e-01 7.090723e-01 1 18 1 18 1 119987224 155910355 1 119987231 7 155910359 4 11 9.913584e-01 1 2 71 0 21 1 -1 -119987225 -1 -155910356 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 115 3 1 129066856 3 0 133199767 long_range 4132911 18 0 0 0 26_samples:0 129066856 129067078 223 42 133199536 133199767 232 45 C3orf47 IGR: 32Kb before C3orf47(+) BFSP2 IGR: 6Kb after BFSP2(+) - 0 0 3.000000e-02 9.000000e-02 2 1 3 2 -8.332773e-01 -6.129416e-01 1 18 1 18 1 129066856 133199767 1 -1 -129066857 -1 -133199768 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -129066857 -1 -133199768 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2756 116 3 1 140582851 3 1 197578770 long_range 56995912 18 0 0 0 26_samples:0 140582855 140583132 278 63 197578767 197579049 283 64 SLC25A36 IGR: 78Kb before SLC25A36(+) LRCH3 Intron of LRCH3(+): 665bp before exon 13 - 0 0 0 0 1 0 3 1 7.090723e-01 7.825176e-01 1 18 1 18 1 140582855 197578767 1 140582851 -4 197578770 3 8 9.681079e-01 1 1 62 0 16 1 -1 -140582856 -1 -197578768 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 118 6 0 57355137 6 0 57357208 inversion 2092 18 0 0 0 26_samples:0 57354846 57355122 277 60 57356939 57357214 276 59 PRIM2 Intron of PRIM2(+): 17Kb before exon 8 PRIM2 Intron of PRIM2(+): 15Kb before exon 8 Antisense fusion 0 0 4.000000e-02 0 3 1 2 2 4.887367e-01 4.152915e-01 1 18 1 18 1 57355122 57357214 1 57355137 15 57357208 -6 10 9.826587e-01 0 3 67 0 26 1 -1 -57355123 -1 -57357215 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 119 8 0 53414315 8 1 62481012 long_range 9066689 18 0 0 0 26_samples:0 53414045 53414321 277 61 62481010 62481289 280 64 FAM150A IGR: 32Kb before FAM150A(-) ASPH Intron of ASPH(-): 1Kb before exon 17 - 0 0 0 0 2 0 2 1 5.621819e-01 7.825176e-01 1 18 1 18 1 53414321 62481010 1 53414315 -6 62481012 2 11 9.837548e-01 0 1 77 0 34 1 -1 -53414322 -1 -62481011 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 120 8 1 113472697 8 1 117971598 long_range 4498865 18 0 0 0 26_samples:0 113472734 113472996 263 57 117971599 117971845 247 48 CSMD3 Intron of CSMD3(-): 12Kb after exon 33 SLC30A8 5'-UTR of SLC30A8(+): 188Kb before coding start Transcript fusion (CSMD3-SLC30A8) 0 0 0 0 2 0 3 2 2.684010e-01 -3.926059e-01 1 18 1 18 1 113472734 117971599 1 113472697 -37 117971598 -1 16 9.758666e-01 1 2 86 0 27 1 -1 -113472735 -1 -117971600 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 121 8 0 57651034 8 0 61804182 long_range 4153150 18 0 0 0 26_samples:0 57650724 57651041 318 61 61803900 61804191 292 59 IMPAD1 IGR: 219Kb before IMPAD1(-) CHD7 IGR: 25Kb after CHD7(+) - 0 0 0 0 1 0 3 1 5.621819e-01 4.152915e-01 1 18 1 18 1 57651041 61804191 1 57651034 -7 61804182 -9 20 9.862687e-01 0 3 74 0 42 1 -1 -57651042 -1 -61804192 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 122 10 1 44560735 10 1 54253922 long_range 9693184 18 0 0 0 26_samples:0 44560735 44561014 280 68 54253919 54254166 248 38 HNRNPA3P1 IGR: 278Kb before HNRNPA3P1(-) DKK1 IGR: 180Kb before DKK1(+) - 0 0 0 0 2 0 1 0 1.076298e+00 -1.127058e+00 9.995560e-01 1.799201e+01 1 1.799201e+01 1 44560735 54253919 1 44560735 0 54253922 3 10 9.903359e-01 1 0 84 0 17 1 -1 -44560736 -1 -54253920 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 76 2 1 95889163 2 0 153634668 long_range 57745419 23 0 0 0 26_samples:0 95889248 95889462 215 38 153634513 153634667 155 18 PROM2 IGR: 51Kb before PROM2(+) ARL6IP6 IGR: 60Kb before ARL6IP6(+) - 1.000000e-02 3.000000e-02 2.000000e-02 4.000000e-02 7 0 3 1 -1.225954e+00 -2.799225e+00 7.627500e-01 1.754325e+01 1 1.754325e+01 1 95889248 153634667 1 95889163 -85 153634668 1 15 9.708456e-01 1 4 59 0 34 1 -1 -95889249 -1 -153634668 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 117 5 0 4424128 5 1 6206149 long_range 1782015 18 0 0 0 26_samples:0 4423847 4424130 284 62 6206145 6206473 329 71 LOC340094 IGR: 610Kb before LOC340094(+) FLJ33360 IGR: 104Kb before FLJ33360(-) - 0 0 1.000000e-02 0 3 0 4 1 6.356271e-01 1.296634e+00 9.745626e-01 1.754213e+01 1 1.754213e+01 1 4424130 6206145 1 4424128 -2 6206149 4 15 9.852347e-01 0 0 76 0 40 1 -1 -4424131 -1 -6206146 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 129 5 0 153970959 10 0 52729867 inter_chr NaN 17 0 0 0 26_samples:0 153970687 153970934 248 51 52729606 52729862 257 49 HAND1 IGR: 116Kb before HAND1(-) PRKG1 IGR: 21Kb before PRKG1(+) - 0 0 0 0 1 0 2 0 -1.722703e-01 -3.191607e-01 1 17 1 17 1 153970934 52729862 1 153970959 25 52729867 5 16 9.982968e-01 0 1 66 0 27 1 -1 -153970935 -1 -52729863 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 131 10 1 44557911 10 0 54270482 long_range 9712546 17 0 0 0 26_samples:0 44557933 44558180 248 46 54270229 54270479 251 45 HNRNPA3P1 IGR: 275Kb before HNRNPA3P1(-) DKK1 IGR: 196Kb before DKK1(+) - 0 0 0 0 2 0 2 2 -5.394964e-01 -6.129416e-01 1 17 1 17 1 44557933 54270479 1 44557911 -22 54270482 3 13 9.942097e-01 1 1 67 0 18 1 -1 -44557934 -1 -54270480 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 126 3 1 129556273 3 0 140587574 long_range 11031305 17 0 0 0 26_samples:0 129556270 129556574 305 63 140587233 140587575 343 68 TMCC1 5'-UTR of TMCC1(-): 9Kb before coding start SLC25A36 IGR: 73Kb before SLC25A36(+) - 0 0 2.000000e-02 3.000000e-02 1 0 1 0 7.090723e-01 1.076298e+00 9.995560e-01 1.699245e+01 1 1.699245e+01 1 129556270 140587575 1 129556273 3 140587574 -1 12 9.954887e-01 1 0 64 0 22 1 -1 -129556271 -1 -140587576 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 124 1 0 73851448 1 1 92463383 long_range 18611929 17 0 0 0 26_samples:0 73851143 73851453 311 70 92463382 92463690 309 67 LRRIQ3 IGR: 640Kb before LRRIQ3(-) BRDT Intron of BRDT(+): 4Kb after exon 15 - 0 0 0 0 1 1 2 0 1.223189e+00 1.002853e+00 9.890045e-01 1.681308e+01 1 1.681308e+01 1 73851453 92463382 1 73851448 -5 92463383 1 9 9.958970e-01 0 3 72 0 16 1 -1 -73851454 -1 -92463383 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 130 6 0 108760729 6 1 108761781 deletion 1047 17 0 0 0 26_samples:0 108760462 108760732 271 58 108761779 108762071 293 72 LACE1 Intron of LACE1(+): 8Kb before exon 8 LACE1 Intron of LACE1(+): 7Kb before exon 8 Deletion within intron 0 0 1.000000e-01 8.000000e-02 2 1 2 1 3.418462e-01 1.370079e+00 9.517595e-01 1.617991e+01 1 1.617991e+01 1 108760732 108761779 1 108760729 -3 108761781 2 14 9.826817e-01 0 5 67 0 23 1 -1 -108760733 -1 -108761780 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 132 2 0 43569287 2 1 44439502 deletion 870214 16 0 0 0 26_samples:0 43569026 43569285 260 57 44439499 44439742 244 57 THADA Intron of THADA(-): 2Kb after exon 30 PPM1B Intron of PPM1B(+): 3Kb after exon 3 - 3.000000e-02 5.000000e-02 0 0 1 1 4 0 2.684010e-01 2.684010e-01 1 16 1 16 1 43569285 44439499 1 43569287 2 44439502 3 20 9.331115e-01 0 2 77 0 40 1 -1 -43569286 -1 -44439500 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 133 2 0 99807714 2 1 103838344 long_range 4030634 16 0 0 0 26_samples:0 99807417 99807705 289 47 103838339 103838476 138 13 MRPL30 Intron of MRPL30(+): 3Kb after exon 3 TMEM182 IGR: 460Kb before TMEM182(+) - 1.000000e-01 8.000000e-02 0 0 4 1 3 0 -4.660512e-01 -2.963189e+00 1 16 1 16 1 99807705 103838339 1 99807714 9 103838344 5 2 9.092740e-01 0 2 80 31 AACATGGAGTTTAAGGTTATTAAACCTTAAA 32 1 -1 -99807706 -1 -103838340 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 134 2 1 117551296 2 0 189762581 long_range 72211269 16 0 0 0 26_samples:0 117551318 117551611 294 47 189762443 189762587 145 17 DDX18 IGR: 1Mb before DDX18(+) COL3A1 IGR: 77Kb before COL3A1(+) - 0 0 0 0 3 1 4 1 -4.660512e-01 -2.669408e+00 1 16 1 16 1 117551318 189762587 1 117551296 -22 189762581 -6 14 9.762013e-01 1 2 64 0 27 1 -1 -117551319 -1 -189762588 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 135 3 0 119986804 3 1 156833559 long_range 36846765 16 0 0 0 26_samples:0 119986567 119986797 231 40 156833562 156833833 272 57 LRRC58 IGR: 57Kb before LRRC58(-) CCNL1 IGR: 32Kb before CCNL1(-) - 2.000000e-02 1.200000e-01 0 0 4 4 1 2 -9.801677e-01 2.684010e-01 1 16 1 16 1 119986797 156833562 1 119986804 7 156833559 -3 10 9.845774e-01 0 3 73 0 23 1 -1 -119986798 -1 -156833563 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 136 3 1 184964918 3 1 196640875 long_range 11675958 16 0 0 0 26_samples:0 184964922 184965206 285 63 196640880 196641111 232 52 EHHADH Intron of EHHADH(-): 1Kb after exon 2 SENP5 Intron of SENP5(+): 9Kb before exon 7 Protein fusion: out of frame (EHHADH-SENP5) 0 0 0 0 2 2 1 0 7.090723e-01 -9.882507e-02 1 16 1 16 1 184964922 196640880 1 184964918 -4 196640875 -5 13 9.231966e-01 1 1 76 11 CATTCAAAAGT 20 1 -1 -184964923 -1 -196640881 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 137 5 0 31441105 5 1 43068024 long_range 11626913 16 0 0 0 26_samples:0 31440860 31441110 251 42 43068023 43068291 269 56 RNASEN Intron of RNASEN(-): 4Kb before exon 23 LOC153684 IGR: 26Kb before LOC153684(+) - 0 3.000000e-02 0 0 3 1 3 0 -8.332773e-01 1.949558e-01 1 16 1 16 1 31441110 43068023 1 31441105 -5 43068024 1 9 9.991056e-01 0 5 81 0 34 1 -1 -31441111 -1 -43068024 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 139 7 1 124347785 7 1 124350808 inversion 3040 16 0 0 0 26_samples:0 124347786 124348050 265 56 124350826 124351147 322 66 GPR37 IGR: 38Kb before GPR37(-) GPR37 IGR: 35Kb before GPR37(-) - 0 0 0 0 1 2 0 0 1.949558e-01 9.294080e-01 1 16 1 16 1 124347786 124350826 1 124347785 -1 124350808 -18 20 9.492043e-01 1 0 77 1 A 34 1 -1 -124347787 -1 -124350827 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 140 7 1 124458755 7 1 124566337 inversion 107582 16 0 0 0 26_samples:0 124458755 124458968 214 37 124566337 124566554 218 48 POT1 IGR: 4Kb before POT1(-) POT1 3'-UTR of POT1(-): 4Kb after coding stop - 3.000000e-02 0 0 2.000000e-02 2 2 3 0 -1.200503e+00 -3.926059e-01 1 16 1 16 1 124458755 124566337 1 -1 -124458756 -1 -124566338 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -124458756 -1 -124566338 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2756 141 8 0 81779016 8 1 81781075 deletion 2119 16 0 0 0 26_samples:0 81778730 81778965 236 57 81781084 81781324 241 55 ZNF704 5'-UTR of ZNF704(-): 45Kb before coding start ZNF704 5'-UTR of ZNF704(-): 47Kb before coding start Deletion within transcript 0 0 0 0 1 0 2 0 2.684010e-01 1.215106e-01 1 16 1 16 1 81778965 81781084 1 81779016 51 81781075 -9 17 9.888816e-01 0 5 68 0 31 1 -1 -81778966 -1 -81781085 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 142 8 0 113291653 8 1 113425172 deletion 133514 16 0 0 0 26_samples:0 113291366 113291657 292 67 113425171 113425447 277 58 CSMD3 Intron of CSMD3(-): 2Kb after exon 60 CSMD3 Intron of CSMD3(-): 4Kb before exon 34 Deletion of 27 exons: in frame 0 0 0 0 3 1 1 0 1.002853e+00 3.418462e-01 1.000000e+00 1.600000e+01 1 1.600000e+01 1 113291657 113425171 1 113291653 -4 113425172 1 20 9.963355e-01 0 0 77 0 37 1 -1 -113291658 -1 -113425172 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 60 2 0 151135326 2 0 167581593 long_range 16446268 28 0 0 0 26_samples:0 151135064 151135306 243 43 167581299 167581574 276 57 RND3 IGR: 189Kb before RND3(-) XIRP2 IGR: 178Kb before XIRP2(+) - 7.000000e-02 1.300000e-01 0 0 6 4 8 0 -8.326365e-01 2.686528e-01 5.379017e-01 1.506125e+01 1 1.506125e+01 1 151135306 167581574 1 151135326 20 167581593 19 20 9.934999e-01 0 3 61 0 28 1 -1 -151135307 -1 -167581575 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 148 8 0 53189473 8 0 53191050 inversion 1575 15 0 0 0 26_samples:0 53189183 53189477 295 50 53190802 53191052 251 52 ST18 5'-UTR of ST18(-): 63Kb before coding start ST18 5'-UTR of ST18(-): 64Kb before coding start - 0 5.000000e-02 0 0 1 0 1 0 -2.457155e-01 -9.882507e-02 1 15 1 15 1 53189477 53191052 1 53189473 -4 53191050 -2 5 9.510284e-01 0 1 66 8 TGGGATTA 26 1 -1 -53189478 -1 -53191053 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 151 11 1 54968651 11 0 54974247 tandem_dup 5596 15 0 0 0 26_samples:0 54968651 54968962 312 59 54973958 54974247 290 63 TRIM48 IGR: 61Kb before TRIM48(+) TRIM48 IGR: 55Kb before TRIM48(+) - 7.000000e-02 1.400000e-01 4.000000e-02 9.000000e-02 1 3 3 2 4.152915e-01 7.090723e-01 1 15 1 15 1 54968651 54974247 1 54968525 -126 54974461 214 7 8.695943e-01 1 13 125 0 17 1 54968447 -204 54974234 -13 9 9.299696e-01 1 33 133 0 54 0 3.148148e-01 LUSC-66-2756 149 8 1 128597624 8 0 128989769 tandem_dup 392125 15 0 0 0 26_samples:0 128597641 128597918 278 69 128989516 128989766 251 66 LOC727677 IGR: 142Kb before LOC727677(-) PVT1 5'-UTR of PVT1(+): 124Kb before coding start - 1.000000e-02 7.000000e-02 5.000000e-02 7.000000e-02 3 1 3 2 1.149744e+00 9.294080e-01 9.966535e-01 1.494980e+01 1 1.494980e+01 1 128597641 128989766 1 128597624 -17 128989769 3 12 9.822688e-01 1 2 60 0 31 1 -1 -128597642 -1 -128989767 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 146 2 0 56563761 2 0 57622084 long_range 1058329 15 0 0 0 26_samples:0 56563470 56563756 287 66 57621833 57622085 253 70 CCDC85A Intron of CCDC85A(+): 6Kb before exon 3 VRK2 IGR: 652Kb before VRK2(+) - 0 4.000000e-02 0 0 3 0 2 1 9.294080e-01 1.223189e+00 9.890045e-01 1.483507e+01 1 1.483507e+01 1 56563756 57622085 1 56563761 5 57622084 -1 19 9.782372e-01 0 3 69 0 34 1 -1 -56563757 -1 -57622086 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 71 8 0 56818711 8 0 57091452 inversion 272744 25 0 0 0 26_samples:0 56818422 56818710 289 64 57091161 57091454 294 78 LYN 5'-UTR of LYN(+): 36Kb before coding start PLAG1 5'-UTR of PLAG1(-): 11Kb before coding start Transcript fusion (LYN-PLAG1) 0 0 0 0 2 0 2 0 8.192975e-01 1.920587e+00 5.617413e-01 1.404353e+01 1 1.404353e+01 1 56818710 57091454 1 56818711 1 57091452 -2 6 8.755453e-01 0 0 80 21 TTGTAAATCTGTCTCTACTAA 65 1 56818914 204 57091597 143 3 8.424031e-01 0 4 75 0 21 1 3.095238e+00 LUSC-66-2756 153 3 1 133296881 3 0 196721490 long_range 63424609 14 0 0 0 26_samples:0 133296881 133297122 242 55 196721206 196721490 285 53 CDV3 Intron of CDV3(+): 3Kb after exon 2 MFI2 IGR: 9Kb before MFI2(-) - 0 0 0 0 3 1 2 2 1.324530e-01 -5.904113e-03 1 14 1 14 1 133296881 196721490 1 -1 -133296882 -1 -196721491 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -133296882 -1 -196721491 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2756 156 3 0 149982520 3 0 183025171 long_range 33042651 14 0 0 0 26_samples:0 149982310 149982520 211 38 183024986 183025171 186 31 TSC22D2 IGR: 144Kb before TSC22D2(+) MCF2L2 Intron of MCF2L2(-): 2Kb after exon 10 - 0 0 0 0 1 0 2 0 -1.043583e+00 -1.527833e+00 1 14 1 14 1 149982520 183025171 1 149982514 -6 183025183 12 1 9.061960e-01 0 0 68 61 GGCATATATAGTGAGTGTACATATATGTTTGTTATATATGTACATATATAAATACATATAT 49 1 -1 -149982521 -1 -183025172 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2756 157 3 0 185047335 3 0 193574966 long_range 8527631 14 0 0 0 26_samples:0 185047073 185047335 263 53 193574732 193574966 235 43 MAP3K13 IGR: 34Kb before MAP3K13(+) LOC100128023 IGR: 136Kb before LOC100128023(-) - 0 0 0 0 1 2 1 1 -5.904113e-03 -6.976899e-01 1 14 1 14 1 185047335 193574966 1 -1 -185047336 -1 -193574967 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -185047336 -1 -193574967 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2756 158 3 1 193570972 3 0 197241931 long_range 3670959 14 0 0 0 26_samples:0 193570972 193571263 292 61 197241656 197241931 276 62 LOC100128023 IGR: 140Kb before LOC100128023(-) BDH1 Intron of BDH1(-): 644bp before exon 6 - 0 0 0 0 1 1 1 0 5.475245e-01 6.167031e-01 1 14 1 14 1 193570972 197241931 1 193570771 -201 197242021 90 1 7.765692e-01 1 0 75 24 ATATTTCTTCATTGATGTCCAATC 13 1 -1 -193570973 -1 -197241932 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2756 162 10 1 74843454 11 1 89436590 inter_chr NaN 14 0 0 0 26_samples:0 74843506 74843747 242 45 89436589 89436826 238 48 P4HA1 5'-UTR of P4HA1(-): 9Kb before coding start TRIM77 IGR: 7Kb before TRIM77(+) - 0 0 1.000000e-01 5.000000e-02 2 1 1 2 -5.593327e-01 -3.517970e-01 1 14 1 14 1 74843506 89436589 1 74843454 -52 89436590 1 4 9.924074e-01 1 1 79 0 9 1 -1 -74843507 -1 -89436590 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 160 9 1 33030516 9 0 121618418 long_range 88587876 14 0 0 0 26_samples:0 33030535 33030840 306 60 121618131 121618411 281 68 DNAJA1 Exon 5 of DNAJA1(+) DBC1 IGR: 310Kb before DBC1(-) - 0 0 0 3.000000e-02 3 1 1 0 4.783459e-01 1.031775e+00 9.999679e-01 1.399955e+01 1 1.399955e+01 1 33030535 121618411 1 33030516 -19 121618418 7 9 9.353775e-01 1 2 77 0 18 1 -1 -33030536 -1 -121618412 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 155 3 1 134037099 3 1 197226044 long_range 63188937 14 0 0 0 26_samples:0 134037104 134037372 269 64 197226041 197226324 284 70 AMOTL2 IGR: 37Kb before AMOTL2(-) BDH1 IGR: 11Kb before BDH1(-) - 0 0 0 0 2 0 1 0 7.550602e-01 1.170132e+00 9.950997e-01 1.393140e+01 1 1.393140e+01 1 134037104 197226041 1 134037099 -5 197226044 3 10 9.237088e-01 1 0 69 0 20 1 -1 -134037105 -1 -197226042 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 161 10 1 74693237 10 1 74999542 inversion 306302 14 0 0 0 26_samples:0 74693236 74693535 300 67 74999538 74999811 274 70 OIT3 IGR: 449bp after OIT3(+) FAM149B1 Intron of FAM149B1(+): 396bp after exon 13 - 0 0 0 3.000000e-02 2 1 2 1 9.625960e-01 1.170132e+00 9.950997e-01 1.393140e+01 1 1.393140e+01 1 74693236 74999538 1 74693237 1 74999542 4 14 9.933325e-01 1 1 82 0 20 1 -1 -74693237 -1 -74999539 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 101 3 1 117676484 3 0 126175088 long_range 8498610 19 0 0 0 26_samples:0 117676480 117676803 324 75 126174751 126175090 340 74 IGSF11 IGR: 943Kb before IGSF11(-) ZXDC Intron of ZXDC(-): 3Kb after exon 7 - 0 0 1.100000e-01 1.400000e-01 1 1 4 2 1.590415e+00 1.516970e+00 7.286438e-01 1.384423e+01 1 1.384423e+01 1 117676480 126175090 1 117676484 4 126175088 -2 13 9.934256e-01 1 2 69 0 25 1 -1 -117676481 -1 -126175091 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 145 12 0 123020911 12 1 123026153 deletion 5264 16 0 0 0 26_samples:0 123020604 123020899 296 70 123026163 123026419 257 72 KNTC1 Intron of KNTC1(+): 2Kb after exon 3 KNTC1 Intron of KNTC1(+): 434bp before exon 6 Deletion of 2 exons: in frame 6.000000e-02 7.000000e-02 1.100000e-01 1.400000e-01 6 1 2 1 1.223189e+00 1.370079e+00 8.367061e-01 1.338730e+01 1 1.338730e+01 1 123020899 123026163 1 123020911 12 123026153 -10 7 9.687412e-01 0 1 88 0 19 1 123020871 -28 123025994 -169 6 7.833158e-01 0 0 119 0 38 1 5.000000e-01 LUSC-66-2756 95 9 0 27671761 9 0 28000202 inversion 328422 20 0 0 0 26_samples:0 27671435 27671767 333 73 27999913 28000189 277 62 C9orf72 IGR: 111Kb before C9orf72(-) LINGO2 5'-UTR of LINGO2(-): 50Kb before coding start - 0 0 0 0 7 1 4 0 1.527269e+00 6.619704e-01 6.586052e-01 1.317210e+01 1 1.317210e+01 1 27671767 28000189 1 27671761 -6 28000202 13 7 9.914488e-01 0 2 71 0 101 1 -1 -27671768 -1 -28000190 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 127 3 0 196663223 3 1 197322382 deletion 659186 17 0 0 0 26_samples:0 196662936 196663193 258 59 197322379 197322689 311 76 NCBP2 3'-UTR of NCBP2(-): 689bp after coding stop LOC220729 IGR: 19Kb before LOC220729(-) - 0 0 0 0 1 0 2 1 4.152915e-01 1.663860e+00 7.736524e-01 1.315209e+01 1 1.315209e+01 1 196663193 197322379 1 196663223 30 197322382 3 4 9.880373e-01 0 4 73 0 21 1 -1 -196663194 -1 -197322380 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 147 7 1 122297583 7 1 122299165 inversion 1592 15 0 0 0 26_samples:0 122297591 122297824 234 40 122299183 122299459 277 69 CADPS2 Intron of CADPS2(-): 6Kb after exon 3 CADPS2 Intron of CADPS2(-): 4Kb after exon 3 Antisense fusion 1.600000e-01 2.400000e-01 0 0 5 2 6 1 -9.801677e-01 1.149744e+00 8.722848e-01 1.308427e+01 1 1.308427e+01 1 122297591 122299183 1 122297583 -8 122299165 -18 12 9.609017e-01 1 4 79 0 26 1 -1 -122297592 -1 -122299184 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 167 2 0 158336727 2 1 189762437 long_range 31425808 13 0 0 0 26_samples:0 158336440 158336626 187 31 189762434 189762581 148 27 ACVR1C IGR: 47Kb before ACVR1C(-) COL3A1 IGR: 77Kb before COL3A1(+) - 0 0 0 0 2 0 4 1 -1.527833e+00 -1.804547e+00 1 13 1 13 1 158336626 189762434 1 158336727 101 189762437 3 14 9.477723e-01 0 0 73 0 20 1 -1 -158336627 -1 -189762435 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 168 3 1 108614812 3 1 149955111 long_range 41340299 13 0 0 0 26_samples:0 108614812 108615068 257 63 149955111 149955368 258 66 GUCA1C IGR: 12Kb before GUCA1C(-) TSC22D2 IGR: 172Kb before TSC22D2(+) - 3.000000e-02 0 0 0 3 1 2 0 6.858816e-01 8.934174e-01 1 13 1 13 1 108614812 149955111 1 -1 -108614813 -1 -149955112 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -108614813 -1 -149955112 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2756 169 3 0 124590680 3 1 125712639 long_range 1121971 13 0 0 0 26_samples:0 124590405 124590684 280 56 125712655 125712954 300 66 ITGB5 Intron of ITGB5(-): 2Kb after exon 2 SLC41A3 IGR: 13Kb before SLC41A3(-) - 1.100000e-01 0 0 0 3 0 2 0 2.016316e-01 8.934174e-01 1 13 1 13 1 124590684 125712655 1 124590680 -4 125712639 -16 3 9.627629e-01 0 1 76 10 CCTCTACCAG 20 1 124590719 35 125712451 -204 3 7.964135e-01 0 5 80 0 4 1 5 LUSC-66-2756 170 3 1 133280201 3 0 168989849 long_range 35709648 13 0 0 0 26_samples:0 133280201 133280479 279 59 168989617 168989849 233 44 CDV3 IGR: 12Kb before CDV3(+) MECOM Intron of MECOM(-): 109Kb after exon 2 - 3.000000e-02 4.000000e-02 0 0 2 0 1 1 4.091673e-01 -6.285113e-01 1 13 1 13 1 133280201 168989849 1 133280199 -2 168989852 3 1 7.988904e-01 1 0 76 17 CATCATAGACTACAGGC 35 1 -1 -133280202 -1 -168989850 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2756 171 3 0 140659778 3 0 194494064 long_range 53834262 13 0 0 0 26_samples:0 140659559 140659786 228 48 194493831 194494048 218 41 SLC25A36 Promoter of SLC25A36(+): 876bp from tx start FAM43A IGR: 87Kb before FAM43A(+) - 0 0 0 0 2 0 1 0 -3.517970e-01 -8.360470e-01 1 13 1 13 1 140659786 194494048 1 140659778 -8 194494064 16 5 9.374978e-01 0 1 66 31 ATAGTGATGATGGTCGTCTCTGAAGGGCGTT 31 1 -1 -140659787 -1 -194494049 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 172 3 1 134034189 3 0 197230192 long_range 63196003 13 0 0 0 26_samples:0 134034189 134034419 231 57 197229942 197230192 251 63 AMOTL2 IGR: 40Kb before AMOTL2(-) BDH1 IGR: 6Kb before BDH1(-) - 0 0 0 0 2 0 1 0 2.708102e-01 6.858816e-01 1 13 1 13 1 134034189 197230192 1 134034179 -10 197230197 5 4 7.935040e-01 1 2 83 24 CCAAGAATTCAGTTGTACATATTT 22 1 -1 -134034190 -1 -197230193 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2756 173 4 0 121264545 4 1 121266657 deletion 2114 13 0 0 0 26_samples:0 121264258 121264541 284 51 121266655 121266978 324 59 MAD2L1 IGR: 284Kb before MAD2L1(-) MAD2L1 IGR: 286Kb before MAD2L1(-) - 0 0 0 0 1 1 0 1 -1.442613e-01 4.091673e-01 1 13 1 13 1 121264541 121266655 1 121264545 4 121266657 2 13 9.928173e-01 0 4 62 0 19 1 -1 -121264542 -1 -121266656 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 174 7 1 67870123 7 0 67874803 tandem_dup 4621 13 0 0 0 26_samples:0 67870188 67870386 199 38 67874553 67874809 257 47 STAG3L4 IGR: 1Mb before STAG3L4(+) STAG3L4 IGR: 1Mb before STAG3L4(+) - 0 0 7.000000e-02 4.000000e-02 1 0 1 1 -1.043583e+00 -4.209756e-01 1 13 1 13 1 67870188 67874809 1 67870123 -65 67874803 -6 11 9.967277e-01 1 0 76 0 24 1 67869987 -201 67874930 121 1 7.908028e-01 1 0 75 6 TTCCCA 20 1 1.200000e+00 LUSC-66-2756 175 8 0 55825309 8 1 64220630 long_range 8395379 13 0 0 0 26_samples:0 55825037 55825248 212 39 64220627 64220839 213 35 XKR4 IGR: 190Kb before XKR4(+) YTHDF3 IGR: 140Kb before YTHDF3(+) - 0 0 0 0 2 0 3 0 -9.744042e-01 -1.251118e+00 1 13 1 13 1 55825248 64220627 1 55825309 61 64220630 3 9 9.952824e-01 0 1 77 0 31 1 -1 -55825249 -1 -64220628 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 179 10 0 73051450 10 0 73731876 inversion 680414 13 0 0 0 26_samples:0 73051235 73051451 217 55 73731564 73731865 302 57 UNC5B Exon 10 of UNC5B(+) CHST3 5'-UTR of CHST3(+): 34Kb before coding start Antisense fusion 0 0 0 0 1 0 1 1 1.324530e-01 2.708102e-01 1 13 1 13 1 73051451 73731865 1 73051450 -1 73731876 11 8 9.866847e-01 0 1 71 0 23 1 -1 -73051452 -1 -73731866 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 182 16 1 65446979 16 1 69228461 long_range 3781490 13 0 0 0 26_samples:0 65446992 65447276 285 56 69228482 69228744 263 62 LOC283867 3'-UTR of LOC283867(-): 163Kb after coding stop SNTB2 Intron of SNTB2(+): 7Kb after exon 1 - 0 0 0 0 2 1 2 0 2.016316e-01 6.167031e-01 1 13 1 13 1 65446992 69228482 1 65446979 -13 69228461 -21 17 9.966165e-01 1 3 64 0 28 1 -1 -65446993 -1 -69228483 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 109 19 1 42128703 19 1 42251570 inversion 122868 19 0 0 0 26_samples:0 42128697 42129003 307 69 42251565 42251940 376 67 CEACAM4 Intron of CEACAM4(-): 556bp before exon 3 CEACAM6 IGR: 8Kb before CEACAM6(+) - 2.000000e-02 3.000000e-02 1.100000e-01 2.900000e-01 3 2 3 7 1.149744e+00 1.002853e+00 6.834469e-01 1.298549e+01 1 1.298549e+01 1 42128697 42251565 1 42128703 6 42251570 5 5 9.884943e-01 1 38 101 0 31 1 -1 -42128698 -1 -42251566 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 176 8 1 56926143 8 1 56985736 inversion 59603 13 0 0 0 26_samples:0 56926146 56926408 263 71 56985749 56986015 267 56 LYN IGR: 2Kb after LYN(+) RPS20 Exon 4 of RPS20(-) - 0 0 2.000000e-02 0 2 0 1 1 1.239310e+00 2.016316e-01 9.864801e-01 1.282424e+01 1 1.282424e+01 1 56926146 56985749 1 56926143 -3 56985736 -13 8 9.942607e-01 1 3 75 0 36 1 -1 -56926147 -1 -56985750 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 107 10 0 84702851 10 1 95302071 long_range 10599242 19 0 0 0 26_samples:0 84702529 84702835 307 65 95302077 95302359 283 78 NRG3 Intron of NRG3(+): 8Kb before exon 6 GPR120 IGR: 24Kb before GPR120(+) - 0 0 0 0 1 1 2 1 8.559628e-01 1.810751e+00 6.523498e-01 1.239465e+01 1 1.239465e+01 1 84702835 95302077 1 84702851 16 95302071 -6 18 9.765102e-01 0 2 78 0 28 1 -1 -84702836 -1 -95302078 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 165 1 1 155034720 1 0 155400535 tandem_dup 365809 13 0 0 0 26_samples:0 155034725 155034964 240 51 155400184 155400534 351 73 ADAM15 Exon 22 of ADAM15(+) ASH1L Intron of ASH1L(-): 8Kb after exon 5 - 0 0 0 0 3 0 2 0 -1.442613e-01 1.377667e+00 9.488857e-01 1.233551e+01 1 1.233551e+01 1 155034725 155400534 1 155034720 -5 155400535 1 5 9.252084e-01 1 0 52 0 12 1 -1 -155034726 -1 -155400535 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 154 3 0 133408747 3 0 186795045 long_range 53386278 14 0 0 0 26_samples:0 133408470 133408751 282 74 186794755 186795029 275 73 TF IGR: 56Kb before TF(+) ST6GAL1 3'-UTR of ST6GAL1(+): 1Kb after coding stop - 0 0 0 0 2 1 3 0 1.446846e+00 1.377667e+00 8.711589e-01 1.219622e+01 1 1.219622e+01 1 133408751 186795029 1 133408747 -4 186795045 16 12 9.716048e-01 0 1 67 0 32 1 -1 -133408752 -1 -186795030 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 184 1 0 212550688 10 0 73585651 inter_chr NaN 12 0 0 0 26_samples:0 212550394 212550655 262 56 73585443 73585637 195 42 TMEM206 Intron of TMEM206(-): 249bp after exon 6 PSAP Exon 7 of PSAP(-) - 0 0 0 0 2 0 1 0 2.016316e-01 -7.668684e-01 1 12 1 12 1 212550655 73585637 1 212550688 33 73585651 14 2 8.996762e-01 0 1 70 0 24 1 -1 -212550656 -1 -73585638 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 185 1 0 86134998 16 1 34628922 inter_chr NaN 12 0 0 0 26_samples:0 86134714 86134990 277 49 34628925 34629161 237 52 ZNHIT6 Intron of ZNHIT6(-): 8Kb after exon 8 LOC283914 IGR: 3Kb after LOC283914(+) - 0 0 0 0 1 0 2 0 -2.826184e-01 -7.508269e-02 1 12 1 12 1 86134990 34628925 1 86134998 8 34628922 -3 10 9.891358e-01 0 0 57 0 18 1 -1 -86134991 -1 -34628926 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 186 2 0 13650937 2 1 55450267 long_range 41799357 12 0 0 0 26_samples:0 13650656 13650912 257 48 55450269 55450519 251 53 TRIB2 IGR: 794Kb before TRIB2(+) C2orf63 5'-UTR of C2orf63(-): 722bp before coding start - 0 0 0 0 2 0 1 0 -3.517970e-01 -5.904113e-03 1 12 1 12 1 13650912 55450269 1 13650937 25 55450267 -2 8 9.995007e-01 0 4 62 0 15 1 -1 -13650913 -1 -55450270 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 188 3 0 119072995 3 0 126580100 long_range 7507108 12 0 0 0 26_samples:0 119072739 119072982 244 57 126579827 126580090 264 56 ARHGAP31 Intron of ARHGAP31(+): 11Kb before exon 2 CHCHD6 Intron of CHCHD6(+): 9Kb after exon 5 Antisense fusion 0 0 0 0 1 1 3 1 2.708102e-01 2.016316e-01 1 12 1 12 1 119072982 126580090 1 119072995 13 126580100 10 11 8.300814e-01 0 0 63 0 43 1 -1 -119072983 -1 -126580091 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 189 3 1 129460438 3 0 134147767 long_range 4687286 12 0 0 0 26_samples:0 129460439 129460707 269 64 134147511 134147725 215 58 TMCC1 Intron of TMCC1(-): 70Kb before exon 4 ANAPC13 IGR: 49Kb before ANAPC13(-) - 0 0 0 0 2 1 2 0 7.550602e-01 3.399888e-01 1 12 1 12 1 129460439 134147725 1 129460438 -1 134147767 42 16 8.560639e-01 1 0 65 0 24 1 -1 -129460440 -1 -134147726 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 190 3 0 129546968 3 0 184011227 long_range 54464288 12 0 0 0 26_samples:0 129546748 129546922 175 34 184011021 184011210 190 34 TMCC1 Exon 3 of TMCC1(-) ECE2 IGR: 392bp after ECE2(+) - 0 0 0 0 1 0 1 0 -1.320297e+00 -1.320297e+00 1 12 1 12 1 129546922 184011210 1 129546968 46 184011227 17 2 9.277951e-01 0 0 79 47 ATGTGTAACTGTTATGTTACAGTACTCAGGTACTCCCTGGCCCATTA 29 1 -1 -129546923 -1 -184011211 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 191 3 0 129576628 3 1 180346227 long_range 50769629 12 0 0 0 26_samples:0 129576346 129576584 239 43 180346213 180346479 267 49 TMCC1 5'-UTR of TMCC1(-): 29Kb before coding start CCDC39 Intron of CCDC39(-): 3Kb after exon 14 Transcript fusion (CCDC39-TMCC1) 1.000000e-01 7.000000e-02 0 6.000000e-02 4 0 2 1 -6.976899e-01 -2.826184e-01 1 12 1 12 1 129576584 180346213 1 129576628 44 180346227 14 8 9.348405e-01 0 4 121 0 12 1 -1 -129576585 -1 -180346214 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 192 3 0 149500714 3 0 151663057 long_range 2162295 12 0 0 0 26_samples:0 149500492 149500732 241 46 151662787 151663027 241 47 C3orf16 Intron of C3orf16(-): 2Kb before exon 3 SUCNR1 IGR: 72Kb before SUCNR1(+) - 0 3.000000e-02 2.000000e-02 3.000000e-02 1 1 3 1 -4.901541e-01 -4.209756e-01 1 12 1 12 1 149500732 151663027 1 149500714 -18 151663057 30 4 8.170960e-01 0 2 77 0 16 1 149500936 204 151663016 -11 1 7.509873e-01 0 4 73 0 24 1 6.666667e-01 LUSC-66-2756 193 3 0 155973350 3 0 169376083 long_range 13402777 12 0 0 0 26_samples:0 155973092 155973303 212 43 169375901 169376080 180 31 KCNAB1 Intron of KCNAB1(+): 112Kb after exon 1 MECOM Intron of MECOM(-): 5Kb after exon 1 Protein fusion: out of frame (KCNAB1-MECOM) 0 0 0 0 1 3 3 0 -6.976899e-01 -1.527833e+00 1 12 1 12 1 155973303 169376080 1 155973350 47 169376083 3 4 9.834836e-01 0 5 61 0 31 1 -1 -155973304 -1 -169376081 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 194 3 1 187939537 3 1 197243521 long_range 9303970 12 0 0 0 26_samples:0 187939552 187939835 284 62 197243522 197243805 284 60 LPP 5'-UTR of LPP(+): 184Kb before coding start BDH1 Intron of BDH1(-): 2Kb before exon 6 Transcript fusion (BDH1-LPP) 0 0 0 0 1 0 2 0 6.167031e-01 4.783459e-01 1 12 1 12 1 187939552 197243522 1 187939537 -15 197243521 -1 9 9.904428e-01 1 3 68 0 11 1 -1 -187939553 -1 -197243523 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 195 3 1 136593625 5 0 137954734 inter_chr NaN 12 0 0 0 26_samples:0 136593639 136593927 289 59 137954457 137954741 285 54 NCK1 5'-UTR of NCK1(+): 53Kb before coding start SNORD63 IGR: 58Kb before SNORD63(-) - 0 0 2.000000e-02 5.000000e-02 2 1 3 1 4.091673e-01 6.327446e-02 1 12 1 12 1 136593639 137954741 1 136593625 -14 137954734 -7 14 9.730821e-01 1 1 71 0 26 1 136593587 -52 137954947 206 7 8.245620e-01 1 5 61 0 11 1 2.363636e+00 LUSC-66-2756 196 8 1 114669102 8 1 117793434 long_range 3124346 12 0 0 0 26_samples:0 114669095 114669394 300 62 117793441 117793697 257 49 CSMD3 IGR: 220Kb after CSMD3(-) UTP23 IGR: 7Kb after UTP23(+) - 0 0 0 0 2 1 2 1 6.167031e-01 -2.826184e-01 1 12 1 12 1 114669095 117793441 1 114669102 7 117793434 -7 12 9.768798e-01 1 2 67 0 19 1 -1 -114669096 -1 -117793442 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 197 8 0 114675110 8 0 116317369 long_range 1642264 12 0 0 0 26_samples:0 114674862 114675102 241 50 116317098 116317366 269 46 CSMD3 IGR: 226Kb after CSMD3(-) TRPS1 IGR: 103Kb before TRPS1(-) - 0 0 0 0 1 0 2 0 -2.134398e-01 -4.901541e-01 1 12 1 12 1 114675102 116317366 1 114675110 8 116317369 3 20 9.973385e-01 0 2 83 0 50 1 -1 -114675103 -1 -116317367 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 198 9 1 32816783 9 1 33021153 inversion 204356 12 0 0 0 26_samples:0 32816800 32817058 259 65 33021156 33021402 247 55 TMEM215 IGR: 33Kb before TMEM215(+) DNAJA1 IGR: 4Kb before DNAJA1(+) - 0 0 0 0 3 1 3 2 8.242388e-01 1.324530e-01 1 12 1 12 1 32816800 33021156 1 32816783 -17 33021153 -3 5 9.786888e-01 1 2 63 0 11 1 -1 -32816801 -1 -33021157 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 199 9 1 33312471 9 0 33663199 tandem_dup 350727 12 0 0 0 26_samples:0 33312468 33312748 281 64 33662918 33663195 278 62 NFX1 Intron of NFX1(+): 1Kb before exon 7 PTENP1 IGR: 10Kb before PTENP1(-) - 1.000000e-02 9.000000e-02 0 3.000000e-02 2 0 2 0 7.550602e-01 6.167031e-01 1 12 1 12 1 33312468 33663195 1 33312471 3 33663199 4 9 1 1 2 82 0 23 1 -1 -33312469 -1 -33663196 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 200 9 0 111476825 9 1 123901904 long_range 12425092 12 0 0 0 26_samples:0 111476546 111476824 279 66 123901916 123902200 285 61 ACTL7B IGR: 140Kb before ACTL7B(-) CEP110 Intron of CEP110(+): 959bp after exon 14 - 4.000000e-02 3.000000e-02 0 0 2 2 2 0 8.934174e-01 5.475245e-01 1 12 1 12 1 111476824 123901916 1 111476825 1 123901904 -12 6 9.965156e-01 0 2 69 0 12 1 111477027 203 123902061 145 1 7.550423e-01 0 2 73 0 12 1 1 LUSC-66-2756 201 10 0 67940881 10 1 67972231 deletion 31380 12 0 0 0 26_samples:0 67940646 67940873 228 57 67972253 67972519 267 58 CTNNA3 Intron of CTNNA3(-): 78Kb before exon 14 CTNNA3 Intron of CTNNA3(-): 68Kb after exon 13 Deletion within intron 0 0 0 3.000000e-02 3 2 2 0 2.708102e-01 3.399888e-01 1 12 1 12 1 67940873 67972253 1 67940881 8 67972231 -22 6 9.302877e-01 0 2 69 0 11 1 -1 -67940874 -1 -67972254 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 203 14 1 36773160 14 0 37037259 tandem_dup 264036 12 0 0 0 26_samples:0 36773219 36773413 195 40 37036991 37037255 265 44 MBIP Intron of MBIP(-): 3Kb before exon 8 NKX2-8 IGR: 12Kb before NKX2-8(-) - 0 0 0 4.000000e-02 2 0 3 1 -9.052256e-01 -6.285113e-01 1 12 1 12 1 36773219 37037255 1 36773160 -59 37037259 4 4 8.489501e-01 1 0 73 0 15 1 -1 -36773220 -1 -37037256 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 187 3 1 119040172 3 1 119041664 inversion 1505 12 0 0 0 26_samples:0 119040173 119040395 223 41 119041678 119041955 278 68 ARHGAP31 Intron of ARHGAP31(+): 26Kb after exon 1 ARHGAP31 Intron of ARHGAP31(+): 28Kb after exon 1 - 0 0 0 0 0 0 1 1 -8.360470e-01 1.031775e+00 9.999679e-01 1.199962e+01 1 1.199962e+01 1 119040173 119041678 1 119040172 -1 119041664 -14 4 9.895861e-01 1 2 44 0 8 1 -1 -119040174 -1 -119041679 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 205 19 0 1219399 19 1 1221018 deletion 1630 12 0 0 0 26_samples:0 1219111 1219395 285 69 1221025 1221273 249 49 STK11 Exon 3 of STK11(+) STK11 Intron of STK11(+): 187bp before exon 6 Deletion within transcript: mid-exon 0 0 0 0 1 2 0 2 1.100953e+00 -2.826184e-01 9.989722e-01 1.198767e+01 1 1.198767e+01 1 1219395 1221025 1 1219399 4 1221018 -7 8 9.230663e-01 0 2 79 0 9 1 -1 -1219396 -1 -1221026 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 178 9 0 104292253 9 1 104528059 deletion 235815 13 0 0 0 26_samples:0 104291965 104292253 289 74 104528068 104528362 295 69 RNF20 IGR: 4Kb before RNF20(+) GRIN3A IGR: 27Kb after GRIN3A(-) - 0 0 0 7.000000e-02 1 0 3 0 1.446846e+00 1.100953e+00 9.171426e-01 1.192285e+01 1 1.192285e+01 1 104292253 104528068 1 104292253 0 104528059 -9 5 1 0 2 76 0 11 1 -1 -104292254 -1 -104528069 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 202 12 0 6254519 12 1 6386150 deletion 131631 12 0 0 0 26_samples:0 6254270 6254519 250 62 6386150 6386414 265 57 CD9 IGR: 55Kb before CD9(+) PLEKHG6 IGR: 33Kb before PLEKHG6(+) - 1.800000e-01 1.600000e-01 0 0 3 5 3 0 6.167031e-01 2.708102e-01 9.846154e-01 1.181538e+01 1 1.181538e+01 1 6254519 6386150 1 6254544 25 6386138 -12 1 7.526777e-01 0 1 83 0 6 1 -1 -6254520 -1 -6386151 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2756 144 9 0 27014498 9 1 27016745 deletion 2260 16 0 0 0 26_samples:0 27014216 27014497 282 56 27016757 27016999 243 57 IFT74 Intron of IFT74(+): 2Kb before exon 11 IFT74 Intron of IFT74(+): 148bp before exon 11 Deletion within intron 0 0 0 0 7 1 4 0 1.949558e-01 2.684010e-01 7.032967e-01 1.125275e+01 1 1.125275e+01 1 27014497 27016757 1 27014498 1 27016745 -12 13 9.925237e-01 0 4 79 0 85 1 -1 -27014498 -1 -27016758 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 206 1 0 54684180 1 1 54685934 deletion 1764 11 0 0 0 26_samples:0 54683936 54684179 244 48 54685943 54686189 247 57 MRPL37 IGR: 125bp after MRPL37(+) SSBP3 IGR: 6Kb before SSBP3(-) - 0 0 0 0 0 1 1 1 -3.162686e-01 2.639145e-01 1 11 1 11 1 54684179 54685943 1 54684180 1 54685934 -9 8 9.856943e-01 0 3 81 0 15 1 -1 -54684180 -1 -54685944 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 207 1 0 73237024 5 1 137948801 inter_chr NaN 11 0 0 0 26_samples:0 73236755 73236985 231 46 137948804 137949040 237 52 NEGR1 IGR: 489Kb after NEGR1(-) SNORD63 IGR: 52Kb before SNORD63(-) - 0 0 3.000000e-02 5.000000e-02 2 1 2 0 -4.451982e-01 -5.840947e-02 1 11 1 11 1 73236985 137948804 1 73237024 39 137948801 -3 10 9.838168e-01 0 2 70 0 16 1 -1 -73236986 -1 -137948805 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 208 1 0 150628263 16 0 19543787 inter_chr NaN 11 0 0 0 26_samples:0 150628058 150628270 213 51 19543518 19543764 247 46 GOLPH3L Intron of GOLPH3L(-): 6Kb after exon 4 CP110 Exon 4 of CP110(+) Protein fusion: mid-exon (CP110-GOLPH3L) 7.000000e-02 1.000000e-01 0 0 2 0 1 1 -1.228743e-01 -4.451982e-01 1 11 1 11 1 150628270 19543764 1 150628263 -7 19543787 23 8 9.972167e-01 0 1 65 0 18 1 -1 -150628271 -1 -19543765 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 209 2 0 78157283 2 0 82782446 long_range 4625134 11 0 0 0 26_samples:0 78157045 78157282 238 49 82782134 82782416 283 62 SNAR-H IGR: 25Kb before SNAR-H(-) LOC1720 IGR: 302Kb before LOC1720(+) - 0 0 0 0 2 0 2 0 -2.518038e-01 5.862385e-01 1 11 1 11 1 78157282 82782416 1 78157283 1 82782446 30 3 9.382414e-01 0 0 62 0 19 1 78157483 201 82782588 172 1 8.044970e-01 0 0 72 1 G 9 1 2.111111e+00 LUSC-66-2756 211 3 0 134037801 3 0 134315268 inversion 277467 11 0 0 0 26_samples:0 134037531 134037801 271 52 134315107 134315268 162 28 AMOTL2 IGR: 36Kb before AMOTL2(-) KY IGR: 3Kb before KY(-) - 2.000000e-02 0 0 0 3 1 3 1 -5.840947e-02 -1.605565e+00 1 11 1 11 1 134037801 134315268 1 134037813 12 134315262 -6 1 9.263301e-01 0 0 71 25 CCGTTAGCTGTTACAGATGTTATAT 23 1 -1 -134037802 -1 -134315269 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2756 212 3 0 169377885 3 1 193515003 long_range 24137111 11 0 0 0 26_samples:0 169377643 169377891 249 54 193515002 193515209 208 36 MECOM Intron of MECOM(-): 3Kb after exon 1 LOC100128023 IGR: 196Kb before LOC100128023(-) - 0 0 0 0 2 0 1 0 7.052012e-02 -1.089846e+00 1 11 1 11 1 169377891 193515002 1 169377885 -6 193515003 1 4 9.099278e-01 0 1 72 32 TCTAAAAAACACAGTTAACCACATTCCTGTTC 33 1 -1 -169377892 -1 -193515003 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 215 5 1 32033201 5 0 32336482 tandem_dup 303251 11 0 0 0 26_samples:0 32033229 32033486 258 61 32336268 32336480 213 34 PDZD2 Intron of PDZD2(+): 4Kb before exon 6 ZFR IGR: 18Kb before ZFR(-) - 0 0 0 0 4 2 3 0 5.217737e-01 -1.218776e+00 1 11 1 11 1 32033229 32336480 1 32033201 -28 32336482 2 3 9.350204e-01 1 0 87 0 21 1 -1 -32033230 -1 -32336481 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 216 7 1 122120975 7 1 122122864 inversion 1877 11 0 0 0 26_samples:0 122120989 122121219 231 60 122122866 122123151 286 62 CADPS2 Intron of CADPS2(-): 807bp before exon 12 CADPS2 Intron of CADPS2(-): 3Kb before exon 12 Antisense fusion 4.000000e-02 6.000000e-02 0 0 1 2 3 1 4.573089e-01 5.862385e-01 1 11 1 11 1 122120989 122122866 1 122120975 -14 122122864 -2 20 9.712583e-01 1 1 64 0 33 1 122120858 -131 122122665 -201 1 7.605569e-01 1 1 70 26 CGTGCAGCGTTTAATAAACTTTTTGT 26 1 1.269231e+00 LUSC-66-2756 223 9 0 21805935 9 1 21845628 deletion 39720 11 0 0 0 26_samples:0 21805694 21805930 237 50 21845650 21845901 252 58 MTAP Intron of MTAP(+): 3Kb after exon 1 MTAP Intron of MTAP(+): 8Kb after exon 5 Deletion of 4 exons: in frame 0 0 0 0 1 1 3 1 -1.873391e-01 3.283793e-01 1 11 1 11 1 21805930 21845650 1 21805935 5 21845628 -22 6 9.856012e-01 0 0 68 1 C 9 1 -1 -21805931 -1 -21845651 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 225 11 1 64735049 11 0 65098158 tandem_dup 363057 11 0 0 0 26_samples:0 64735067 64735302 236 54 65097930 65098124 195 36 C11orf85 IGR: 7Kb after C11orf85(-) DPF2 IGR: 3Kb before DPF2(+) - 0 0 3.000000e-02 5.000000e-02 2 1 3 2 7.052012e-02 -1.089846e+00 1 11 1 11 1 64735067 65098124 1 64735049 -18 65098158 34 16 9.925353e-01 1 2 71 0 19 1 64734865 -202 65098266 142 4 8.422284e-01 1 2 86 0 16 1 1.187500e+00 LUSC-66-2756 227 17 1 54933291 17 0 55271684 tandem_dup 338331 11 0 0 0 26_samples:0 54933351 54933552 202 48 55271429 55271682 254 60 DGKE Intron of DGKE(+): 522bp before exon 8 MSI2 IGR: 62Kb before MSI2(+) - 0 3.000000e-02 0 0 2 1 2 0 -3.162686e-01 4.573089e-01 1 11 1 11 1 54933351 55271682 1 54933291 -60 55271684 2 5 9.910243e-01 1 1 65 0 12 1 -1 -54933352 -1 -55271683 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 226 17 1 48522452 17 0 48958559 tandem_dup 436032 11 0 0 0 26_samples:0 48522458 48522690 233 44 48958222 48958490 269 73 ACSF2 Intron of ACSF2(+): 16Kb before exon 2 TOB1 IGR: 19Kb before TOB1(-) - 0 0 4.000000e-02 2.000000e-01 2 1 3 1 -5.741278e-01 1.295351e+00 9.748829e-01 1.072371e+01 1 1.072371e+01 1 48522458 48958490 1 48522452 -6 48958559 69 6 9.574409e-01 1 3 69 0 29 1 -1 -48522459 -1 -48958491 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 4254 9 1 25309737 9 1 26433816 long_range 1124077 385 2 0 0 26_samples:0 25309732 25310069 338 65 26433809 26434147 339 62 TUSC1 IGR: 367Kb before TUSC1(-) C9orf82 IGR: 407Kb before C9orf82(-) - 1.000000e-02 7.000000e-02 0 0 13 6 56 1 9.566247e-01 6.993742e-01 2.712107e-02 1.044161e+01 1 1.044161e+01 1 25309732 26433809 1 25309737 5 26433816 7 20 9.808896e-01 1 1 75 1 C 554 1 -1 -25309733 -1 -26433810 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 62 8 0 31845144 8 1 35690110 long_range 3844977 26 0 0 0 26_samples:0 31844884 31845128 245 55 35690105 35690389 285 66 NRG1 Intron of NRG1(+): 347Kb after exon 1 UNC5D IGR: 38Kb after UNC5D(+) - 0 3.000000e-02 3.000000e-02 7.000000e-02 9 1 2 3 1.113258e-01 9.766245e-01 4.000090e-01 1.040023e+01 1 1.040023e+01 1 31845128 35690105 1 31845144 16 35690110 5 20 9.855610e-01 0 1 75 0 46 1 -1 -31845129 -1 -35690106 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 22 2 1 39691058 2 1 78165764 long_range 38474701 48 0 0 0 26_samples:0 39691059 39691262 204 45 78165760 78166031 272 47 MAP4K3 IGR: 27Kb after MAP4K3(-) SNAR-H IGR: 16Kb before SNAR-H(-) - 1.000000e-02 3.000000e-02 0 0 6 1 11 2 -7.583788e-01 -5.868785e-01 2.134012e-01 1.024326e+01 1 1.024326e+01 1 39691059 78165760 1 39691058 -1 78165764 4 8 9.112959e-01 1 0 73 57 ATGAAAAATAAAAAATGCTATATTTATATGGAAAAATATAGCATGTTCCCATTCTGT 85 1 -1 -39691060 -1 -78165761 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 163 13 0 81959808 13 1 81961447 deletion 1656 14 0 0 0 26_samples:0 81959532 81959789 258 56 81961445 81961779 335 78 SPRY2 IGR: 1Mb before SPRY2(-) SPRY2 IGR: 1Mb before SPRY2(-) - 0 0 0 0 1 2 0 0 2.016316e-01 1.723560e+00 7.252618e-01 1.015367e+01 1 1.015367e+01 1 81959789 81961445 1 81959808 19 81961447 2 9 9.783998e-01 0 4 73 0 13 1 81959990 201 81961608 163 1 7.615110e-01 0 0 87 8 GTAGGTTA 6 1 2.166667e+00 LUSC-66-2756 229 2 1 72877229 2 1 112925737 long_range 40048495 10 0 0 0 26_samples:0 72877240 72877495 256 45 112925735 112925976 242 54 EXOC6B Intron of EXOC6B(-): 68Kb after exon 6 FBLN7 Intron of FBLN7(+): 3Kb after exon 3 Protein fusion: out of frame (EXOC6B-FBLN7) 0 2.000000e-02 0 0 2 0 1 0 -5.096630e-01 7.052012e-02 1 10 1 10 1 72877240 112925735 1 72877229 -11 112925737 2 7 9.609912e-01 1 0 75 1 C 15 1 -1 -72877241 -1 -112925736 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 232 2 0 33206220 2 1 40305511 long_range 7099297 10 0 0 0 26_samples:0 33205930 33206223 294 60 40305520 40305778 259 56 LTBP1 Intron of LTBP1(+): 32Kb after exon 2 SLC8A1 IGR: 34Kb before SLC8A1(-) - 0 0 0 0 1 0 2 0 4.573089e-01 1.994497e-01 1 10 1 10 1 33206223 40305520 1 33206220 -3 40305511 -9 4 9.888906e-01 0 3 73 0 12 1 -1 -33206224 -1 -40305521 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 233 2 1 151139664 2 1 198959873 long_range 47820215 10 0 0 0 26_samples:0 151139664 151139910 247 43 198959879 198960102 224 42 RND3 IGR: 185Kb before RND3(-) PLCL1 Intron of PLCL1(+): 6Kb after exon 3 - 0 0 0 0 2 1 2 1 -6.385926e-01 -7.030574e-01 1 10 1 10 1 151139664 198959879 1 151139664 0 198959873 -6 9 9.995015e-01 1 0 83 0 13 1 -1 -151139665 -1 -198959880 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 234 3 0 119936896 3 0 119987778 inversion 50924 10 0 0 0 26_samples:0 119936673 119936852 180 33 119987546 119987776 231 38 GPR156 Intron of GPR156(-): 25Kb before exon 3 LRRC58 IGR: 56Kb before LRRC58(-) - 3.000000e-02 6.000000e-02 0 0 2 1 3 0 -1.283241e+00 -9.609166e-01 1 10 1 10 1 119936852 119987776 1 119936896 44 119987778 2 3 9.105776e-01 0 0 62 0 15 1 -1 -119936853 -1 -119987777 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 235 3 1 129380657 3 0 185774370 long_range 56393674 10 0 0 0 26_samples:0 129380701 129380945 245 58 185774145 185774375 231 60 TMCC1 Intron of TMCC1(-): 7Kb before exon 5 ETV5 Intron of ETV5(-): 489bp after exon 11 Protein fusion: out of frame (TMCC1-ETV5) 0 0 2.000000e-02 0 2 1 3 1 3.283793e-01 4.573089e-01 1 10 1 10 1 129380701 185774375 1 129380657 -44 185774370 -5 7 9.610861e-01 1 1 73 0 14 1 129380657 -44 185774370 -5 1 9.781917e-01 1 1 73 0 13 1 1.076923e+00 LUSC-66-2756 236 3 0 129489917 3 0 134029583 long_range 4539714 10 0 0 0 26_samples:0 129489632 129489873 242 46 134029359 134029587 229 43 TMCC1 Intron of TMCC1(-): 57Kb after exon 3 AMOTL2 IGR: 45Kb before AMOTL2(-) - 0 0 2.000000e-02 0 1 1 1 1 -4.451982e-01 -6.385926e-01 1 10 1 10 1 129489873 134029587 1 129489917 44 134029583 -4 12 9.419926e-01 0 1 86 0 23 1 129489831 -42 134029789 202 3 8.297099e-01 0 1 81 0 20 1 1.150000e+00 LUSC-66-2756 237 3 1 129582506 3 1 133636871 long_range 4054365 10 0 0 0 26_samples:0 129582506 129582756 251 52 133636871 133637130 260 45 TMCC1 5'-UTR of TMCC1(-): 35Kb before coding start C3orf36 IGR: 10Kb before C3orf36(-) - 2.000000e-02 3.000000e-02 4.000000e-02 4.000000e-02 1 1 3 1 -5.840947e-02 -5.096630e-01 1 10 1 10 1 129582506 133636871 1 129582663 157 133636670 -201 11 8.859957e-01 1 0 122 1 G 25 1 129582663 157 133636670 -201 8 8.877920e-01 1 0 122 1 G 18 0 1.388889e+00 LUSC-66-2756 241 4 1 162394394 4 0 162535374 tandem_dup 140923 10 0 0 0 26_samples:0 162394395 162394603 209 58 162535103 162535318 216 35 FSTL5 Intron of FSTL5(-): 8Kb after exon 13 FSTL5 Intron of FSTL5(-): 27Kb before exon 8 Duplication of 6 exons: in frame 0 0 0 0 1 0 2 0 3.283793e-01 -1.154311e+00 1 10 1 10 1 162394395 162535318 1 162394394 -1 162535374 56 9 9.979019e-01 1 1 76 0 13 1 162394186 -209 162535297 -21 3 8.239302e-01 1 8 81 0 11 1 1.181818e+00 LUSC-66-2756 242 5 1 79780971 11 0 104648196 inter_chr NaN 10 0 0 0 26_samples:0 79780973 79781237 265 58 104647915 104648197 283 57 FAM151B Promoter of FAM151B(+): 3Kb from tx start CASP12 IGR: 109Kb before CASP12(-) - 0 4.000000e-02 0 0 2 0 1 0 3.283793e-01 2.639145e-01 1 10 1 10 1 79780973 104648197 1 79780971 -2 104648196 -1 6 1 1 1 67 0 14 1 -1 -79780974 -1 -104648198 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 245 8 1 55558726 8 0 61397544 long_range 5838802 10 0 0 0 26_samples:0 55558723 55558958 236 48 61397257 61397525 269 51 RP1 IGR: 30Kb before RP1(+) RAB2A IGR: 32Kb before RAB2A(+) - 0 0 0 3.000000e-02 2 0 3 1 -3.162686e-01 -1.228743e-01 1 10 1 10 1 55558723 61397525 1 55558726 3 61397544 19 8 9.790258e-01 1 0 71 0 23 1 55558514 -209 61397348 -177 3 8.330548e-01 1 8 71 0 5 1 4.600000e+00 LUSC-66-2756 246 8 1 115617953 8 1 117990694 long_range 2372742 10 0 0 0 26_samples:0 115617949 115618223 275 59 117990691 117990975 285 63 TRPS1 IGR: 803Kb before TRPS1(-) SLC30A8 5'-UTR of SLC30A8(+): 169Kb before coding start - 0 0 0 0 3 1 3 0 3.928441e-01 6.507033e-01 1 10 1 10 1 115617949 117990691 1 115617953 4 117990694 3 13 9.267438e-01 1 2 77 0 32 1 -1 -115617950 -1 -117990692 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 249 9 0 27665069 9 1 27684240 deletion 19222 10 0 0 0 26_samples:0 27664790 27665025 236 42 27684247 27684448 202 34 C9orf72 IGR: 105Kb before C9orf72(-) C9orf72 IGR: 124Kb before C9orf72(-) - 0 0 0 0 3 1 4 1 -7.030574e-01 -1.218776e+00 1 10 1 10 1 27665025 27684247 1 27665069 44 27684240 -7 7 9.841559e-01 0 0 64 0 93 1 -1 -27665026 -1 -27684248 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 252 15 1 40647289 15 0 40651460 tandem_dup 4136 10 0 0 0 26_samples:0 40647308 40647535 228 43 40651207 40651444 238 47 PHGR1 Intron of PHGR1(+): 958bp before exon 3 DISP2 Intron of DISP2(+): 803bp after exon 1 Protein fusion: out of frame (DISP2-PHGR1) 0 0 0 0 0 1 1 0 -6.385926e-01 -3.807334e-01 1 10 1 10 1 40647308 40651444 1 40647289 -19 40651460 16 11 8.818000e-01 1 3 69 0 16 1 -1 -40647309 -1 -40651445 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 253 20 1 62056077 20 0 62333715 tandem_dup 277635 10 0 0 0 26_samples:0 62056081 62056342 262 56 62333448 62333716 269 57 KCNQ2 Intron of KCNQ2(-): 522bp before exon 11 ARFRP1 Intron of ARFRP1(-): 147bp before exon 5 Protein fusion: out of frame (KCNQ2-ARFRP1) 0 0 0 0 1 0 1 0 1.994497e-01 2.639145e-01 1 10 1 10 1 62056081 62333716 1 62056077 -4 62333715 -1 6 9.202915e-01 1 2 78 0 13 1 -1 -62056082 -1 -62333717 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 243 7 0 25447520 8 1 107968957 inter_chr NaN 10 0 0 0 26_samples:0 25447273 25447509 237 68 107968985 107969260 276 71 NPVF IGR: 183Kb before NPVF(-) ABRA IGR: 197Kb before ABRA(-) - 0 0 2.000000e-02 8.000000e-02 2 0 2 1 9.730272e-01 1.166422e+00 9.954119e-01 9.954119e+00 1 9.954119e+00 1 25447509 107968985 1 25447520 11 107968957 -28 4 9.008052e-01 0 1 71 0 15 1 -1 -25447510 -1 -107968986 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 247 8 0 132419729 12 1 129763551 inter_chr NaN 10 0 0 0 26_samples:0 132419429 132419726 298 71 129763551 129763835 285 68 EFR3A IGR: 497Kb before EFR3A(+) TMEM132D Intron of TMEM132D(-): 59Kb after exon 4 - 0 0 0 0 2 0 1 0 1.166422e+00 9.730272e-01 9.954119e-01 9.954119e+00 1 9.954119e+00 1 132419726 129763551 1 132419729 3 129763551 0 5 9.904575e-01 0 1 82 0 11 1 -1 -132419727 -1 -129763552 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 248 8 1 102404561 16 0 85502618 inter_chr NaN 10 0 0 0 26_samples:0 102404566 102404821 256 66 85502331 85502611 281 71 NACAP1 IGR: 23Kb before NACAP1(+) KIAA0182 IGR: 142Kb before KIAA0182(+) - 0 0 0 0 3 0 1 0 8.440976e-01 1.166422e+00 9.954119e-01 9.954119e+00 1 9.954119e+00 1 102404566 85502611 1 102404561 -5 85502618 7 11 9.739285e-01 1 3 80 0 26 1 -1 -102404567 -1 -85502612 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 238 3 0 133291414 3 1 183816432 long_range 50525075 10 0 0 0 26_samples:0 133291092 133291386 295 72 183816461 183816740 280 62 CDV3 Promoter of CDV3(+): 1Kb from tx start HTR3E Promoter of HTR3E(+): 2Kb from tx start Transcript fusion (CDV3-HTR3E) 2.000000e-02 9.000000e-02 5.000000e-02 4.000000e-02 2 0 2 0 1.230886e+00 5.862385e-01 9.878414e-01 9.878414e+00 1 9.878414e+00 1 133291386 183816461 1 133291414 28 183816432 -29 5 9.948455e-01 0 7 69 0 14 1 133291477 91 183816255 -206 2 8.335689e-01 0 6 84 0 15 1 9.333333e-01 LUSC-66-2756 250 9 0 27712345 9 0 28031036 inversion 318713 10 0 0 0 26_samples:0 27712085 27712327 243 57 28030735 28031040 306 63 C9orf72 IGR: 152Kb before C9orf72(-) LINGO2 5'-UTR of LINGO2(-): 80Kb before coding start - 0 0 0 0 4 1 5 1 2.639145e-01 6.507033e-01 9.846154e-01 9.846154e+00 1 9.846154e+00 1 27712327 28031040 1 27712345 18 28031036 -4 8 9.952585e-01 0 5 70 0 152 1 -1 -27712328 -1 -28031041 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 240 3 0 185948465 3 0 186797888 inversion 849426 10 0 0 0 26_samples:0 185948210 185948459 250 52 186797558 186797885 328 74 DGKG Intron of DGKG(-): 12Kb after exon 19 ST6GAL1 IGR: 2Kb after ST6GAL1(+) - 0 0 0 0 1 0 3 0 -5.840947e-02 1.359816e+00 9.554890e-01 9.554890e+00 1 9.554890e+00 1 185948459 186797885 1 185948465 6 186797888 3 6 9.905618e-01 0 1 50 0 23 1 -1 -185948460 -1 -186797886 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 251 9 1 29205387 9 1 29247779 inversion 42386 10 0 0 0 26_samples:0 29205401 29205662 262 53 29247787 29248124 338 74 MIR873 IGR: 317Kb before MIR873(-) MIR873 IGR: 359Kb before MIR873(-) - 0 0 0 0 3 1 2 0 6.055328e-03 1.359816e+00 9.554890e-01 9.554890e+00 1 9.554890e+00 1 29205401 29247787 1 29205387 -14 29247779 -8 9 9.975944e-01 1 3 76 0 29 1 -1 -29205402 -1 -29247788 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 138 6 0 157237820 6 1 157427583 deletion 189761 16 0 0 0 26_samples:0 157237505 157237819 315 77 157427580 157427889 310 75 ARID1B Intron of ARID1B(+): 15Kb after exon 4 ARID1B Intron of ARID1B(+): 4Kb before exon 7 Deletion of 2 exons: out of frame 0 0 0 0 1 1 1 0 1.737305e+00 1.590415e+00 5.920247e-01 9.472396e+00 1 9.472396e+00 1 157237819 157427580 1 157237820 1 157427583 3 9 9.884486e-01 0 2 80 0 15 1 -1 -157237820 -1 -157427581 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 152 1 1 27549517 8 1 87192236 inter_chr NaN 14 0 0 0 26_samples:0 27549515 27549802 288 79 87192240 87192480 241 56 WDTC1 IGR: 11Kb before WDTC1(+) SLC7A13 IGR: 34Kb before SLC7A13(-) - 7.000000e-02 3.000000e-02 0 0 3 0 2 0 1.792739e+00 2.016316e-01 6.674744e-01 9.344642e+00 1 9.344642e+00 1 27549515 87192240 1 27549517 2 87192236 -4 9 9.899439e-01 1 1 81 0 11 1 -1 -27549516 -1 -87192241 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 164 23 1 57036878 23 0 154980779 long_range 97943909 14 0 0 0 26_samples:0 57036871 57037192 322 79 154980529 154980780 252 59 SPIN3 IGR: 20Kb before SPIN3(-) SPRY3 IGR: 17Kb before SPRY3(+) - 6.000000e-02 5.000000e-02 0 0 1 2 1 0 1.792739e+00 4.091673e-01 6.674744e-01 9.344642e+00 1 9.344642e+00 1 57036871 154980780 1 57036878 7 154980779 -1 14 9.951897e-01 1 1 65 0 18 1 -1 -57036872 -1 -154980781 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 255 1 0 90910461 2 1 136303069 inter_chr NaN 9 0 0 0 26_samples:0 90910269 90910459 191 33 136303110 136303338 229 65 BARHL2 IGR: 267Kb before BARHL2(-) R3HDM1 5'-UTR of R3HDM1(+): 59Kb before coding start - 0 0 0 0 2 1 1 0 -1.191748e+00 7.618183e-01 1 9 1 9 1 90910459 136303110 1 90910461 2 136303069 -41 5 9.922396e-01 0 1 64 0 9 1 -1 -90910460 -1 -136303111 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 258 1 0 118314302 17 0 27309483 inter_chr NaN 9 0 0 0 26_samples:0 118314037 118314286 250 56 27309197 27309484 288 59 GDAP2 IGR: 92Kb before GDAP2(-) SEZ6 Intron of SEZ6(-): 427bp before exon 2 - 0 0 0 0 2 1 2 1 2.123779e-01 3.955247e-01 1 9 1 9 1 118314286 27309484 1 118314302 16 27309483 -1 5 1 0 3 78 0 18 1 -1 -118314287 -1 -27309485 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 259 2 1 16075051 2 0 165674801 long_range 149599708 9 0 0 0 26_samples:0 16075058 16075273 216 53 165674547 165674766 220 48 MYCNOS IGR: 5Kb before MYCNOS(-) COBLL1 Intron of COBLL1(-): 23Kb after exon 1 - 0 9.000000e-02 0 0 2 2 2 0 2.923105e-02 -2.760136e-01 1 9 1 9 1 16075058 165674766 1 16075051 -7 165674801 35 2 9.487808e-01 1 0 64 1 A 23 1 -1 -16075059 -1 -165674767 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 261 2 0 196717381 2 0 197574406 inversion 856984 9 0 0 0 26_samples:0 196717141 196717384 244 44 197574133 197574368 236 49 DNAH7 Intron of DNAH7(-): 683bp after exon 46 CCDC150 Intron of CCDC150(+): 3Kb before exon 16 Protein fusion: in frame (CCDC150-DNAH7) 0 0 7.000000e-02 1.300000e-01 1 0 4 3 -5.202094e-01 -2.149647e-01 1 9 1 9 1 196717384 197574368 1 196717381 -3 197574406 38 9 9.682391e-01 0 0 70 0 15 1 196717448 64 197574569 201 1 8.016151e-01 0 0 70 13 CCATATTTGCTGT 30 1 5.000000e-01 LUSC-66-2756 262 2 1 237750832 2 0 238148765 tandem_dup 397887 9 0 0 0 26_samples:0 237750835 237751099 265 61 238148465 238148722 258 58 COPS8 IGR: 243Kb before COPS8(+) COL6A3 IGR: 84Kb before COL6A3(-) - 0 0 0 0 1 1 1 1 5.176225e-01 3.344757e-01 1 9 1 9 1 237750835 238148722 1 237750832 -3 238148765 43 11 9.715869e-01 1 3 84 0 24 1 -1 -237750836 -1 -238148723 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 263 3 1 104405266 3 0 182986922 long_range 78581661 9 0 0 0 26_samples:0 104405267 104405525 259 52 182986686 182986928 243 44 MIR548A3 IGR: 459Kb after MIR548A3(-) MCF2L2 Intron of MCF2L2(-): 8Kb after exon 15 - 0 0 0 0 2 1 3 0 -3.181789e-02 -5.202094e-01 1 9 1 9 1 104405267 182986928 1 104405266 -1 182986922 -6 4 9.116236e-01 1 4 81 0 10 1 104405063 -204 182986797 -131 1 7.607364e-01 1 3 72 0 8 1 1.250000e+00 LUSC-66-2756 264 3 1 129495047 3 0 133686952 long_range 4191896 9 0 0 0 26_samples:0 129495054 129495316 263 62 133686733 133686950 218 46 TMCC1 Intron of TMCC1(-): 52Kb after exon 3 SLCO2A1 Intron of SLCO2A1(-): 6Kb after exon 3 Protein fusion: out of frame (TMCC1-SLCO2A1) 0 0 0 0 2 1 2 1 5.786715e-01 -3.981115e-01 1 9 1 9 1 129495054 133686950 1 129495047 -7 133686952 2 2 1 1 1 72 0 9 1 -1 -129495055 -1 -133686951 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 265 3 1 133171381 3 1 138436373 long_range 5264878 9 0 0 0 26_samples:0 133171496 133171709 214 53 138436374 138436568 195 31 BFSP2 Intron of BFSP2(+): 2Kb after exon 4 PIK3CB Intron of PIK3CB(-): 3Kb before exon 7 Protein fusion: in frame (PIK3CB-BFSP2) 0 0 0 1.000000e-02 1 1 3 0 2.923105e-02 -1.313846e+00 1 9 1 9 1 133171496 138436374 1 133171381 -115 138436373 -1 3 8.837620e-01 1 0 70 0 8 1 -1 -133171497 -1 -138436375 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 266 3 1 134110348 3 1 134315107 inversion 204759 9 0 0 0 26_samples:0 134110348 134110560 213 42 134315107 134315263 157 20 AMOTL2 IGR: 36Kb before AMOTL2(-) KY IGR: 4Kb before KY(-) - 0 4.000000e-02 0 0 1 2 3 1 -6.423073e-01 -1.985384e+00 1 9 1 9 1 134110348 134315107 1 134110327 -21 134315103 -4 1 9.420199e-01 1 2 71 34 CCTAAATGCCTGTGTTGCCCAATACATGGTATTC 9 1 -1 -134110349 -1 -134315108 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2756 267 3 1 139567265 3 1 139770246 inversion 202975 9 0 0 0 26_samples:0 139567268 139567571 304 63 139770243 139770519 277 57 CLSTN2 IGR: 87Kb before CLSTN2(+) CLSTN2 Intron of CLSTN2(+): 116Kb after exon 1 - 0 0 0 0 1 0 2 0 6.397204e-01 2.734268e-01 1 9 1 9 1 139567268 139770243 1 139567265 -3 139770246 3 2 9.317973e-01 1 2 74 0 11 1 -1 -139567269 -1 -139770244 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 268 3 0 185478575 3 0 187953950 long_range 2475375 9 0 0 0 26_samples:0 185478401 185478575 175 42 187953740 187953950 211 41 IGF2BP2 Intron of IGF2BP2(-): 62Kb after exon 2 LPP 5'-UTR of LPP(+): 170Kb before coding start Transcript fusion (LPP-IGF2BP2) 0 0 0 0 1 1 2 0 -6.423073e-01 -7.033562e-01 1 9 1 9 1 185478575 187953950 1 185478778 203 187954038 88 1 7.744956e-01 0 2 78 0 8 1 -1 -185478576 -1 -187953951 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2756 269 3 0 180324690 3 0 197584250 long_range 17259513 9 0 0 0 26_samples:0 180324434 180324683 250 47 197583946 197584196 251 43 TTC14 Intron of TTC14(+): 292bp after exon 9 LRCH3 Intron of LRCH3(+): 2Kb before exon 15 Antisense fusion 0 0 1.000000e-02 7.000000e-02 2 1 3 0 -3.370626e-01 -5.812583e-01 1 9 1 9 1 180324683 197584196 1 180324690 7 197584250 54 4 9.909208e-01 0 3 67 0 87 1 -1 -180324684 -1 -197584197 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 271 4 0 2009715 4 0 2093905 inversion 84166 9 0 0 0 26_samples:0 2009475 2009721 247 55 2093643 2093887 245 62 WHSC2 Intron of WHSC2(-): 756bp after exon 1 POLN Intron of POLN(-): 4Kb after exon 18 - 0 0 0 0 1 2 2 0 1.513289e-01 5.786715e-01 1 9 1 9 1 2009721 2093887 1 2009715 -6 2093905 18 4 9.670844e-01 0 1 77 0 16 1 -1 -2009722 -1 -2093888 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 276 9 1 22482248 9 0 32822621 long_range 10340364 9 0 0 0 26_samples:0 22482245 22482532 288 58 32822327 32822609 283 62 DMRTA1 IGR: 35Kb before DMRTA1(+) TMEM215 IGR: 39Kb before TMEM215(+) - 1.800000e-01 3.000000e-02 0 0 2 1 3 0 3.344757e-01 5.786715e-01 1 9 1 9 1 22482245 32822609 1 22482248 3 32822621 12 9 9.947059e-01 1 2 75 0 21 1 -1 -22482246 -1 -32822610 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 282 13 1 81959280 13 0 81961450 tandem_dup 2084 9 0 0 0 26_samples:0 81959360 81959558 199 38 81961254 81961444 191 32 SPRY2 IGR: 1Mb before SPRY2(-) SPRY2 IGR: 1Mb before SPRY2(-) - 0 0 0 0 0 2 0 0 -8.865030e-01 -1.252797e+00 1 9 1 9 1 81959360 81961444 1 81959280 -80 81961450 6 13 9.992458e-01 1 3 76 0 17 1 -1 -81959361 -1 -81961445 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 283 15 1 43274190 15 0 43528602 tandem_dup 254393 9 0 0 0 26_samples:0 43274198 43274459 262 60 43528397 43528591 195 34 UBR1 Intron of UBR1(-): 2Kb after exon 37 TGM5 Intron of TGM5(-): 556bp before exon 9 Protein fusion: in frame (UBR1-TGM5) 0 0 0 0 2 1 1 0 4.565736e-01 -1.130699e+00 1 9 1 9 1 43274198 43528591 1 43274190 -8 43528602 11 7 9.847016e-01 1 2 72 0 12 1 -1 -43274199 -1 -43528592 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 285 18 1 9562117 18 0 9765192 tandem_dup 203042 9 0 0 0 26_samples:0 9562123 9562378 256 57 9764940 9765165 226 64 PPP4R1 Intron of PPP4R1(-): 50bp before exon 13 RAB31 Intron of RAB31(+): 10Kb before exon 2 Antisense fusion 0 0 2.000000e-02 4.000000e-02 2 0 1 2 2.734268e-01 7.007694e-01 1 9 1 9 1 9562123 9765165 1 9562117 -6 9765192 27 4 9.979305e-01 1 4 70 0 13 1 -1 -9562124 -1 -9765166 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 287 23 0 23950908 23 1 23970069 deletion 19194 9 0 0 0 26_samples:0 23950672 23950899 228 48 23970093 23970367 275 48 CXorf58 Intron of CXorf58(+): 2Kb before exon 7 KLHL15 IGR: 32Kb before KLHL15(-) - 5.000000e-02 1.200000e-01 0 0 1 2 2 0 -2.760136e-01 -2.760136e-01 1 9 1 9 1 23950899 23970093 1 23950908 9 23970069 -24 4 9.866844e-01 0 0 60 0 7 1 -1 -23950900 -1 -23970094 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 272 5 1 14414138 5 0 14972412 tandem_dup 558274 9 0 0 0 26_samples:0 14414138 14414416 279 70 14972192 14972412 221 50 TRIO Intron of TRIO(+): 6Kb before exon 34 ANKH IGR: 268Kb before ANKH(-) - 0 0 0 0 2 0 1 1 1.067063e+00 -1.539158e-01 9.996985e-01 8.997286e+00 1 8.997286e+00 1 14414138 14972412 1 14414129 -9 14972466 54 7 7.605731e-01 1 0 76 0 31 1 -1 -14414139 -1 -14972413 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2756 273 8 0 143385457 11 0 58728071 inter_chr NaN 9 0 0 0 26_samples:0 143385197 143385462 266 62 58727743 58728061 319 71 TSNARE1 Intron of TSNARE1(-): 3Kb before exon 10 GLYATL1 IGR: 4Kb after GLYATL1(+) - 0 0 0 2.000000e-02 2 0 1 0 5.786715e-01 1.128112e+00 9.979018e-01 8.981116e+00 1 8.981116e+00 1 143385462 58728061 1 143385457 -5 58728071 10 5 9.834696e-01 0 6 64 0 27 1 -1 -143385463 -1 -58728062 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 279 9 1 21847815 9 0 29246109 long_range 7398291 9 0 0 0 26_samples:0 21847810 21848092 283 71 29245852 29246101 250 61 MTAP Intron of MTAP(+): 7Kb before exon 6 MIR873 IGR: 357Kb before MIR873(-) - 1.000000e-01 5.000000e-02 0 0 2 1 3 1 1.128112e+00 5.176225e-01 9.979018e-01 8.981116e+00 1 8.981116e+00 1 21847810 29246101 1 21847815 5 29246109 8 4 1 1 3 81 0 15 1 -1 -21847811 -1 -29246102 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 254 1 1 54682683 1 0 54684609 tandem_dup 1927 9 0 0 0 26_samples:0 54682681 54682946 266 60 54684325 54684608 284 72 MRPL37 Intron of MRPL37(+): 664bp after exon 6 MRPL37 IGR: 554bp after MRPL37(+) - 0 0 0 0 2 1 1 0 4.565736e-01 1.189161e+00 9.932770e-01 8.939493e+00 1 8.939493e+00 1 54682681 54684608 1 54682683 2 54684609 1 9 9.899316e-01 1 1 74 0 18 1 -1 -54682682 -1 -54684609 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 256 1 0 92676112 3 0 142720074 inter_chr NaN 9 0 0 0 26_samples:0 92675834 92676114 281 71 142719792 142720063 272 72 C1orf146 IGR: 7Kb before C1orf146(+) SR140 Promoter of SR140(+): 309bp from tx start - 0 0 0 0 2 0 2 1 1.128112e+00 1.189161e+00 9.911928e-01 8.920736e+00 1 8.920736e+00 1 92676114 142720063 1 92676112 -2 142720074 11 9 9.919120e-01 0 3 71 0 18 1 -1 -92676115 -1 -142720064 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 217 8 0 13018446 8 1 13026694 deletion 8250 11 0 0 0 26_samples:0 13018167 13018438 272 64 13026688 13027002 315 78 DLC1 Intron of DLC1(-): 45Kb before exon 6 DLC1 Intron of DLC1(-): 54Kb before exon 6 Deletion within intron 1.400000e-01 7.000000e-02 0 0 0 1 1 1 7.151681e-01 1.617675e+00 8.092860e-01 8.902146e+00 1 8.902146e+00 1 13018438 13026688 1 13018446 8 13026694 6 15 9.901239e-01 0 2 72 0 24 1 -1 -13018439 -1 -13026689 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 277 9 0 27121994 9 1 27661211 deletion 539242 9 0 0 0 26_samples:0 27121781 27121988 208 35 27661230 27661464 235 45 TEK Intron of TEK(+): 12Kb after exon 1 C9orf72 IGR: 101Kb before C9orf72(-) - 0 0 0 0 4 1 5 1 -1.069650e+00 -4.591605e-01 9.846154e-01 8.861538e+00 1 8.861538e+00 1 27121988 27661230 1 27121994 6 27661211 -19 7 9.824230e-01 0 2 69 0 118 1 -1 -27121989 -1 -27661231 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 284 17 1 79606181 17 0 80002764 tandem_dup 396564 9 0 0 0 26_samples:0 79606185 79606465 281 64 80002497 80002749 253 65 NPLOC4 Promoter of NPLOC4(-): 2Kb from tx start RFNG IGR: 3Kb before RFNG(-) - 2.000000e-02 1.100000e-01 8.000000e-02 2.100000e-01 3 1 5 1 7.007694e-01 7.618183e-01 9.846154e-01 8.861538e+00 1 8.861538e+00 1 79606185 80002749 1 79606181 -4 80002764 15 7 9.497357e-01 1 1 60 0 11 1 -1 -79606186 -1 -80002750 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 288 23 0 25013186 23 0 25015747 inversion 2576 9 0 0 0 26_samples:0 25012906 25013179 274 62 25015489 25015755 267 55 POLA1 Intron of POLA1(+): 743bp before exon 37 POLA1 IGR: 655bp after POLA1(+) - 2.100000e-01 2.900000e-01 0 0 2 2 1 1 5.786715e-01 1.513289e-01 9.750390e-01 8.775351e+00 1 8.775351e+00 1 25013179 25015755 1 25013186 7 25015747 -8 2 9.472188e-01 0 4 69 0 13 1 25013384 205 25015649 -106 1 7.742673e-01 0 4 78 0 5 1 2.600000e+00 LUSC-66-2756 143 9 0 21857053 9 0 33023259 long_range 11166197 16 0 0 0 26_samples:0 21856747 21857056 310 79 33022981 33023253 273 73 MTAP Intron of MTAP(+): 2Kb after exon 6 DNAJA1 Promoter of DNAJA1(+): 2Kb from tx start Antisense fusion 0 0 2.000000e-02 8.000000e-02 1 0 3 2 1.884196e+00 1.443525e+00 5.438255e-01 8.701208e+00 1 8.701208e+00 1 21857056 33023253 1 21857053 -3 33023259 6 5 9.769715e-01 0 0 70 0 23 1 -1 -21857057 -1 -33023254 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 181 12 0 10071118 12 1 10075199 deletion 4070 13 0 0 0 26_samples:0 10070837 10071126 290 64 10075196 10075506 311 79 CLEC2A Intron of CLEC2A(-): 2Kb before exon 4 CLEC2A Intron of CLEC2A(-): 365bp before exon 3 Deletion of 1 exon: out of frame 2.000000e-02 4.000000e-02 0 0 0 1 2 0 7.550602e-01 1.792739e+00 6.674744e-01 8.677167e+00 1 8.677167e+00 1 10071126 10075196 1 10071118 -8 10075199 3 10 1 0 2 72 0 19 1 -1 -10071127 -1 -10075197 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 257 1 1 198788414 11 0 43996572 inter_chr NaN 9 0 0 0 26_samples:0 198788409 198788671 263 75 43996276 43996569 294 71 MIR181B1 IGR: 40Kb before MIR181B1(-) AG2 IGR: 32Kb before AG2(+) - 0 0 0 0 2 0 2 0 1.372308e+00 1.128112e+00 9.489306e-01 8.540375e+00 1 8.540375e+00 1 198788409 43996569 1 198788414 5 43996572 3 6 9.964318e-01 1 0 66 0 14 1 -1 -198788410 -1 -43996570 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 275 8 0 73784614 21 1 24805525 inter_chr NaN 9 0 0 0 26_samples:0 73784308 73784595 288 65 24805533 24805768 236 49 KCNB2 Intron of KCNB2(+): 64Kb before exon 3 NCRNA00158 IGR: 2Mb before NCRNA00158(-) - 0 0 0 0 6 1 1 1 7.618183e-01 -2.149647e-01 8.888889e-01 8 1 8 1 73784595 24805533 1 73784614 19 24805525 -8 3 9.844207e-01 0 0 76 0 26 1 73784708 113 24805328 -205 1 7.779808e-01 0 5 73 0 24 1 1.083333e+00 LUSC-66-2756 289 1 0 73898795 5 0 137922421 inter_chr NaN 8 0 0 0 26_samples:0 73898590 73898788 199 37 137922151 137922316 166 42 LRRIQ3 IGR: 593Kb before LRRIQ3(-) SNORD63 IGR: 26Kb before SNORD63(-) - 0 0 3.000000e-02 3.000000e-02 1 0 3 1 -9.475520e-01 -6.423073e-01 1 8 1 8 1 73898788 137922316 1 73898795 7 137922421 105 13 9.905418e-01 0 0 71 0 25 1 -1 -73898789 -1 -137922317 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 292 1 1 150413412 16 1 89517973 inter_chr NaN 8 0 0 0 26_samples:0 150413442 150413668 227 44 89517995 89518230 236 58 RPRD2 Exon 3 of RPRD2(+) ANKRD11 5'-UTR of ANKRD11(-): 135Kb before coding start Protein fusion: mid-exon (ANKRD11-RPRD2) 0 0 3.000000e-02 7.000000e-02 3 1 3 1 -5.202094e-01 3.344757e-01 1 8 1 8 1 150413442 89517995 1 150413412 -30 89517973 -22 7 9.509627e-01 1 1 76 0 7 1 -1 -150413443 -1 -89517996 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 293 2 0 30312337 2 0 54235893 long_range 23923556 8 0 0 0 26_samples:0 30312178 30312337 160 39 54235703 54235893 191 36 YPEL5 IGR: 57Kb before YPEL5(+) PSME4 IGR: 38Kb after PSME4(-) - 0 0 0 2.000000e-02 2 0 2 2 -8.254541e-01 -1.008601e+00 1 8 1 8 1 30312337 54235893 1 30312339 2 54236084 191 1 7.519152e-01 0 1 80 0 16 1 -1 -30312338 -1 -54235894 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2756 294 2 1 54162701 2 1 55434837 long_range 1272164 8 0 0 0 26_samples:0 54162722 54162942 221 46 55434886 55435086 201 40 PSME4 Intron of PSME4(-): 502bp after exon 7 C2orf63 Intron of C2orf63(-): 876bp after exon 6 Antisense fusion 0 0 0 0 3 0 2 2 -3.981115e-01 -7.644051e-01 1 8 1 8 1 54162722 55434886 1 54162701 -21 55434837 -49 2 9.549701e-01 1 3 78 0 5 1 -1 -54162723 -1 -55434887 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 296 3 0 106178834 3 0 122743761 long_range 16564904 8 0 0 0 26_samples:0 106178585 106178837 253 56 122743487 122743741 255 54 LOC100302640 IGR: 650Kb before LOC100302640(-) SEMA5B 5'-UTR of SEMA5B(-): 64Kb before coding start - 5.000000e-02 6.000000e-02 0 0 2 0 2 0 2.123779e-01 9.027998e-02 1 8 1 8 1 106178837 122743741 1 106178834 -3 122743761 20 9 9.939538e-01 0 1 64 0 27 1 106179045 208 122743921 180 6 8.641450e-01 0 7 70 0 18 1 1.500000e+00 LUSC-66-2756 297 3 0 108604427 3 0 133682007 long_range 25077580 8 0 0 0 26_samples:0 108604225 108604427 203 35 133681862 133682007 146 20 GUCA1C IGR: 22Kb before GUCA1C(-) SLCO2A1 Intron of SLCO2A1(-): 8Kb before exon 4 - 0 0 0 0 1 1 1 0 -1.069650e+00 -1.985384e+00 1 8 1 8 1 108604427 133682007 1 -1 -108604428 -1 -133682008 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -108604428 -1 -133682008 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2756 298 3 0 108641639 3 0 169371933 long_range 60730268 8 0 0 0 26_samples:0 108641392 108641625 234 48 169371679 169371893 215 48 GUCA1C Intron of GUCA1C(-): 2Kb before exon 2 MECOM Intron of MECOM(-): 9Kb after exon 1 - 6.000000e-02 7.000000e-02 0 0 3 1 2 0 -2.760136e-01 -2.760136e-01 1 8 1 8 1 108641625 169371893 1 108641639 14 169371933 40 3 9.709604e-01 0 2 72 0 29 1 -1 -108641626 -1 -169371894 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 299 3 1 124369728 3 1 197577130 long_range 73207366 8 0 0 0 26_samples:0 124369767 124370013 247 56 197577133 197577306 174 31 KALRN Exon 5 of KALRN(+) LRCH3 Intron of LRCH3(+): 2Kb after exon 12 - 0 0 2.000000e-02 0 2 2 2 1 2.123779e-01 -1.313846e+00 1 8 1 8 1 124369767 197577133 1 124369728 -39 197577130 -3 6 9.932329e-01 1 2 59 0 16 1 -1 -124369768 -1 -197577134 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 300 3 1 127796464 3 0 129577924 long_range 1781460 8 0 0 0 26_samples:0 127796464 127796660 197 44 129577724 129577924 201 40 RUVBL1 IGR: 3Kb before RUVBL1(-) TMCC1 5'-UTR of TMCC1(-): 31Kb before coding start - 0 0 0 0 1 0 3 1 -5.202094e-01 -7.644051e-01 1 8 1 8 1 127796464 129577924 1 -1 -127796465 -1 -129577925 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -127796465 -1 -129577925 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2756 301 3 0 128964998 3 0 129495658 inversion 530660 8 0 0 0 26_samples:0 128964764 128964998 235 51 129495390 129495658 269 56 COPG IGR: 3Kb before COPG(+) TMCC1 Intron of TMCC1(-): 51Kb after exon 3 - 3.000000e-02 5.000000e-02 0 3.000000e-02 2 1 2 1 -9.286683e-02 2.123779e-01 1 8 1 8 1 128964998 129495658 1 128964993 -5 129495696 38 1 1 0 12 117 0 32 1 -1 -128964999 -1 -129495659 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2756 302 3 0 129069212 3 1 197206457 long_range 68137245 8 0 0 0 26_samples:0 129069092 129069212 121 8 197206457 197206601 145 26 RPL32P3 IGR: 32Kb before RPL32P3(-) BDH1 IGR: 30Kb before BDH1(-) - 2.000000e-02 0 0 0 1 0 2 0 -2.717971e+00 -1.619090e+00 1 8 1 8 1 129069212 197206457 1 -1 -129069213 -1 -197206458 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -129069213 -1 -197206458 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2756 303 3 1 140656958 3 1 176189780 long_range 35532822 8 0 0 0 26_samples:0 140656958 140657157 200 52 176189780 176189994 215 43 SLC25A36 IGR: 4Kb before SLC25A36(+) TBL1XR1 IGR: 549Kb before TBL1XR1(-) - 5.000000e-02 9.000000e-02 0 0 3 2 2 2 -3.181789e-02 -5.812583e-01 1 8 1 8 1 140656958 176189780 1 140656885 -73 176189781 1 2 8.369284e-01 1 0 84 1 T 5 1 140656757 -201 176189626 -154 1 7.719147e-01 1 0 65 17 TCAATATCGTGAAAATG 12 0 4.166667e-01 LUSC-66-2756 306 4 0 181239794 4 1 181241236 deletion 1445 8 0 0 0 26_samples:0 181239544 181239791 248 58 181241236 181241541 306 66 MGC45800 IGR: 2Mb before MGC45800(-) MGC45800 IGR: 2Mb before MGC45800(-) - 0 0 0 0 1 0 1 1 3.344757e-01 8.228672e-01 1 8 1 8 1 181239791 181241236 1 181239794 3 181241236 0 8 9.977022e-01 0 4 75 0 10 1 -1 -181239792 -1 -181241237 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 307 5 1 42404895 5 0 44226332 long_range 1821428 8 0 0 0 26_samples:0 42404900 42405171 272 59 44226089 44226328 240 54 GHR IGR: 19Kb before GHR(+) FGF10 IGR: 79Kb before FGF10(-) - 0 0 0 0 1 0 2 0 3.955247e-01 9.027998e-02 1 8 1 8 1 42404900 44226328 1 42404895 -5 44226332 4 6 8.568156e-01 1 0 74 13 ATAGAAATTAATA 27 1 -1 -42404901 -1 -44226329 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 310 8 1 52731660 8 1 52742437 inversion 10773 8 0 0 0 26_samples:0 52731661 52731940 280 64 52742434 52742665 232 50 PCMTD1 3'-UTR of PCMTD1(-): 1Kb after coding stop PCMTD1 Intron of PCMTD1(-): 2Kb after exon 5 - 8.000000e-02 1.300000e-01 0 0 4 1 2 0 7.007694e-01 -1.539158e-01 1 8 1 8 1 52731661 52742434 1 52731660 -1 52742437 3 9 9.968948e-01 1 2 63 0 16 1 -1 -52731662 -1 -52742435 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 311 8 0 57543297 8 0 65877080 long_range 8333783 8 0 0 0 26_samples:0 57543107 57543297 191 41 65876869 65877080 212 37 PENK IGR: 190Kb before PENK(-) CYP7B1 IGR: 369Kb before CYP7B1(-) - 2.000000e-02 8.000000e-02 0 0 4 3 2 1 -7.033562e-01 -9.475520e-01 1 8 1 8 1 57543297 65877080 1 -1 -57543298 -1 -65877081 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -57543298 -1 -65877081 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2756 312 8 0 86254847 11 0 20405301 inter_chr NaN 8 0 0 0 26_samples:0 86254644 86254853 210 40 20405026 20405283 258 55 CA1 5'-UTR of CA1(-): 989bp before coding start HTATIP2 3'-UTR of HTATIP2(+): 532bp after coding stop - 0 0 0 0 2 1 1 1 -7.644051e-01 1.513289e-01 1 8 1 8 1 86254853 20405283 1 86254847 -6 20405301 18 6 9.916209e-01 0 1 69 0 15 1 -1 -86254854 -1 -20405284 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 317 9 1 33582622 9 0 33976352 tandem_dup 393618 8 0 0 0 26_samples:0 33582740 33582925 186 26 33976195 33976358 164 25 ANXA2P2 IGR: 41Kb before ANXA2P2(+) UBAP2 Intron of UBAP2(-): 3Kb before exon 7 - 1.000000e-01 9.000000e-02 0 0 2 1 2 0 -1.619090e+00 -1.680139e+00 1 8 1 8 1 33582740 33976358 1 33582622 -118 33976352 -6 9 9.957023e-01 1 0 73 0 22 1 -1 -33582741 -1 -33976359 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 308 5 1 163070966 5 1 167719966 long_range 4649047 8 0 0 0 26_samples:0 163070974 163071172 199 34 167720021 167720257 237 69 MAT2B IGR: 138Kb before MAT2B(+) WWC1 Intron of WWC1(+): 745bp after exon 1 - 0 0 0 0 2 3 2 0 -1.130699e+00 1.006014e+00 9.999998e-01 7.999998e+00 1 7.999998e+00 1 163070974 167720021 1 163070966 -8 167719966 -55 6 9.618558e-01 1 1 69 0 5 1 -1 -163070975 -1 -167720022 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 295 3 1 98659489 3 1 101424552 long_range 2765089 8 0 0 0 26_samples:0 98659495 98659762 268 70 101424584 101424795 212 40 DCBLD2 IGR: 39Kb after DCBLD2(-) LOC285359 IGR: 7Kb before LOC285359(+) - 2.000000e-02 0 0 0 1 0 1 1 1.067063e+00 -7.644051e-01 9.996985e-01 7.997588e+00 1 7.997588e+00 1 98659495 101424584 1 98659489 -6 101424552 -32 7 9.956494e-01 1 1 77 0 15 1 -1 -98659496 -1 -101424585 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 304 3 1 183405315 3 1 185045645 long_range 1640342 8 0 0 0 26_samples:0 183405326 183405597 272 70 185045668 185045910 243 57 KLHL24 IGR: 3Kb after KLHL24(+) MAP3K13 IGR: 35Kb before MAP3K13(+) - 0 3.000000e-02 5.000000e-02 2.000000e-02 2 0 2 1 1.067063e+00 2.734268e-01 9.996985e-01 7.997588e+00 1 7.997588e+00 1 183405326 185045668 1 183405315 -11 185045645 -23 3 9.827390e-01 1 4 74 0 7 1 -1 -183405327 -1 -185045669 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 313 9 0 26870240 9 1 28012750 long_range 1142509 8 0 0 0 26_samples:0 26870010 26870238 229 53 28012747 28013048 302 70 C9orf82 Intron of C9orf82(-): 9Kb before exon 5 LINGO2 5'-UTR of LINGO2(-): 62Kb before coding start Transcript fusion (LINGO2-C9orf82) 0 0 0 0 4 0 4 0 2.923105e-02 1.067063e+00 9.996985e-01 7.997588e+00 1 7.997588e+00 1 26870238 28012747 1 26870240 2 28012750 3 4 1 0 3 66 0 80 1 -1 -26870239 -1 -28012748 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 281 10 0 115920932 10 1 115924871 deletion 3980 9 0 0 0 26_samples:0 115920608 115920914 307 78 115924894 115925114 221 47 C10orf118 Intron of C10orf118(-): 1Kb after exon 2 C10orf118 5'-UTR of C10orf118(-): 2Kb before coding start Deletion within transcript 0 0 0 0 1 1 1 0 1.555454e+00 -3.370626e-01 8.536982e-01 7.683283e+00 1 7.683283e+00 1 115920914 115924894 1 115920932 18 115924871 -23 5 9.800209e-01 0 4 76 0 7 1 115921118 204 115924885 -9 1 8.938184e-01 0 3 75 0 20 1 3.500000e-01 LUSC-66-2756 315 9 0 27260516 9 1 28016310 deletion 755803 8 0 0 0 26_samples:0 27260278 27260511 234 53 28016314 28016586 273 59 NCRNA00032 3'-UTR of NCRNA00032(-): 22Kb after coding stop LINGO2 5'-UTR of LINGO2(-): 66Kb before coding start - 0 0 0 2.000000e-02 6 0 4 2 2.923105e-02 3.955247e-01 8.888889e-01 7.111111e+00 1 7.111111e+00 1 27260511 28016314 1 27260516 5 28016310 -4 3 1 0 1 75 0 74 1 -1 -27260512 -1 -28016315 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 213 3 0 183960188 3 1 197584230 long_range 13624042 11 0 0 0 26_samples:0 183959948 183960188 241 72 197584230 197584534 305 81 ALG3 3'-UTR of ALG3(-): 114bp after coding stop LRCH3 Intron of LRCH3(+): 1Kb before exon 15 - 0 0 2.000000e-02 3.000000e-02 1 0 3 0 1.230886e+00 1.811070e+00 6.441538e-01 7.085692e+00 1 7.085692e+00 1 183960188 197584230 1 183960219 31 197584058 -172 1 1.000001e+00 0 2 71 0 43 1 -1 -183960189 -1 -197584231 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2756 322 1 1 73099239 10 0 47672301 inter_chr NaN 7 0 0 0 26_samples:0 73099248 73099512 265 61 47672046 47672263 218 47 NEGR1 IGR: 351Kb after NEGR1(-) ANTXRL 5'-UTR of ANTXRL(+): 29Kb before coding start - 0 0 0 0 1 0 1 0 4.922648e-01 -2.663404e-01 1 7 1 7 1 73099248 47672263 1 73099239 -9 47672301 38 3 9.784420e-01 1 1 66 0 10 1 -1 -73099249 -1 -47672264 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 325 2 1 22839610 2 1 160342544 long_range 137502928 7 0 0 0 26_samples:0 22839629 22839852 224 50 160342557 160342821 265 61 KLHL29 IGR: 769Kb before KLHL29(+) BAZ2B 5'-UTR of BAZ2B(-): 7Kb before coding start - 0 0 0 0 2 0 2 0 -1.037821e-01 4.922648e-01 1 7 1 7 1 22839629 160342557 1 22839610 -19 160342544 -13 7 9.944762e-01 1 0 68 0 12 1 -1 -22839630 -1 -160342558 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 326 2 0 30312342 2 0 55435464 long_range 25123238 7 0 0 0 26_samples:0 30312050 30312231 182 34 55435344 55435469 126 9 YPEL5 IGR: 58Kb before YPEL5(+) C2orf63 Intron of C2orf63(-): 293bp after exon 6 - 0 3.000000e-02 1.000000e-02 0 2 0 3 1 -9.707595e-01 -2.325412e+00 1 7 1 7 1 30312231 55435469 1 30312342 111 55435464 -5 16 9.121377e-01 0 3 78 0 25 1 -1 -30312232 -1 -55435470 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 327 2 1 32510076 2 1 74519555 long_range 42009468 7 0 0 0 26_samples:0 32510088 32510359 272 59 74519556 74519795 240 51 YIPF4 Intron of YIPF4(+): 5Kb before exon 2 SLC4A5 Intron of SLC4A5(-): 7Kb before exon 8 Protein fusion: in frame (SLC4A5-YIPF4) 0 0 0 0 1 0 2 1 3.838926e-01 -4.959605e-02 1 7 1 7 1 32510088 74519556 1 32510076 -12 74519555 -1 5 9.738527e-01 1 1 71 0 15 1 -1 -32510089 -1 -74519557 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 329 2 1 4435929 2 0 54162539 long_range 49726527 7 0 0 0 26_samples:0 4435934 4436111 178 32 54162281 54162461 181 31 ALLC IGR: 730Kb before ALLC(+) PSME4 Intron of PSME4(-): 597bp before exon 8 - 0 0 0 0 2 1 4 0 -1.079132e+00 -1.133318e+00 1 7 1 7 1 4435934 54162461 1 4435929 -5 54162539 78 12 9.918499e-01 1 2 65 0 32 1 -1 -4435935 -1 -54162462 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 331 3 1 101017157 3 1 119629019 long_range 18611854 7 0 0 0 26_samples:0 101017167 101017439 273 66 119629021 119629258 238 54 IMPG2 Intron of IMPG2(-): 6Kb after exon 3 GSK3B Intron of GSK3B(-): 3Kb after exon 6 Antisense fusion 6.000000e-02 6.000000e-02 0 0 2 2 3 1 7.631952e-01 1.129622e-01 1 7 1 7 1 101017167 119629021 1 101017157 -10 119629019 -2 12 9.978734e-01 1 4 71 0 17 1 -1 -101017168 -1 -119629022 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 333 3 1 139837412 3 1 139918610 inversion 81198 7 0 0 0 26_samples:0 139837412 139837604 193 37 139918610 139918804 195 36 CLSTN2 Intron of CLSTN2(+): 57Kb before exon 2 CLSTN2 Intron of CLSTN2(+): 24Kb after exon 2 - 0 0 0 0 1 1 3 0 -8.082012e-01 -8.623873e-01 1 7 1 7 1 139837412 139918610 1 139837210 -202 139918489 -121 3 7.933671e-01 1 1 80 0 10 1 139837210 -202 139918489 -121 4 8.077106e-01 1 1 80 0 16 0 6.250000e-01 LUSC-66-2756 336 3 1 180324678 3 0 197580936 long_range 17256160 7 0 0 0 26_samples:0 180324782 180324967 186 34 197580764 197580942 179 39 TTC14 Intron of TTC14(+): 391bp after exon 9 LRCH3 Intron of LRCH3(+): 321bp before exon 14 Protein fusion: out of frame (LRCH3-TTC14) 0 0 0 0 1 1 1 0 -9.707595e-01 -6.998291e-01 1 7 1 7 1 180324782 197580942 1 180324678 -104 197580936 -6 9 9.835664e-01 1 0 80 0 16 1 -1 -180324783 -1 -197580943 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 339 3 0 182324294 22 0 17109824 inter_chr NaN 7 0 0 0 26_samples:0 182324056 182324248 193 39 17109565 17109807 243 49 ATP11B IGR: 187Kb before ATP11B(+) psiTPTE22 5'-UTR of psiTPTE22(+): 20Kb before coding start - 0 0 1.000000e-01 1.700000e-01 1 0 1 1 -6.998291e-01 -1.579682e-01 1 7 1 7 1 182324248 17109807 1 182324294 46 17109824 17 8 8.912729e-01 0 0 83 0 15 1 182324450 202 17109692 -115 1 8.852644e-01 0 1 81 0 21 1 7.142857e-01 LUSC-66-2756 341 4 1 162352144 4 0 162393821 tandem_dup 41671 7 0 0 0 26_samples:0 162352149 162352404 256 69 162393518 162393820 303 65 FSTL5 Intron of FSTL5(-): 24Kb after exon 15 FSTL5 Intron of FSTL5(-): 8Kb after exon 13 Duplication of 2 exons: out of frame 0 0 0 0 2 1 2 2 9.257535e-01 7.090091e-01 1 7 1 7 1 162352149 162393820 1 162352144 -5 162393821 1 10 9.953048e-01 1 1 74 0 11 1 -1 -162352150 -1 -162393821 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 344 5 0 4256879 5 0 19607649 long_range 15350786 7 0 0 0 26_samples:0 4256602 4256845 244 51 19607431 19607631 201 49 IRX1 IGR: 661Kb before IRX1(+) CDH18 Intron of CDH18(-): 5Kb after exon 6 - 0 0 0 0 3 0 3 0 -4.959605e-02 -1.579682e-01 1 7 1 7 1 4256845 19607631 1 4256879 34 19607649 18 10 9.902361e-01 0 3 74 0 25 1 -1 -4256846 -1 -19607632 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 345 5 1 19607414 5 0 55824512 long_range 36217031 7 0 0 0 26_samples:0 19607437 19607618 182 31 55824203 55824468 266 60 CDH18 Intron of CDH18(-): 5Kb after exon 6 MAP3K1 IGR: 286Kb before MAP3K1(+) - 0 0 0 0 3 0 3 0 -1.133318e+00 4.380787e-01 1 7 1 7 1 19607437 55824468 1 19607414 -23 55824512 44 8 9.861408e-01 1 2 65 0 35 1 -1 -19607438 -1 -55824469 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 346 5 0 51960340 5 1 51984957 deletion 24613 7 0 0 0 26_samples:0 51960048 51960342 295 63 51984955 51985204 250 50 PELO IGR: 123Kb before PELO(+) PELO IGR: 99Kb before PELO(+) - 0 0 0 0 2 0 3 1 6.006370e-01 -1.037821e-01 1 7 1 7 1 51960342 51984955 1 51960340 -2 51984957 2 9 9.962595e-01 0 4 90 0 29 1 -1 -51960343 -1 -51984956 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 347 5 0 155320501 5 0 156881967 long_range 1561466 7 0 0 0 26_samples:0 155320238 155320501 264 53 156881746 156881967 222 48 SGCD IGR: 433Kb before SGCD(+) NIPAL4 IGR: 5Kb before NIPAL4(+) - 0 0 0 0 2 1 1 0 5.877612e-02 -2.121543e-01 1 7 1 7 1 155320501 156881967 1 155320535 34 156881982 15 1 1 0 0 74 0 6 1 -1 -155320502 -1 -156881968 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2756 351 7 0 114964891 7 0 116079942 long_range 1114983 7 0 0 0 26_samples:0 114964728 114964873 146 17 116079684 116079856 173 26 MDFIC IGR: 403Kb before MDFIC(+) CAV2 IGR: 60Kb before CAV2(+) - 0 0 0 0 1 2 1 0 -1.891923e+00 -1.404248e+00 1 7 1 7 1 114964873 116079856 1 114964891 18 116079942 86 6 9.780716e-01 0 0 72 0 16 1 -1 -114964874 -1 -116079857 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 352 7 1 115577075 7 0 132423876 long_range 16846801 7 0 0 0 26_samples:0 115577075 115577343 269 56 132423609 132423876 268 65 TFEC 3'-UTR of TFEC(-): 4Kb after coding stop CHCHD3 IGR: 46Kb before CHCHD3(-) - 0 0 0 0 1 1 2 0 2.213344e-01 7.090091e-01 1 7 1 7 1 115577075 132423876 1 115577079 4 132423870 -6 1 1 1 1 66 0 15 1 -1 -115577076 -1 -132423877 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2756 353 8 1 56806262 8 1 58320776 long_range 1514484 7 0 0 0 26_samples:0 56806305 56806542 238 54 58320789 58321010 222 41 LYN 5'-UTR of LYN(+): 48Kb before coding start C8orf71 IGR: 129Kb before C8orf71(+) - 0 0 0 0 2 1 1 1 1.129622e-01 -5.914569e-01 1 7 1 7 1 56806305 58320789 1 56806262 -43 58320776 -13 9 9.903123e-01 1 3 74 0 20 1 -1 -56806306 -1 -58320790 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 356 8 1 121798598 8 0 122931316 long_range 1132698 7 0 0 0 26_samples:0 121798597 121798842 246 68 122931066 122931295 230 70 SNTB1 Intron of SNTB1(-): 25Kb after exon 1 HAS2AS IGR: 280Kb before HAS2AS(+) - 0 3.000000e-02 0 0 2 1 2 0 8.715674e-01 9.799396e-01 1 7 1 7 1 121798597 122931295 1 121798598 1 122931316 21 5 9.469120e-01 1 0 76 8 GTAACAAT 22 1 -1 -121798598 -1 -122931296 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 360 9 0 28011893 9 0 28020214 inversion 8358 7 0 0 0 26_samples:0 28011655 28011861 207 47 28020019 28020219 201 31 LINGO2 5'-UTR of LINGO2(-): 61Kb before coding start LINGO2 5'-UTR of LINGO2(-): 70Kb before coding start - 0 0 0 0 2 1 4 1 -2.663404e-01 -1.133318e+00 1 7 1 7 1 28011861 28020219 1 28011893 32 28020214 -5 7 9.706250e-01 0 0 75 0 77 1 -1 -28011862 -1 -28020220 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 362 9 0 29372090 9 1 121479281 long_range 92107248 7 0 0 0 26_samples:0 29371832 29372036 205 42 121479284 121479427 144 16 MIR873 IGR: 483Kb before MIR873(-) DBC1 IGR: 450Kb before DBC1(-) - 0 0 0 0 3 1 1 0 -5.372708e-01 -1.946109e+00 1 7 1 7 1 29372036 121479284 1 29372090 54 121479281 -3 3 9.966160e-01 0 4 70 0 8 1 -1 -29372037 -1 -121479285 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 364 9 0 134518368 12 1 517603 inter_chr NaN 7 0 0 0 26_samples:0 134518074 134518348 275 69 517612 517868 257 66 RAPGEF1 Intron of RAPGEF1(-): 278bp after exon 4 CCDC77 5'-UTR of CCDC77(+): 938bp before coding start - 0 0 5.000000e-02 4.000000e-02 1 0 4 1 9.257535e-01 7.631952e-01 1 7 1 7 1 134518348 517612 1 134518368 20 517603 -9 5 9.856164e-01 0 1 62 0 15 1 -1 -134518349 -1 -517613 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 365 10 0 54269381 10 0 56564641 long_range 2295260 7 0 0 0 26_samples:0 54269229 54269381 153 25 56564512 56564641 130 12 DKK1 IGR: 195Kb before DKK1(+) PCDH15 IGR: 4Kb after PCDH15(-) - 0 0 0 0 2 1 3 0 -1.458434e+00 -2.162853e+00 1 7 1 7 1 54269381 56564641 1 54269278 -103 56564851 210 2 9.552268e-01 0 13 66 0 9 1 54269278 -103 56564851 210 1 8.598124e-01 0 13 66 0 4 0 2.250000e+00 LUSC-66-2756 367 11 0 40935385 11 1 40936456 deletion 1127 7 0 0 0 26_samples:0 40935189 40935373 185 31 40936500 40936673 174 26 LRRC4C IGR: 800Kb before LRRC4C(-) LRRC4C IGR: 801Kb before LRRC4C(-) - 2.000000e-01 8.000000e-02 2.100000e-01 2.300000e-01 3 1 1 2 -1.133318e+00 -1.404248e+00 1 7 1 7 1 40935373 40936500 1 40935385 12 40936456 -44 8 9.302907e-01 0 1 73 2 TG 15 1 -1 -40935374 -1 -40936501 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 369 13 1 27395145 13 0 27688154 tandem_dup 293009 7 0 0 0 26_samples:0 27395145 27395338 194 39 27687939 27688154 216 39 GPR12 IGR: 60Kb after GPR12(-) USP12 Intron of USP12(-): 2Kb after exon 2 - 0 0 0 0 2 0 1 2 -6.998291e-01 -6.998291e-01 1 7 1 7 1 27395145 27688154 1 27395119 -26 27688166 12 1 9.389370e-01 1 0 64 1 T 5 1 -1 -27395146 -1 -27688155 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2756 373 23 1 92706655 23 0 93687204 tandem_dup 980535 7 0 0 0 26_samples:0 92706671 92706937 267 62 93686959 93687206 248 61 NAP1L3 IGR: 219Kb before NAP1L3(-) FAM133A IGR: 758Kb before FAM133A(+) - 0 0 0 0 1 0 1 1 5.464509e-01 4.922648e-01 1 7 1 7 1 92706671 93687206 1 92706655 -16 93687204 -2 5 9.978596e-01 1 3 76 0 9 1 -1 -92706672 -1 -93687207 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 330 3 1 96334426 3 1 97627208 long_range 1292798 7 0 0 0 26_samples:0 96334426 96334708 283 66 97627224 97627488 265 63 EPHA6 IGR: 199Kb before EPHA6(+) CRYBG3 Intron of CRYBG3(+): 4Kb before exon 13 - 0 0 1.200000e-01 2.700000e-01 2 1 2 2 7.631952e-01 6.006370e-01 9.936407e-01 6.955485e+00 1 6.955485e+00 1 96334426 97627224 1 96334426 0 97627208 -16 6 9.993173e-01 1 1 76 0 13 1 -1 -96334427 -1 -97627225 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 323 1 0 209571769 11 1 46747000 inter_chr NaN 7 0 0 0 26_samples:0 209571491 209571765 275 66 46747000 46747285 286 74 LOC642587 IGR: 30Kb before LOC642587(+) F2 Intron of F2(+): 409bp before exon 7 - 0 0 0 0 2 1 1 1 7.631952e-01 1.196684e+00 9.924488e-01 6.947142e+00 1 6.947142e+00 1 209571765 46747000 1 209571769 4 46747000 0 9 9.180595e-01 0 1 78 0 26 1 -1 -209571766 -1 -46747001 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 335 3 0 165437001 3 1 165479188 deletion 42186 7 0 0 0 26_samples:0 165436768 165437006 239 49 165479192 165479494 303 74 BCHE IGR: 54Kb before BCHE(-) BCHE IGR: 12Kb before BCHE(-) - 2.000000e-02 4.000000e-02 0 0 1 2 1 2 -1.579682e-01 1.196684e+00 9.924488e-01 6.947142e+00 1 6.947142e+00 1 165437006 165479192 1 165437001 -5 165479188 -4 5 1 0 2 69 0 14 1 -1 -165437007 -1 -165479193 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 337 3 1 138418230 5 0 136944545 inter_chr NaN 7 0 0 0 26_samples:0 138418243 138418453 211 58 136944296 136944537 242 61 PIK3CB Intron of PIK3CB(-): 306bp before exon 11 KLHL3 IGR: 9Kb before KLHL3(-) - 0 0 0 0 2 0 5 1 3.297065e-01 4.922648e-01 9.846154e-01 6.892308e+00 1 6.892308e+00 1 138418243 136944537 1 138418230 -13 136944545 8 3 9.902852e-01 1 0 72 0 23 1 -1 -138418244 -1 -136944538 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 338 3 0 140910082 10 0 56564561 inter_chr NaN 7 0 0 0 26_samples:0 140909965 140910082 118 13 56564381 56564561 181 29 ACPL2 IGR: 41Kb before ACPL2(+) PCDH15 IGR: 4Kb after PCDH15(-) - 0 0 0 0 5 1 3 0 -2.108667e+00 -1.241690e+00 9.846154e-01 6.892308e+00 1 6.892308e+00 1 140910082 56564561 1 140910081 -1 56564659 98 2 8.382257e-01 0 1 65 12 TACAGAACAAAT 28 1 -1 -140910083 -1 -56564562 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2756 340 4 1 40541251 4 0 40577767 tandem_dup 36492 7 0 0 0 26_samples:0 40541281 40541517 237 48 40577570 40577773 204 31 RBM47 5'-UTR of RBM47(-): 100Kb before coding start RBM47 5'-UTR of RBM47(-): 137Kb before coding start Duplication within transcript 3.000000e-02 0 3.000000e-02 0 5 0 2 0 -2.121543e-01 -1.133318e+00 9.846154e-01 6.892308e+00 1 6.892308e+00 1 40541281 40577773 1 40541251 -30 40577767 -6 5 9.958678e-01 1 1 76 0 12 1 -1 -40541282 -1 -40577774 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 361 9 0 28644234 9 0 28683106 inversion 38860 7 0 0 0 26_samples:0 28644003 28644203 201 39 28682842 28683063 222 39 LINGO2 5'-UTR of LINGO2(-): 694Kb before coding start LINGO2 5'-UTR of LINGO2(-): 732Kb before coding start - 1.000000e-02 3.000000e-02 0 0 5 0 4 0 -6.998291e-01 -6.998291e-01 9.846154e-01 6.892308e+00 1 6.892308e+00 1 28644203 28683063 1 28644234 31 28683106 43 7 9.119677e-01 0 0 73 0 81 1 -1 -28644204 -1 -28683064 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 328 2 0 54235891 2 1 55435336 long_range 1199482 7 0 0 0 26_samples:0 54235582 54235858 277 76 55435340 55435459 120 26 PSME4 IGR: 38Kb after PSME4(-) C2orf63 Intron of C2orf63(-): 422bp after exon 6 - 0 2.000000e-02 1.000000e-02 0 2 2 3 1 1.305056e+00 -1.404248e+00 9.723954e-01 6.806768e+00 1 6.806768e+00 1 54235858 55435340 1 54235891 33 55435336 -4 18 8.966221e-01 0 1 77 0 27 1 -1 -54235859 -1 -55435341 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 218 8 1 39780768 8 0 40114291 tandem_dup 333504 11 0 0 0 26_samples:0 39780790 39781073 284 73 40114055 40114294 240 54 IDO1 Intron of IDO1(+): 198bp before exon 7 C8orf4 IGR: 103Kb before C8orf4(+) - 3.000000e-02 6.000000e-02 0 0 3 7 6 1 1.295351e+00 7.052012e-02 6.094506e-01 6.703957e+00 1 6.703957e+00 1 39780790 40114294 1 39780768 -22 40114291 -3 13 9.563860e-01 1 0 79 1 A 31 1 -1 -39780791 -1 -40114295 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 355 8 0 108321550 8 1 108421276 deletion 99789 7 0 0 0 26_samples:0 108321259 108321493 235 69 108421282 108421517 236 78 ANGPT1 Intron of ANGPT1(-): 6Kb before exon 5 ANGPT1 Intron of ANGPT1(-): 62Kb before exon 2 Deletion of 3 exons: out of frame 0 0 0 0 2 0 1 0 9.257535e-01 1.413428e+00 9.339995e-01 6.537997e+00 1 6.537997e+00 1 108321493 108421282 1 108321550 57 108421276 -6 3 1.000001e+00 0 3 83 0 12 1 -1 -108321494 -1 -108421283 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 319 15 1 45669844 15 0 45878519 tandem_dup 208658 8 0 0 0 26_samples:0 45669867 45670095 229 63 45878230 45878525 296 79 GATM Intron of GATM(-): 716bp after exon 1 PLDN Promoter of PLDN(+): 892bp from tx start Antisense fusion 0 0 5.000000e-02 5.000000e-02 1 1 2 0 6.397204e-01 1.616503e+00 8.101637e-01 6.481310e+00 1 6.481310e+00 1 45669867 45878525 1 45669844 -23 45878519 -6 7 9.835817e-01 1 2 72 0 12 1 -1 -45669868 -1 -45878526 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 128 3 1 171071881 3 1 171271682 inversion 199790 17 0 0 0 26_samples:0 171071889 171072162 274 83 171271679 171271955 277 62 TNIK Intron of TNIK(-): 16Kb after exon 2 PLD1 IGR: 47Kb before PLD1(-) - 0 0 0 0 1 0 3 1 2.177977e+00 6.356271e-01 3.795650e-01 6.452605e+00 1 6.452605e+00 1 171071889 171271679 1 171071881 -8 171271682 3 11 9.884870e-01 1 0 75 0 20 1 171071718 -171 171271467 -212 4 8.259436e-01 1 11 67 0 7 1 2.857143e+00 LUSC-66-2756 354 8 0 57083906 8 1 65975247 long_range 8891345 7 0 0 0 26_samples:0 57083587 57083895 309 80 65975240 65975477 238 57 PLAG1 5'-UTR of PLAG1(-): 3Kb before coding start CYP7B1 IGR: 467Kb before CYP7B1(-) - 0 0 0 0 3 1 2 1 1.521800e+00 2.755205e-01 8.756003e-01 6.129202e+00 1 6.129202e+00 1 57083895 65975240 1 57083906 11 65975247 7 14 9.937544e-01 0 1 70 0 22 1 -1 -57083896 -1 -65975241 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 366 10 1 80538879 10 0 95329387 long_range 14790475 7 0 0 0 26_samples:0 80538874 80539142 269 74 95329090 95329349 260 80 LOC283050 IGR: 164Kb before LOC283050(-) GPR120 Intron of GPR120(+): 2Kb after exon 1 - 0 0 0 0 2 1 1 0 1.196684e+00 1.521800e+00 8.689885e-01 6.082920e+00 1 6.082920e+00 1 80538874 95329349 1 80538879 5 95329387 38 7 9.956230e-01 1 0 74 0 12 1 -1 -80538875 -1 -95329350 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 374 1 0 21156558 1 1 21247031 deletion 90486 6 0 0 0 26_samples:0 21156351 21156557 207 40 21247043 21247313 271 61 EIF4G3 Intron of EIF4G3(-): 792bp before exon 28 EIF4G3 Intron of EIF4G3(-): 16Kb before exon 12 Deletion of 16 exons: out of frame 0 0 0 0 1 1 1 0 -6.456430e-01 4.922648e-01 1 6 1 6 1 21156557 21247043 1 21156558 1 21247031 -12 6 9.705844e-01 0 3 73 0 10 1 -1 -21156558 -1 -21247044 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 376 2 0 33206593 2 1 40307071 long_range 7100608 6 0 0 0 26_samples:0 33206311 33206450 140 15 40307058 40307178 121 24 LTBP1 Intron of LTBP1(+): 32Kb after exon 2 SLC8A1 IGR: 32Kb before SLC8A1(-) - 0 0 3.000000e-02 0 2 0 2 0 -2.000295e+00 -1.512620e+00 1 6 1 6 1 33206450 40307058 1 33206593 143 40307071 13 19 9.939912e-01 0 5 74 0 29 1 -1 -33206451 -1 -40307059 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 377 2 1 55436501 2 1 95889162 long_range 40452661 6 0 0 0 26_samples:0 55436501 55436672 172 51 95889162 95889309 148 18 C2orf63 Intron of C2orf63(-): 39bp after exon 5 PROM2 IGR: 51Kb before PROM2(+) - 0 0 0 0 4 0 2 0 -4.959605e-02 -1.837737e+00 1 6 1 6 1 55436501 95889162 1 -1 -55436502 -1 -95889163 -1 -1 -1 -1 -1 -1 failed 0 1 55436420 -81 95888810 -352 6 8.735113e-01 1 1 76 2 AG 11 0 0 LUSC-66-2756 378 2 1 56704454 2 0 74517701 long_range 17813137 6 0 0 0 26_samples:0 56704468 56704629 162 31 74517413 74517605 193 46 CCDC85A IGR: 293Kb before CCDC85A(+) SLC4A5 Intron of SLC4A5(-): 5Kb before exon 8 - 0 0 0 0 1 0 2 1 -1.133318e+00 -3.205265e-01 1 6 1 6 1 56704468 74517605 1 56704454 -14 74517701 96 3 1 1 6 76 0 14 1 -1 -56704469 -1 -74517606 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 379 2 1 64044505 2 0 64328920 tandem_dup 284314 6 0 0 0 26_samples:0 64044550 64044725 176 41 64328665 64328864 200 41 UGP2 IGR: 24Kb before UGP2(+) PELI1 Intron of PELI1(-): 1Kb before exon 4 - 0 0 0 0 1 0 3 1 -5.914569e-01 -5.914569e-01 1 6 1 6 1 64044550 64328864 1 64044505 -45 64328920 56 7 8.856527e-01 1 0 64 0 9 1 64044493 -57 64329227 363 13 8.906918e-01 1 17 122 0 33 1 2.727273e-01 LUSC-66-2756 381 2 0 105351017 2 0 155935110 long_range 50584089 6 0 0 0 26_samples:0 105350793 105351019 227 58 155934850 155935108 259 68 POU3F3 IGR: 121Kb before POU3F3(+) KCNJ3 IGR: 380Kb before KCNJ3(+) - 0 0 3.000000e-02 3.000000e-02 2 1 1 0 3.297065e-01 8.715674e-01 1 6 1 6 1 105351019 155935108 1 105351017 -2 155935110 2 7 9.807942e-01 0 1 75 0 22 1 -1 -105351020 -1 -155935109 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 382 2 0 106342786 2 1 195586869 long_range 89244155 6 0 0 0 26_samples:0 106342518 106342711 194 45 195586866 195587083 218 41 NCK2 IGR: 19Kb before NCK2(+) SLC39A10 IGR: 935Kb before SLC39A10(+) - 0 0 0 0 1 1 1 0 -3.747126e-01 -5.914569e-01 1 6 1 6 1 106342711 195586866 1 106342786 75 195586869 3 5 8.817392e-01 0 0 66 0 14 1 -1 -106342712 -1 -195586867 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 383 2 1 197157562 2 0 199897673 long_range 2740071 6 0 0 0 26_samples:0 197157579 197157763 185 38 199897359 199897650 292 65 HECW2 Intron of HECW2(-): 105bp before exon 14 SATB2 IGR: 237Kb before SATB2(-) - 0 0 5.000000e-02 7.000000e-02 1 0 3 1 -7.540152e-01 7.090091e-01 1 6 1 6 1 197157579 199897650 1 197157562 -17 199897673 23 8 9.988690e-01 1 2 74 0 14 1 -1 -197157580 -1 -199897651 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 386 3 0 96346332 3 0 104982836 long_range 8636549 6 0 0 0 26_samples:0 96346032 96346297 266 63 104982621 104982846 226 53 EPHA6 IGR: 187Kb before EPHA6(+) ALCAM IGR: 103Kb before ALCAM(+) - 1.000000e-01 8.000000e-02 0 0 4 2 2 1 6.006370e-01 5.877612e-02 1 6 1 6 1 96346297 104982846 1 96346332 35 104982836 -10 9 9.964841e-01 0 1 75 0 16 1 -1 -96346298 -1 -104982847 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 388 3 0 127658519 3 0 133278680 long_range 5620161 6 0 0 0 26_samples:0 127658273 127658519 247 59 133278476 133278680 205 50 KBTBD12 Intron of KBTBD12(+): 9Kb after exon 3 CDV3 IGR: 14Kb before CDV3(+) - 0 0 4.000000e-02 1.400000e-01 2 0 2 1 3.838926e-01 -1.037821e-01 1 6 1 6 1 127658519 133278680 1 -1 -127658520 -1 -133278681 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -127658520 -1 -133278681 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2756 389 3 1 133682043 3 1 176057504 long_range 42375434 6 0 0 0 26_samples:0 133682098 133682302 205 57 176057532 176057741 210 48 SLCO2A1 Intron of SLCO2A1(-): 8Kb before exon 4 TBL1XR1 IGR: 681Kb before TBL1XR1(-) - 0 0 0 0 1 0 1 0 2.755205e-01 -2.121543e-01 1 6 1 6 1 133682098 176057532 1 133682043 -55 176057504 -28 13 9.548103e-01 1 1 77 15 GACTAGATACCAGTA 25 1 -1 -133682099 -1 -176057533 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 390 3 0 139918892 3 1 140138585 deletion 219785 6 0 0 0 26_samples:0 139918704 139918892 189 50 140138677 140138911 235 59 CLSTN2 Intron of CLSTN2(+): 24Kb after exon 2 CLSTN2 Intron of CLSTN2(+): 1Kb before exon 5 Deletion of 2 exons: in frame 0 0 2.000000e-02 0 3 1 2 1 -1.037821e-01 3.838926e-01 1 6 1 6 1 139918892 140138677 1 139918892 0 140138585 -92 4 9.479778e-01 0 2 68 0 14 1 -1 -139918893 -1 -140138678 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 391 3 1 183017688 3 0 185140017 long_range 2122329 6 0 0 0 26_samples:0 183017688 183017872 185 31 185139826 185140017 192 42 MCF2L2 Intron of MCF2L2(-): 105bp after exon 11 MAP3K13 5'-UTR of MAP3K13(+): 6Kb before coding start Antisense fusion 0 0 0 0 2 1 1 0 -1.133318e+00 -5.372708e-01 1 6 1 6 1 183017688 185140017 1 -1 -183017689 -1 -185140018 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -183017689 -1 -185140018 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2756 392 3 1 185473283 3 0 197203602 long_range 11730273 6 0 0 0 26_samples:0 185473320 185473521 202 38 197203339 197203593 255 69 IGF2BP2 Intron of IGF2BP2(-): 57Kb before exon 3 BDH1 IGR: 33Kb before BDH1(-) - 0 0 0 0 1 0 2 0 -7.540152e-01 9.257535e-01 1 6 1 6 1 185473320 197203593 1 185473283 -37 197203602 9 7 9.789228e-01 1 0 64 0 16 1 -1 -185473321 -1 -197203594 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 393 3 0 111065665 5 1 34710792 inter_chr NaN 6 0 0 0 26_samples:0 111065398 111065662 265 63 34710791 34711009 219 61 CD96 IGR: 195Kb before CD96(+) RAI14 Intron of RAI14(+): 22Kb after exon 4 - 0 2.000000e-02 0 0 2 0 2 0 6.006370e-01 4.922648e-01 1 6 1 6 1 111065662 34710791 1 111065665 3 34710792 1 3 1 0 2 68 0 8 1 -1 -111065663 -1 -34710792 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 394 3 1 120960244 10 1 73672267 inter_chr NaN 6 0 0 0 26_samples:0 120960244 120960416 173 40 73672267 73672429 163 45 STXBP5L Intron of STXBP5L(+): 890bp after exon 14 CHST3 IGR: 52Kb before CHST3(+) - 5.000000e-02 0 0 0 3 0 2 1 -6.456430e-01 -3.747126e-01 1 6 1 6 1 120960244 73672267 1 120960212 -32 73672199 -68 1 9.153087e-01 1 1 69 1 A 6 1 -1 -120960245 -1 -73672268 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2756 396 4 1 931124 4 0 1000449 tandem_dup 69264 6 0 0 0 26_samples:0 931164 931418 255 54 1000183 1000428 246 47 TMEM175 5'-UTR of TMEM175(+): 10Kb before coding start FGFRL1 IGR: 5Kb before FGFRL1(+) - 3.000000e-02 2.000000e-02 4.000000e-02 0 2 1 2 1 1.129622e-01 -2.663404e-01 1 6 1 6 1 931164 1000428 1 931124 -40 1000449 21 2 9.900817e-01 1 42 114 0 28 1 930813 -351 1000645 217 2 7.820245e-01 1 0 72 59 GAGAAATTGTGTTGTATGAAAGGATGAAAGAGGCCCTGACATGCATACAATTAAGGCAT 29 1 9.655172e-01 LUSC-66-2756 402 5 0 163076933 5 0 163078896 inversion 1978 6 0 0 0 26_samples:0 163076689 163076922 234 48 163078670 163078900 231 44 MAT2B IGR: 144Kb before MAT2B(+) MAT2B IGR: 146Kb before MAT2B(+) - 0 0 0 0 2 0 0 2 -2.121543e-01 -4.288986e-01 1 6 1 6 1 163076922 163078900 1 163076933 11 163078896 -4 4 9.882332e-01 0 2 73 0 9 1 163076718 -204 163079251 351 3 7.907781e-01 0 0 73 13 AAAACACAAACTA 23 1 3.913043e-01 LUSC-66-2756 406 7 1 148722632 7 1 148733674 inversion 11074 6 0 0 0 26_samples:0 148722626 148722888 263 54 148733700 148733955 256 53 PDIA4 Intron of PDIA4(-): 3Kb after exon 1 PDIA4 IGR: 8Kb after PDIA4(-) - 0 0 0 4.000000e-02 1 0 4 1 1.129622e-01 5.877612e-02 1 6 1 6 1 148722626 148733700 1 148722632 6 148733674 -26 3 9.908074e-01 1 1 65 0 19 1 -1 -148722627 -1 -148733701 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 407 7 0 27990249 8 0 108412605 inter_chr NaN 6 0 0 0 26_samples:0 27989919 27990195 277 69 108412404 108412601 198 55 JAZF1 Intron of JAZF1(-): 41Kb after exon 2 ANGPT1 Intron of ANGPT1(-): 53Kb before exon 2 - 0 0 0 0 2 3 4 1 9.257535e-01 1.671483e-01 1 6 1 6 1 27990195 108412601 1 27990249 54 108412605 4 10 9.907369e-01 0 3 85 0 21 1 -1 -27990196 -1 -108412602 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 409 8 1 47549474 8 0 47753766 tandem_dup 204292 6 0 0 0 26_samples:0 47549474 47549723 250 64 47753515 47753766 252 55 BEYLA IGR: 203Kb before BEYLA(+) BEYLA 5'-UTR of BEYLA(+): 12Kb before coding start - 0 0 1.000000e-02 0 2 1 1 0 6.548231e-01 1.671483e-01 1 6 1 6 1 47549474 47753766 1 47549645 171 47754118 352 8 8.530474e-01 1 17 108 0 38 1 47549645 171 47754118 352 6 8.715390e-01 1 17 108 0 26 0 1.461538e+00 LUSC-66-2756 410 8 0 51389245 8 1 51390666 deletion 1421 6 0 0 0 26_samples:0 51389111 51389245 135 20 51390666 51390831 166 44 SNTG1 Intron of SNTG1(+): 26Kb after exon 8 SNTG1 Intron of SNTG1(+): 25Kb before exon 9 Deletion within intron 0 0 0 0 2 2 1 2 -1.729365e+00 -4.288986e-01 1 6 1 6 1 51389245 51390666 1 -1 -51389246 -1 -51390667 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -51389246 -1 -51390667 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2756 411 8 0 65870917 8 0 65873243 inversion 2303 6 0 0 0 26_samples:0 65870655 65870897 243 50 65872980 65873200 221 48 CYP7B1 IGR: 362Kb before CYP7B1(-) CYP7B1 IGR: 365Kb before CYP7B1(-) - 1.100000e-01 1.000000e-01 1.300000e-01 2.000000e-01 4 1 2 1 -1.037821e-01 -2.121543e-01 1 6 1 6 1 65870897 65873200 1 65870917 20 65873243 43 3 9.909605e-01 0 2 63 0 45 1 -1 -65870898 -1 -65873201 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 413 8 1 117844715 8 1 117846488 inversion 1781 6 0 0 0 26_samples:0 117844715 117844906 192 52 117846496 117846746 251 62 RAD21 IGR: 13Kb before RAD21(-) RAD21 IGR: 12Kb before RAD21(-) - 0 0 0 0 0 0 1 0 4.590033e-03 5.464509e-01 1 6 1 6 1 117844715 117846496 1 117844715 0 117846488 -8 4 9.650637e-01 1 0 70 0 14 1 117844362 -353 117846203 -293 4 8.908236e-01 1 2 72 0 8 1 1.750000e+00 LUSC-66-2756 415 9 0 21846745 9 0 24314648 long_range 2467882 6 0 0 0 26_samples:0 21846524 21846743 220 57 24314342 24314625 284 69 MTAP Intron of MTAP(+): 8Kb before exon 6 ELAVL2 IGR: 489Kb after ELAVL2(-) - 0 0 0 0 1 1 2 0 2.755205e-01 9.257535e-01 1 6 1 6 1 21846743 24314625 1 21846745 2 24314648 23 4 9.721345e-01 0 3 68 0 12 1 21847095 352 24314586 -39 2 7.964596e-01 0 1 73 20 GACTGGCCTAGCCTCCCAGC 32 1 3.750000e-01 LUSC-66-2756 416 9 1 30863820 9 1 34631109 long_range 3767257 6 0 0 0 26_samples:0 30863859 30864059 201 39 34631116 34631361 246 56 ACO1 IGR: 2Mb before ACO1(+) SIGMAR1 IGR: 4Kb before SIGMAR1(-) - 0 0 0 0 2 0 2 0 -6.998291e-01 2.213344e-01 1 6 1 6 1 30863859 34631116 1 30863820 -39 34631109 -7 7 9.766873e-01 1 4 56 0 16 1 -1 -30863860 -1 -34631117 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 418 9 0 108442942 9 1 109393962 deletion 951062 6 0 0 0 26_samples:0 108442694 108442921 228 52 109393983 109394178 196 42 TMEM38B IGR: 14Kb before TMEM38B(+) ZNF462 IGR: 231Kb before ZNF462(+) - 0 0 0 0 3 0 1 2 4.590033e-03 -5.372708e-01 1 6 1 6 1 108442921 109393983 1 108442942 21 109393962 -21 10 9.814434e-01 0 1 62 0 13 1 -1 -108442922 -1 -109393984 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 421 11 0 67357447 17 0 3967994 inter_chr NaN 6 0 0 0 26_samples:0 67357144 67357364 221 43 3967819 3967988 170 38 GSTP1 IGR: 6Kb before GSTP1(+) ZZEF1 Exon 29 of ZZEF1(-) - 0 0 0 0 1 0 1 1 -4.830847e-01 -7.540152e-01 1 6 1 6 1 67357364 3967988 1 67357447 83 3967994 6 7 9.829002e-01 0 1 85 0 16 1 -1 -67357365 -1 -3967989 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 422 16 1 472077 16 0 1002266 tandem_dup 530162 6 0 0 0 26_samples:0 472091 472354 264 67 1002045 1002253 209 51 RAB11FIP3 IGR: 4Kb before RAB11FIP3(+) LMF1 Intron of LMF1(-): 2Kb after exon 2 - 6.000000e-02 6.000000e-02 0 0 2 1 2 0 8.173813e-01 -4.959605e-02 1 6 1 6 1 472091 1002253 1 472077 -14 1002266 13 9 9.298087e-01 1 2 74 0 15 1 -1 -472092 -1 -1002254 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 423 16 1 19228994 16 0 89518326 long_range 70289251 6 0 0 0 26_samples:0 19229012 19229247 236 67 89518048 89518263 216 51 SYT17 Intron of SYT17(+): 5Kb before exon 6 ANKRD11 5'-UTR of ANKRD11(-): 135Kb before coding start - 0 0 3.000000e-02 7.000000e-02 3 0 2 1 8.173813e-01 -4.959605e-02 1 6 1 6 1 19229012 89518263 1 19228994 -18 89518326 63 8 9.670610e-01 1 2 76 0 13 1 -1 -19229013 -1 -89518264 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 424 23 0 6613173 23 1 7030288 deletion 417151 6 0 0 0 26_samples:0 6612986 6613180 195 38 7030331 7030565 235 53 VCX3A IGR: 162Kb before VCX3A(-) HDHD1A Intron of HDHD1A(-): 5Kb after exon 2 - 0 0 0 0 2 1 1 0 -7.540152e-01 5.877612e-02 1 6 1 6 1 6613180 7030331 1 6613173 -7 7030288 -43 7 9.836200e-01 0 3 75 0 12 1 -1 -6613181 -1 -7030332 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 425 23 1 134319448 23 1 134339821 inversion 20363 6 0 0 0 26_samples:0 134319475 134319671 197 36 134339838 134340128 291 65 CXorf48 IGR: 29Kb before CXorf48(-) CXorf48 IGR: 49Kb before CXorf48(-) - 5.000000e-02 4.000000e-02 8.000000e-02 2.100000e-01 3 0 2 1 -8.623873e-01 7.090091e-01 1 6 1 6 1 134319475 134339838 1 134319448 -27 134339821 -17 9 9.912567e-01 1 2 75 0 16 1 -1 -134319476 -1 -134339839 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 404 5 1 137943915 5 1 163007141 long_range 25063226 6 0 0 0 26_samples:0 137943915 137944179 265 73 163007141 163007410 270 66 SNORD63 IGR: 47Kb before SNORD63(-) MAT2B IGR: 61Kb after MAT2B(+) - 0 0 0 0 1 0 2 0 1.142498e+00 7.631952e-01 9.971148e-01 5.982689e+00 1 5.982689e+00 1 137943915 163007141 1 137943917 2 163007114 -27 1 1 1 3 73 0 7 1 -1 -137943916 -1 -163007142 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2756 380 2 1 81943317 2 1 82784226 inversion 840916 6 0 0 0 26_samples:0 81943312 81943559 248 56 82784228 82784533 306 76 LOC1720 IGR: 1Mb before LOC1720(+) LOC1720 IGR: 300Kb before LOC1720(+) - 0 0 0 0 1 0 2 0 2.213344e-01 1.305056e+00 9.723954e-01 5.834372e+00 1 5.834372e+00 1 81943312 82784228 1 81943317 5 82784226 -2 10 9.991358e-01 1 2 66 0 13 1 81942960 -352 82783979 -249 3 8.368750e-01 1 1 78 0 11 1 1.181818e+00 LUSC-66-2756 420 11 1 34593812 11 0 34944605 tandem_dup 350783 6 0 0 0 26_samples:0 34593820 34594123 304 77 34944345 34944603 259 64 EHF IGR: 49Kb before EHF(+) PDHX Intron of PDHX(+): 6Kb after exon 1 - 0 0 0 0 1 0 3 0 1.359242e+00 6.548231e-01 9.556922e-01 5.734153e+00 1 5.734153e+00 1 34593820 34944603 1 34593812 -8 34944605 2 12 9.640572e-01 1 2 74 0 15 1 -1 -34593821 -1 -34944604 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 318 10 1 60617927 10 0 75447381 long_range 14829451 8 0 0 0 26_samples:0 60617932 60618179 248 47 75447110 75447383 274 59 BICC1 IGR: 29Kb after BICC1(+) AGAP5 Intron of AGAP5(-): 4Kb after exon 4 - 2.000000e-02 0 9.000000e-02 4.100000e-01 2 1 1 1 -3.370626e-01 3.955247e-01 7.094211e-01 5.675369e+00 1 5.675369e+00 1 60617932 75447383 1 60617927 -5 75447381 -2 15 9.535216e-01 1 3 70 28 TTAAATTAATGTATGTATAATAAGCATA 23 1 -1 -60617933 -1 -75447384 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 395 3 0 138810902 10 1 53020655 inter_chr NaN 6 0 0 0 26_samples:0 138810591 138810885 295 79 53020673 53020966 294 66 BPESC1 IGR: 12Kb before BPESC1(+) PRKG1 Intron of PRKG1(+): 108Kb after exon 2 - 0 0 0 0 1 1 1 1 1.467614e+00 7.631952e-01 9.072352e-01 5.443411e+00 1 5.443411e+00 1 138810885 53020673 1 138810902 17 53020655 -18 6 9.739979e-01 0 1 75 0 12 1 -1 -138810886 -1 -53020674 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 125 3 1 119933593 3 1 126576069 long_range 6642482 17 0 0 0 26_samples:0 119933588 119933911 324 81 126576070 126576369 300 78 GPR156 Intron of GPR156(-): 21Kb before exon 3 CHCHD6 Intron of CHCHD6(+): 4Kb after exon 5 Protein fusion: out of frame (GPR156-CHCHD6) 0 0 0 0 3 0 2 1 2.031086e+00 1.810751e+00 3.112077e-01 5.290531e+00 1 5.290531e+00 1 119933588 126576070 1 119933593 5 126576069 -1 13 9.909169e-01 1 1 68 0 15 1 119933406 -182 126575864 -206 5 8.249008e-01 1 6 71 0 7 1 2.142857e+00 LUSC-66-2756 385 3 1 48201369 3 0 48358883 tandem_dup 157499 6 0 0 0 26_samples:0 48201372 48201607 236 57 48358555 48358871 317 80 CDC25A Intron of CDC25A(-): 427bp before exon 14 SPINK8 Intron of SPINK8(-): 2Kb after exon 3 Protein fusion: in frame (CDC25A-SPINK8) 0 0 4.000000e-02 4.000000e-02 2 0 2 1 2.755205e-01 1.521800e+00 8.756003e-01 5.253602e+00 1 5.253602e+00 1 48201372 48358871 1 48201369 -3 48358883 12 8 9.706188e-01 1 3 79 0 10 1 -1 -48201373 -1 -48358872 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 66 22 1 20221223 22 0 20821670 tandem_dup 600454 26 0 0 0 26_samples:0 20221223 20221526 304 80 20821365 20821677 313 80 RTN4R IGR: 8Kb before RTN4R(-) KLHL22 Intron of KLHL22(-): 2Kb before exon 4 - 0 0 0 0 2 0 1 2 2.077914e+00 2.077914e+00 1.971056e-01 5.124744e+00 1 5.124744e+00 1 20221223 20821677 1 20221223 0 20821670 -7 10 9.591717e-01 1 2 78 0 40 1 -1 -20221224 -1 -20821678 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 159 9 1 27993176 9 1 28006033 inversion 12850 14 0 0 0 26_samples:0 27993178 27993447 270 58 28006028 28006340 313 84 LINGO2 5'-UTR of LINGO2(-): 43Kb before coding start LINGO2 5'-UTR of LINGO2(-): 55Kb before coding start Antisense fusion 0 0 0 0 6 0 4 1 3.399888e-01 2.138632e+00 3.589707e-01 5.025590e+00 1 5.025590e+00 1 27993178 28006028 1 27993176 -2 28006033 5 9 9.819868e-01 1 6 71 0 49 1 -1 -27993179 -1 -28006029 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 427 1 1 967310 1 0 1245425 tandem_dup 277987 5 0 0 0 26_samples:0 967349 967488 140 26 1245234 1245336 103 20 AGRN Intron of AGRN(+): 3Kb before exon 3 PUSL1 Intron of PUSL1(+): 105bp after exon 5 Protein fusion: out of frame (PUSL1-AGRN) 0 0 0 0 2 0 1 0 -1.273849e+00 -1.575462e+00 1 5 1 5 1 967349 1245336 1 967310 -39 1245425 89 4 9.504007e-01 1 2 75 0 10 1 967000 -349 1245150 -186 1 7.754239e-01 1 0 77 0 5 1 2 LUSC-66-2756 429 1 0 216806441 5 0 167767577 inter_chr NaN 5 0 0 0 26_samples:0 216806166 216806401 236 50 167767305 167767506 202 58 ESRRG Intron of ESRRG(-): 18Kb after exon 5 WWC1 Intron of WWC1(+): 31Kb before exon 2 Protein fusion: out of frame (WWC1-ESRRG) 0 0 0 0 1 0 1 1 -6.739615e-02 3.347548e-01 1 5 1 5 1 216806401 167767506 1 216806441 40 167767577 71 4 9.916988e-01 0 0 78 0 12 1 -1 -216806402 -1 -167767507 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 434 2 1 55275272 2 0 103838479 long_range 48563207 5 0 0 0 26_samples:0 55275272 55275452 181 51 103838354 103838479 126 25 RTN4 Intron of RTN4(-): 2Kb after exon 1 TMEM182 IGR: 460Kb before TMEM182(+) - 3.000000e-02 0 0 0 2 0 3 0 -1.712728e-02 -1.324118e+00 1 5 1 5 1 55275272 103838479 1 55275277 5 103838825 346 1 8.604840e-01 1 1 68 2 AA 20 1 -1 -55275273 -1 -103838480 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2756 435 2 1 99386011 2 0 99563506 tandem_dup 177364 5 0 0 0 26_samples:0 99386067 99386176 110 26 99563272 99563431 160 24 C2orf55 IGR: 24Kb before C2orf55(-) TSGA10 IGR: 50Kb before TSGA10(-) - 0 0 0 0 2 1 1 1 -1.273849e+00 -1.374387e+00 1 5 1 5 1 99386067 99563431 1 99386011 -56 99563506 75 3 1.000001e+00 1 2 80 0 12 1 -1 -99386068 -1 -99563432 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 436 2 1 117551308 2 0 158336719 long_range 40785411 5 0 0 0 26_samples:0 117551308 117551452 145 22 158336590 158336719 130 18 DDX18 IGR: 1Mb before DDX18(+) ACVR1C IGR: 47Kb before ACVR1C(-) - 0 0 0 0 3 1 2 0 -1.474925e+00 -1.676000e+00 1 5 1 5 1 117551308 158336719 1 -1 -117551309 -1 -158336720 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -117551309 -1 -158336720 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2756 439 3 0 125257563 3 0 149469138 long_range 24211592 5 0 0 0 26_samples:0 125257330 125257550 221 44 149468878 149469142 265 62 OSBPL11 Intron of OSBPL11(-): 73bp before exon 11 COMMD2 Intron of COMMD2(-): 48bp after exon 3 - 0 0 0 0 3 0 1 1 -3.690094e-01 5.358303e-01 1 5 1 5 1 125257550 149469142 1 125257563 13 149469138 -4 7 9.263545e-01 0 0 78 1 A 16 1 -1 -125257551 -1 -149469143 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 441 3 1 133672438 3 1 185143825 long_range 51471342 5 0 0 0 26_samples:0 133672513 133672623 111 4 185143855 185144020 166 31 SLCO2A1 Exon 5 of SLCO2A1(-) MAP3K13 5'-UTR of MAP3K13(+): 3Kb before coding start Protein fusion: mid-exon (SLCO2A1-MAP3K13) 0 0 3.000000e-02 6.000000e-02 1 1 2 0 -2.379764e+00 -1.022505e+00 1 5 1 5 1 133672513 185143855 1 133672438 -75 185143825 -30 4 8.637934e-01 1 0 81 45 ATCTTTTCACAAAAGATGTACACAAGACTCAGTACTCAACCAGAA 19 1 -1 -133672514 -1 -185143856 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 442 3 0 149477105 3 0 149739389 inversion 262320 5 0 0 0 26_samples:0 149476866 149477052 187 38 149739194 149739372 179 34 C3orf16 IGR: 2Kb before C3orf16(-) PFN2 IGR: 57Kb before PFN2(-) - 0 0 9.000000e-02 1.400000e-01 3 1 3 2 -6.706226e-01 -8.716981e-01 1 5 1 5 1 149477052 149739372 1 149477105 53 149739389 17 2 9.959471e-01 0 8 104 0 37 1 -1 -149477053 -1 -149739373 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 443 3 0 169377526 3 1 187936346 long_range 18558820 5 0 0 0 26_samples:0 169377369 169377526 158 26 187936346 187936578 233 47 MECOM Intron of MECOM(-): 4Kb after exon 1 LPP 5'-UTR of LPP(+): 188Kb before coding start - 0 0 0 0 2 0 1 0 -1.273849e+00 -2.182028e-01 1 5 1 5 1 169377526 187936346 1 169377530 4 187936312 -34 1 9.553141e-01 0 1 69 26 AAACTCCAGCAGTAACACAGATGGTA 24 1 -1 -169377527 -1 -187936347 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2756 444 3 1 169377365 3 0 197203652 long_range 27826287 5 0 0 0 26_samples:0 169377365 169377523 159 23 197203516 197203652 137 15 MECOM Intron of MECOM(-): 4Kb after exon 1 BDH1 IGR: 33Kb before BDH1(-) - 0 0 0 0 2 0 2 0 -1.424656e+00 -1.826807e+00 1 5 1 5 1 169377365 197203652 1 169377081 -284 197204002 350 1 8.135347e-01 1 0 69 0 3 1 -1 -169377366 -1 -197203653 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2756 445 3 0 171143522 3 0 171316326 inversion 172804 5 0 0 0 26_samples:0 171143359 171143522 164 30 171316205 171316326 122 13 TNIK Intron of TNIK(-): 34Kb after exon 1 PLD1 IGR: 2Kb before PLD1(-) - 3.000000e-02 5.000000e-02 0 0 2 1 2 0 -1.072774e+00 -1.927344e+00 1 5 1 5 1 171143522 171316326 1 171143609 87 171316337 11 2 7.691884e-01 0 0 56 28 ATATGGAGTTGAATATATATGTCTTCTT 32 1 -1 -171143523 -1 -171316327 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2756 446 3 0 183961351 3 1 197578082 long_range 13616817 5 0 0 0 26_samples:0 183961170 183961351 182 34 197578168 197578312 145 19 ALG3 Exon 7 of ALG3(-) LRCH3 Intron of LRCH3(+): 1Kb before exon 13 - 0 0 0 0 2 0 1 0 -8.716981e-01 -1.625731e+00 1 5 1 5 1 183961351 197578168 1 183961351 0 197578082 -86 3 9.508599e-01 0 1 73 13 TTTCAGCCAACAA 19 1 -1 -183961352 -1 -197578169 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 448 3 1 128555942 3 1 169375925 long_range 40819983 5 0 0 0 26_samples:0 128555942 128556090 149 26 169375925 169376049 125 17 ACAD9 IGR: 42Kb before ACAD9(+) MECOM Intron of MECOM(-): 5Kb after exon 1 - 0 3.000000e-02 0 0 2 1 3 0 -1.273849e+00 -1.726269e+00 1 5 1 5 1 128555942 169375925 1 128555886 -56 169375894 -31 3 7.794141e-01 1 0 69 0 11 1 -1 -128555943 -1 -169375926 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2756 450 3 0 140908872 10 0 44557518 inter_chr NaN 5 0 0 0 26_samples:0 140908687 140908872 186 32 44557351 44557518 168 26 ACPL2 IGR: 42Kb before ACPL2(+) HNRNPA3P1 IGR: 275Kb before HNRNPA3P1(-) - 0 0 0 0 4 0 2 1 -9.722358e-01 -1.273849e+00 1 5 1 5 1 140908872 44557518 1 -1 -140908873 -1 -44557519 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -140908873 -1 -44557519 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2756 451 4 1 2007422 8 0 141476814 inter_chr NaN 5 0 0 0 26_samples:0 2007418 2007689 272 65 141476533 141476805 273 65 WHSC2 Intron of WHSC2(-): 3Kb after exon 1 CHRAC1 IGR: 45Kb before CHRAC1(+) - 0 0 0 0 3 1 2 0 6.866369e-01 6.866369e-01 1 5 1 5 1 2007418 141476805 1 2007422 4 141476814 9 12 9.993318e-01 1 2 81 0 25 1 -1 -2007419 -1 -141476806 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 453 5 0 146816048 5 1 146832032 deletion 15984 5 0 0 0 26_samples:0 146815883 146816048 166 41 146832032 146832224 193 51 DPYSL3 Intron of DPYSL3(-): 12Kb before exon 2 DPYSL3 Intron of DPYSL3(-): 1Kb after exon 1 Deletion within intron 0 0 0 3.000000e-02 1 0 2 1 -5.198160e-01 -1.712728e-02 1 5 1 5 1 146816048 146832032 1 146816059 11 146831958 -74 1 1 0 2 64 0 7 1 146816023 -25 146831680 -352 4 8.081857e-01 0 1 69 1 A 11 0 6.363636e-01 LUSC-66-2756 454 5 0 155320289 5 1 156880634 long_range 1560413 5 0 0 0 26_samples:0 155319995 155320231 237 54 156880644 156880848 205 43 SGCD IGR: 434Kb before SGCD(+) NIPAL4 IGR: 6Kb before NIPAL4(+) - 0 0 2.000000e-02 6.000000e-02 2 0 3 2 1.336793e-01 -4.192782e-01 1 5 1 5 1 155320231 156880644 1 155320289 58 156880634 -10 4 9.989871e-01 0 2 75 0 18 1 -1 -155320232 -1 -156880645 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 458 7 1 99649409 7 0 99759427 tandem_dup 109972 5 0 0 0 26_samples:0 99649443 99649696 254 65 99759192 99759415 224 52 ZSCAN21 5'-UTR of ZSCAN21(+): 5Kb before coding start GAL3ST4 Intron of GAL3ST4(-): 833bp before exon 4 - 0 4.000000e-02 1.300000e-01 1.000000e-01 3 2 4 2 6.866369e-01 3.314159e-02 1 5 1 5 1 99649443 99759415 1 99649409 -34 99759427 12 8 9.427250e-01 1 2 74 0 14 1 -1 -99649444 -1 -99759416 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 459 7 1 116082753 7 0 132701150 long_range 16618334 5 0 0 0 26_samples:0 116082774 116082989 216 47 132700910 132701108 199 37 CAV2 IGR: 57Kb before CAV2(+) CHCHD3 Intron of CHCHD3(-): 8Kb after exon 3 - 3.000000e-02 0 0 0 1 1 1 0 -2.182028e-01 -7.208915e-01 1 5 1 5 1 116082774 132701108 1 116082753 -21 132701150 42 2 9.910919e-01 1 2 76 0 12 1 -1 -116082775 -1 -132701109 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 466 8 1 51389100 8 0 51390611 tandem_dup 1374 5 0 0 0 26_samples:0 51389120 51389236 117 25 51390330 51390494 165 29 SNTG1 Intron of SNTG1(+): 26Kb after exon 8 SNTG1 Intron of SNTG1(+): 25Kb before exon 9 Duplication within intron 0 0 0 0 2 2 2 1 -1.324118e+00 -1.123042e+00 1 5 1 5 1 51389120 51390494 1 51389100 -20 51390611 117 7 9.801483e-01 1 5 73 0 24 1 -1 -51389121 -1 -51390495 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 472 9 1 131103624 9 0 131398909 tandem_dup 295285 5 0 0 0 26_samples:0 131103624 131103846 223 48 131398648 131398909 262 68 SLC27A4 5'-UTR of SLC27A4(+): 2Kb before coding start WDR34 Intron of WDR34(-): 192bp before exon 4 - 0 0 0 0 1 0 1 0 -1.679339e-01 8.374435e-01 1 5 1 5 1 131103624 131398909 1 131103624 0 131398953 44 1 9.999998e-01 1 0 75 0 6 1 131103270 -354 131398975 66 3 8.006605e-01 1 4 81 0 8 0 7.500000e-01 LUSC-66-2756 473 10 0 54272505 10 1 56564791 long_range 2292297 5 0 0 0 26_samples:0 54272325 54272505 181 31 56564802 56565048 247 66 DKK1 IGR: 198Kb before DKK1(+) PCDH15 IGR: 4Kb after PCDH15(-) - 0 0 0 0 1 0 1 2 -1.022505e+00 7.369058e-01 1 5 1 5 1 54272505 56564802 1 54272505 0 56564791 -11 9 9.071668e-01 0 0 76 23 TTTTAGAAGAGATGGGGTTTCAC 25 1 -1 -54272506 -1 -56564803 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 477 12 1 57473270 12 0 57661712 tandem_dup 188413 5 0 0 0 26_samples:0 57473294 57473534 241 67 57661469 57661707 239 66 TMEM194A Promoter of TMEM194A(-): 720bp from tx start R3HDM2 Intron of R3HDM2(-): 379bp after exon 16 Transcript fusion (TMEM194A-R3HDM2) 0 0 0 0 1 1 1 0 7.871746e-01 7.369058e-01 1 5 1 5 1 57473294 57661707 1 57473270 -24 57661712 5 12 9.984262e-01 1 2 73 0 24 1 57472938 -356 57661558 -149 1 8.702816e-01 1 5 80 0 15 1 1.600000e+00 LUSC-66-2756 481 20 1 30578966 20 0 30703632 tandem_dup 124666 5 0 0 0 26_samples:0 30578966 30579156 191 50 30703522 30703632 111 35 XKR7 Intron of XKR7(+): 4Kb before exon 2 TM9SF4 Intron of TM9SF4(+): 6Kb after exon 1 Protein fusion: out of frame (TM9SF4-XKR7) 0 0 5.000000e-02 8.000000e-02 3 0 3 0 -6.739615e-02 -8.214292e-01 1 5 1 5 1 30578966 30703632 1 30578922 -44 30703714 82 1 1 1 1 73 0 14 1 30578614 -352 30703639 7 1 7.901595e-01 1 1 73 19 TTCAAACATTTCCCTAGGC 15 0 9.333333e-01 LUSC-66-2756 431 1 1 209572925 11 1 47568297 inter_chr NaN 5 0 0 0 26_samples:0 209572935 209573147 213 40 47568307 47568578 272 72 LOC642587 IGR: 29Kb before LOC642587(+) CELF1 5'-UTR of CELF1(-): 58Kb before coding start - 0 0 5.000000e-02 2.000000e-02 3 0 1 1 -5.700848e-01 1.038519e+00 9.999429e-01 4.999714e+00 1 4.999714e+00 1 209572935 47568307 1 209572925 -10 47568297 -10 9 9.818581e-01 1 3 78 1 T 19 1 -1 -209572936 -1 -47568308 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 476 12 0 16380500 12 1 16382401 deletion 1919 5 0 0 0 26_samples:0 16380209 16380489 281 73 16382408 16382645 238 72 SLC15A5 Intron of SLC15A5(-): 3Kb before exon 6 SLC15A5 Intron of SLC15A5(-): 5Kb before exon 6 Deletion within intron 0 0 0 0 1 0 1 0 1.088788e+00 1.038519e+00 9.992434e-01 4.996217e+00 1 4.996217e+00 1 16380489 16382408 1 16380500 11 16382401 -7 10 9.991865e-01 0 1 69 0 12 1 -1 -16380490 -1 -16382409 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 478 12 1 71444466 12 0 71691827 tandem_dup 247327 5 0 0 0 26_samples:0 71444483 71444694 212 74 71691576 71691810 235 61 TSPAN8 IGR: 74Kb before TSPAN8(-) LGR5 IGR: 142Kb before LGR5(+) - 0 0 0 0 1 0 2 0 1.139057e+00 4.855614e-01 9.973183e-01 4.986592e+00 1 4.986592e+00 1 71444483 71691810 1 71444466 -17 71691827 17 3 1 1 2 72 0 15 1 -1 -71444484 -1 -71691811 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 440 3 1 128556306 3 1 186678897 long_range 58122555 5 0 0 0 26_samples:0 128556338 128556614 277 73 186678893 186679147 255 74 ACAD9 IGR: 42Kb before ACAD9(+) ST6GAL1 5'-UTR of ST6GAL1(+): 82Kb before coding start - 6.000000e-02 1.000000e-01 0 3.000000e-02 3 0 3 0 1.088788e+00 1.139057e+00 9.966207e-01 4.983104e+00 1 4.983104e+00 1 128556338 186678893 1 128556306 -32 186678897 4 8 9.464096e-01 1 0 80 0 9 1 -1 -128556339 -1 -186678894 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 452 5 1 9886403 5 0 19612013 long_range 9725516 5 0 0 0 26_samples:0 9886495 9886688 194 39 19611816 19612011 196 38 LOC285692 3'-UTR of LOC285692(-): 17Kb after coding stop CDH18 Intron of CDH18(-): 532bp after exon 6 - 1.000000e-02 5.000000e-02 0 0 2 1 5 0 -6.203537e-01 -6.706226e-01 9.846154e-01 4.923077e+00 1 4.923077e+00 1 9886495 19612011 1 9886403 -92 19612013 2 3 9.636035e-01 1 1 64 9 TGTGAGCTC 10 1 9886146 -349 19612158 147 2 8.322991e-01 1 0 72 0 11 1 9.090909e-01 LUSC-66-2756 461 7 0 144713896 7 0 144716522 inversion 2599 5 0 0 0 26_samples:0 144713675 144713892 218 79 144716244 144716491 248 67 TPK1 IGR: 181Kb after TPK1(-) TPK1 IGR: 183Kb after TPK1(-) - 0 0 1.000000e-01 2.500000e-01 1 1 1 2 1.390401e+00 7.871746e-01 9.438395e-01 4.719197e+00 1 4.719197e+00 1 144713892 144716491 1 144713896 4 144716522 31 3 8.921564e-01 0 1 65 15 CAGCACTTAAGAGTG 21 1 -1 -144713893 -1 -144716492 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 482 22 1 18925809 22 0 21355017 long_range 2429208 5 0 0 0 26_samples:0 18925809 18926056 248 79 21354796 21355017 222 51 PRODH Promoter of PRODH(-): 2Kb from tx start THAP7 Exon 3 of THAP7(-) Protein fusion: mid-exon (PRODH-THAP7) 5.000000e-02 5.000000e-02 0 0 2 1 3 1 1.390401e+00 -1.712728e-02 9.438395e-01 4.719197e+00 1 4.719197e+00 1 18925809 21355017 1 18925807 -2 21355046 29 1 9.667242e-01 1 5 75 0 16 1 -1 -18925810 -1 -21355018 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2756 177 9 1 27886479 9 0 28014967 tandem_dup 128494 13 0 0 0 26_samples:0 27886476 27886816 341 85 28014715 28014970 256 67 LINGO2 IGR: 62Kb before LINGO2(-) LINGO2 5'-UTR of LINGO2(-): 64Kb before coding start - 0 0 0 0 4 1 4 0 2.207810e+00 9.625960e-01 3.620616e-01 4.706801e+00 1 4.706801e+00 1 27886476 28014970 1 27886479 3 28014967 -3 8 9.775245e-01 1 5 70 0 83 1 -1 -27886477 -1 -28014971 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 371 19 1 42157538 19 0 42506900 tandem_dup 349333 7 0 0 0 26_samples:0 42157545 42157832 288 84 42506625 42506878 254 78 CEACAM7 IGR: 20Kb before CEACAM7(-) GRIK5 Intron of GRIK5(-): 606bp after exon 18 - 0 0 0 0 3 0 2 1 1.738545e+00 1.413428e+00 6.657929e-01 4.660550e+00 1 4.660550e+00 1 42157545 42506878 1 42157538 -7 42506900 22 6 9.820800e-01 1 2 66 0 13 1 -1 -42157546 -1 -42506879 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 433 2 0 40307070 2 1 57620756 long_range 17313710 5 0 0 0 26_samples:0 40306773 40307041 269 78 57620751 57621025 275 79 SLC8A1 IGR: 32Kb before SLC8A1(-) VRK2 IGR: 653Kb before VRK2(+) - 0 0 0 0 2 0 1 1 1.340132e+00 1.390401e+00 9.081056e-01 4.540528e+00 1 4.540528e+00 1 40307041 57620751 1 40307070 29 57620756 5 13 9.922202e-01 0 7 79 0 21 1 -1 -40307042 -1 -57620752 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 469 8 1 56068098 12 1 63374202 inter_chr NaN 5 0 0 0 26_samples:0 56068097 56068388 292 81 63374221 63374490 270 72 XKR4 Intron of XKR4(+): 52Kb after exon 1 PPM1H IGR: 46Kb after PPM1H(-) - 0 0 0 0 2 2 1 1 1.490939e+00 1.038519e+00 8.941421e-01 4.470711e+00 1 4.470711e+00 1 56068097 63374221 1 56068098 1 63374202 -19 3 9.787286e-01 1 3 67 0 16 1 56067743 -354 63373960 -261 1 8.839063e-01 1 5 74 0 14 1 1.142857e+00 LUSC-66-2756 480 19 1 58851941 19 0 59025483 tandem_dup 173482 5 0 0 0 26_samples:0 58851963 58852183 221 67 59025181 59025445 265 82 ZSCAN22 3'-UTR of ZSCAN22(+): 1Kb after coding stop ZBTB45 Exon 3 of ZBTB45(-) - 1.400000e-01 1.500000e-01 0 0 3 3 4 1 7.871746e-01 1.541208e+00 8.631681e-01 4.315841e+00 1 4.315841e+00 1 58851963 59025445 1 58851941 -22 59025483 38 4 9.873934e-01 1 4 81 0 11 1 -1 -58851964 -1 -59025446 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 387 3 1 121889208 3 1 190117355 long_range 68228141 6 0 0 0 26_samples:0 121889224 121889488 265 65 190117365 190117628 264 84 CASR IGR: 13Kb before CASR(+) CLDN16 Intron of CLDN16(+): 3Kb before exon 2 - 0 0 0 0 1 2 2 1 7.090091e-01 1.738545e+00 7.128407e-01 4.277044e+00 1 4.277044e+00 1 121889224 190117365 1 121889208 -16 190117355 -10 3 1 1 1 75 0 5 1 -1 -121889225 -1 -190117366 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 398 4 0 141791196 4 1 141818211 deletion 27012 6 0 0 0 26_samples:0 141790891 141791192 302 84 141818204 141818436 233 50 RNF150 Intron of RNF150(-): 2Kb before exon 7 RNF150 Intron of RNF150(-): 14Kb after exon 6 Deletion within intron 0 0 0 0 2 0 1 0 1.738545e+00 -1.037821e-01 7.128407e-01 4.277044e+00 1 4.277044e+00 1 141791192 141818204 1 141791196 4 141818211 7 6 9.820116e-01 0 1 68 0 9 1 141791120 -72 141817848 -356 4 8.387393e-01 0 5 82 0 10 1 9.000000e-01 LUSC-66-2756 332 3 1 122869464 3 0 122896642 tandem_dup 27174 7 0 0 0 26_samples:0 122869466 122869767 302 86 122896352 122896640 289 74 PDIA5 Intron of PDIA5(+): 255bp after exon 14 SEC22A IGR: 24Kb before SEC22A(+) - 0 0 4.000000e-02 3.000000e-02 1 1 5 0 1.846917e+00 1.196684e+00 6.079009e-01 4.255306e+00 1 4.255306e+00 1 122869466 122896640 1 122869464 -2 122896642 2 6 9.648813e-01 1 5 78 0 21 1 -1 -122869467 -1 -122896641 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 231 2 1 136978872 2 0 163742601 long_range 26763720 10 0 0 0 26_samples:0 136978885 136979122 238 52 163742270 163742605 336 86 CXCR4 IGR: 107Kb before CXCR4(-) KCNH7 IGR: 47Kb after KCNH7(-) - 3.000000e-02 8.000000e-02 0 0 2 2 2 0 -5.840947e-02 2.133394e+00 4.071768e-01 4.071768e+00 1 4.071768e+00 1 136978885 163742605 1 136978872 -13 163742601 -4 4 9.489506e-01 1 2 75 0 21 1 -1 -136978886 -1 -163742606 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 83 3 0 134135187 3 0 138461802 long_range 4326614 22 0 0 0 26_samples:0 134134899 134135190 292 57 138461512 138461804 293 60 AMOTL2 IGR: 61Kb before AMOTL2(-) PIK3CB Intron of PIK3CB(-): 181bp before exon 3 - 2.000000e-02 0 0 0 3 1 11 1 2.686528e-01 5.046434e-01 1.845078e-01 4.059171e+00 1 4.059171e+00 1 134135190 138461804 1 134135187 -3 138461802 -2 10 9.980793e-01 0 1 77 0 28 1 -1 -134135191 -1 -138461805 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 334 3 0 140656732 3 1 183958858 long_range 43302151 7 0 0 0 26_samples:0 140656485 140656731 247 60 183958882 183959166 285 87 SLC25A36 IGR: 4Kb before SLC25A36(+) VWA5B2 Exon 17 of VWA5B2(+) - 2.000000e-02 6.000000e-02 0 0 3 2 2 0 4.380787e-01 1.901103e+00 5.774727e-01 4.042309e+00 1 4.042309e+00 1 140656731 183958882 1 140656732 1 183958858 -24 5 9.750639e-01 0 3 72 0 12 1 -1 -140656732 -1 -183958883 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 484 1 0 38783675 1 1 38784639 deletion 1027 4 0 0 0 26_samples:0 38783464 38783637 174 40 38784664 38784862 199 57 POU3F1 IGR: 274Kb before POU3F1(-) POU3F1 IGR: 275Kb before POU3F1(-) - 0 0 0 5.000000e-02 0 0 1 1 -4.643269e-01 2.950292e-01 1 4 1 4 1 38783637 38784664 1 38783675 38 38784639 -25 3 8.958565e-01 0 1 76 0 9 1 -1 -38783638 -1 -38784665 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 496 2 0 4435936 2 0 54162940 long_range 49727050 4 0 0 0 26_samples:0 4435740 4435884 145 41 54162723 54162934 212 58 ALLC IGR: 730Kb before ALLC(+) PSME4 Intron of PSME4(-): 290bp after exon 7 - 0 0 0 0 2 0 3 0 -4.196589e-01 3.396972e-01 1 4 1 4 1 4435884 54162934 1 4435936 52 54162940 6 5 9.956968e-01 0 2 71 0 19 1 -1 -4435885 -1 -54162935 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 497 2 0 33207442 2 0 40307180 long_range 7099908 4 0 0 0 26_samples:0 33207149 33207268 120 25 40307081 40307176 96 8 LTBP1 Intron of LTBP1(+): 33Kb after exon 2 SLC8A1 IGR: 32Kb before SLC8A1(-) - 2.000000e-02 6.000000e-02 3.000000e-02 0 1 0 2 0 -1.134347e+00 -1.893703e+00 1 4 1 4 1 33207268 40307176 1 33207442 174 40307180 4 18 9.105762e-01 0 0 77 1 G 41 1 33207442 174 40307180 4 1 8.730732e-01 0 0 77 1 G 15 1 2.733333e+00 LUSC-66-2756 498 2 0 50235329 2 0 95888878 long_range 45653523 4 0 0 0 26_samples:0 50235088 50235320 233 61 95888647 95888843 197 42 NRXN1 Intron of NRXN1(-): 45Kb after exon 22 PROM2 IGR: 51Kb before PROM2(+) - 0 0 0 0 2 1 2 2 4.737013e-01 -3.749909e-01 1 4 1 4 1 50235320 95888843 1 50235329 9 95888878 35 10 9.891687e-01 0 3 74 0 17 1 -1 -50235321 -1 -95888844 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 499 2 0 66884599 2 1 66890605 deletion 6006 4 0 0 0 26_samples:0 66884414 66884599 186 37 66890605 66890811 207 44 MEIS1 IGR: 222Kb before MEIS1(+) MEIS1 IGR: 228Kb before MEIS1(+) - 3.000000e-02 0 0 0 1 1 0 0 -5.983309e-01 -2.856549e-01 1 4 1 4 1 66884599 66890605 1 66884636 37 66890586 -19 1 9.103525e-01 0 1 68 0 8 1 -1 -66884600 -1 -66890606 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2756 500 2 1 105350306 2 0 113898508 long_range 8548202 4 0 0 0 26_samples:0 105350306 105350432 127 17 113898327 113898508 182 41 POU3F3 IGR: 122Kb before POU3F3(+) IL1RN IGR: 7Kb after IL1RN(+) - 0 0 0 4.000000e-02 1 0 1 1 -1.491691e+00 -4.196589e-01 1 4 1 4 1 105350306 113898508 1 105350310 4 113898605 97 1 9.140651e-01 1 1 82 12 TAAGTTTGTTAA 14 1 -1 -105350307 -1 -113898509 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2756 501 2 1 29001891 2 1 55434622 long_range 26432682 4 0 0 0 26_samples:0 29001985 29002120 136 18 55434667 55434814 148 20 PPP1CB Intron of PPP1CB(+): 80bp after exon 3 C2orf63 Intron of C2orf63(-): 1Kb after exon 6 Protein fusion: out of frame (C2orf63-PPP1CB) 0 0 0 0 2 0 3 0 -1.447023e+00 -1.357687e+00 1 4 1 4 1 29001985 55434667 1 29001891 -94 55434622 -45 6 9.476573e-01 1 2 71 0 8 1 -1 -29001986 -1 -55434668 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 510 3 1 128421690 3 0 138163053 long_range 9741363 4 0 0 0 26_samples:0 128421690 128421826 137 26 138162903 138163053 151 22 RAB7A IGR: 23Kb before RAB7A(+) ESYT3 Intron of ESYT3(+): 8Kb before exon 2 - 4.000000e-02 1.000000e-01 0 0 2 1 3 0 -1.089679e+00 -1.268351e+00 1 4 1 4 1 128421690 138163053 1 -1 -128421691 -1 -138163054 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -128421691 -1 -138163054 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2756 511 3 1 129576140 3 0 176191508 long_range 46615368 4 0 0 0 26_samples:0 129576140 129576309 170 35 176191275 176191508 234 62 TMCC1 5'-UTR of TMCC1(-): 29Kb before coding start TBL1XR1 IGR: 547Kb before TBL1XR1(-) - 0 0 0 4.000000e-02 2 1 3 0 -6.876669e-01 5.183693e-01 1 4 1 4 1 129576140 176191508 1 129575789 -351 176191507 -1 2 7.591944e-01 1 0 66 1 T 8 1 129575787 -353 176191476 -32 1 8.344905e-01 1 2 54 0 0 0 Inf LUSC-66-2756 513 3 0 130051969 3 0 130075671 inversion 23733 4 0 0 0 26_samples:0 130051758 130051920 163 46 130075407 130075653 247 63 COL6A5 IGR: 12Kb before COL6A5(+) COL6A5 5'-UTR of COL6A5(+): 17Kb before coding start - 0 0 0 0 2 1 2 1 -1.963189e-01 5.630373e-01 1 4 1 4 1 130051920 130075653 1 130051969 49 130075671 18 3 9.944327e-01 0 3 75 0 24 1 -1 -130051921 -1 -130075654 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 514 3 0 133665424 3 0 197341870 long_range 63676446 4 0 0 0 26_samples:0 133665262 133665424 163 28 197341712 197341870 159 28 SLCO2A1 Intron of SLCO2A1(-): 676bp after exon 9 LOC220729 3'-UTR of LOC220729(-): 13Kb after coding stop - 0 0 1.000000e-02 2.000000e-02 2 0 1 0 -1.000343e+00 -1.000343e+00 1 4 1 4 1 133665424 197341870 1 133665439 15 197342220 350 1 8.837544e-01 0 0 72 2 CA 16 1 -1 -133665425 -1 -197341871 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2756 515 3 1 140656360 3 0 183962952 long_range 43306429 4 0 0 0 26_samples:0 140656504 140656658 155 25 183962843 183962933 91 8 SLC25A36 IGR: 4Kb before SLC25A36(+) ALG3 Intron of ALG3(-): 53bp after exon 4 - 2.000000e-02 6.000000e-02 0 0 3 2 1 0 -1.134347e+00 -1.893703e+00 1 4 1 4 1 140656504 183962933 1 140656360 -144 183962952 19 7 1 1 5 73 0 19 1 -1 -140656505 -1 -183962934 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 516 3 0 141039103 3 0 180496788 long_range 39457685 4 0 0 0 26_samples:0 141038873 141039103 231 60 180496591 180496788 198 53 ZBTB38 IGR: 4Kb before ZBTB38(+) FXR1 IGR: 133Kb before FXR1(+) - 0 5.000000e-02 0 0 2 1 1 0 4.290332e-01 1.163572e-01 1 4 1 4 1 141039103 180496788 1 141039442 339 180497138 350 2 9.081720e-01 0 0 67 0 15 1 141039441 338 180497141 353 1 8.395603e-01 0 2 68 0 13 0 1.153846e+00 LUSC-66-2756 517 3 0 179119979 3 1 187266823 long_range 8146844 4 0 0 0 26_samples:0 179119733 179119979 247 71 187266823 187267079 257 71 GNB4 Intron of GNB4(-): 872bp before exon 10 SST IGR: 120Kb before SST(-) - 0 0 0 0 2 0 4 0 9.203813e-01 9.203813e-01 1 4 1 4 1 179119979 187266823 1 179119985 6 187266820 -3 1 8.584669e-01 0 0 67 41 GGGTATTTGAATACAAAGAAATTAGAAGTTAAATAATGTAT 12 1 -1 -179119980 -1 -187266824 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2756 518 3 1 183961165 3 0 197579349 long_range 13618184 4 0 0 0 26_samples:0 183961165 183961304 140 25 197579223 197579349 127 12 ALG3 Intron of ALG3(-): 177bp after exon 7 LRCH3 Intron of LRCH3(+): 83bp before exon 13 Antisense fusion 0 0 0 0 2 0 1 1 -1.134347e+00 -1.715031e+00 1 4 1 4 1 183961165 197579349 1 -1 -183961166 -1 -197579350 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -183961166 -1 -197579350 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2756 519 3 1 186775753 3 0 187932426 long_range 1156673 4 0 0 0 26_samples:0 186775753 186775968 216 58 187932222 187932426 205 49 ST6GAL1 Intron of ST6GAL1(+): 7Kb after exon 4 LPP 5'-UTR of LPP(+): 191Kb before coding start Transcript fusion (LPP-ST6GAL1) 3.000000e-02 5.000000e-02 0 0 2 1 2 0 3.396972e-01 -6.231484e-02 1 4 1 4 1 186775753 187932426 1 -1 -186775754 -1 -187932427 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -186775754 -1 -187932427 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2756 520 3 1 195423033 3 0 197597551 long_range 2174518 4 0 0 0 26_samples:0 195423033 195423203 171 39 197597388 197597551 164 43 MIR570 IGR: 3Kb before MIR570(+) LRCH3 Intron of LRCH3(+): 402bp after exon 18 - 4.000000e-02 3.000000e-02 0 3.000000e-02 4 2 3 0 -5.089949e-01 -3.303229e-01 1 4 1 4 1 195423033 197597551 1 195423014 -19 197597624 73 1 8.451386e-01 1 0 71 9 AGGTAATTG 10 1 -1 -195423034 -1 -197597552 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2756 522 3 0 134332135 3 0 195468369 long_range 61136234 4 0 0 0 26_samples:0 134331960 134332135 176 33 195468215 195468369 155 22 KY Intron of KY(-): 3Kb before exon 9 MUC4 IGR: 5Kb before MUC4(-) - 0 0 0 9.000000e-02 1 1 4 1 -7.770030e-01 -1.268351e+00 1 4 1 4 1 134332135 195468369 1 -1 -134332136 -1 -195468370 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -134332136 -1 -195468370 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2756 524 3 0 176034345 5 0 42000340 inter_chr NaN 4 0 0 0 26_samples:0 176034088 176034257 170 32 42000127 42000330 204 45 TBL1XR1 IGR: 704Kb before TBL1XR1(-) FBXO4 IGR: 59Kb after FBXO4(+) - 0 0 0 0 1 1 2 0 -8.216710e-01 -2.409869e-01 1 4 1 4 1 176034257 42000330 1 176034345 88 42000340 10 3 1 0 2 69 0 15 1 176034609 352 42000495 165 1 7.713508e-01 0 1 76 11 TCTTCAGAAAG 17 1 8.823529e-01 LUSC-66-2756 528 4 1 2009712 4 0 2093099 tandem_dup 83331 4 0 0 0 26_samples:0 2009717 2009895 179 55 2092823 2093048 226 55 WHSC2 Intron of WHSC2(-): 760bp after exon 1 POLN Intron of POLN(-): 5Kb after exon 18 Protein fusion: out of frame (WHSC2-POLN) 0 0 0 0 1 0 1 1 2.056932e-01 2.056932e-01 1 4 1 4 1 2009717 2093048 1 2009712 -5 2093099 51 7 9.582005e-01 1 4 75 0 18 1 -1 -2009718 -1 -2093049 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 537 5 0 17646462 5 1 36645841 long_range 18999383 4 0 0 0 26_samples:0 17646215 17646463 249 62 36645846 36646081 236 57 BASP1 IGR: 429Kb before BASP1(+) SLC1A3 Intron of SLC1A3(+): 16Kb after exon 2 - 1.000000e-02 2.000000e-02 0 0 3 0 2 0 5.183693e-01 2.950292e-01 1 4 1 4 1 17646463 36645846 1 17646462 -1 36645841 -5 11 9.984295e-01 0 5 90 0 25 1 -1 -17646464 -1 -36645847 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 538 5 1 24809264 5 0 27538484 long_range 2729157 4 0 0 0 26_samples:0 24809268 24809460 193 44 27538202 27538425 224 54 CDH10 IGR: 322Kb before CDH10(-) CDH9 IGR: 500Kb after CDH9(-) - 0 0 0 0 1 0 1 0 -2.856549e-01 1.610252e-01 1 4 1 4 1 24809268 27538425 1 24809264 -4 27538484 59 7 9.980914e-01 1 3 71 0 19 1 24808917 -351 27538525 100 2 7.639801e-01 1 1 67 35 GACTGAAGTGATAATTAAATCCAAAATGTAATGGC 14 1 1.357143e+00 LUSC-66-2756 539 5 1 29130738 5 0 44349758 long_range 15218871 4 0 0 0 26_samples:0 29130820 29130955 136 18 44349575 44349691 117 12 CDH6 IGR: 2Mb before CDH6(+) FGF10 Intron of FGF10(-): 39Kb after exon 1 - 0 0 0 0 2 0 1 0 -1.447023e+00 -1.715031e+00 1 4 1 4 1 29130820 44349691 1 29130738 -82 44349758 67 5 9.973282e-01 1 5 79 0 14 1 -1 -29130821 -1 -44349692 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 540 5 0 40808561 5 1 41518600 deletion 710039 4 0 0 0 26_samples:0 40808439 40808561 123 17 41518600 41518759 160 40 RPL37 IGR: 23Kb before RPL37(-) PLCXD3 IGR: 8Kb after PLCXD3(-) - 0 0 0 0 2 1 1 0 -1.491691e+00 -4.643269e-01 1 4 1 4 1 40808561 41518600 1 -1 -40808562 -1 -41518601 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -40808562 -1 -41518601 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2756 557 7 1 116254789 7 1 132705356 long_range 16450631 4 0 0 0 26_samples:0 116254789 116255000 212 52 132705420 132705640 221 50 MET IGR: 58Kb before MET(+) CHCHD3 Intron of CHCHD3(-): 4Kb after exon 3 - 0 0 0 0 1 0 1 0 7.168919e-02 -1.764683e-02 1 4 1 4 1 116254789 132705420 1 116254789 0 132705356 -64 3 9.942717e-01 1 3 73 0 11 1 116254436 -353 132705229 -191 3 8.455833e-01 1 2 79 0 5 1 2.200000e+00 LUSC-66-2756 559 7 1 115167619 7 1 132691843 long_range 17524307 4 0 0 0 26_samples:0 115167616 115167797 182 38 132691923 132692117 195 44 TFEC IGR: 408Kb before TFEC(-) CHCHD3 Intron of CHCHD3(-): 17Kb after exon 3 - 0 0 0 0 3 0 1 0 -5.536629e-01 -2.856549e-01 1 4 1 4 1 115167616 132691923 1 115167619 3 132691843 -80 4 9.690469e-01 1 3 77 0 12 1 -1 -115167617 -1 -132691924 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 566 8 0 77607564 8 1 77614359 deletion 6901 4 0 0 0 26_samples:0 77607406 77607530 125 21 77614431 77614602 172 39 ZFHX4 5'-UTR of ZFHX4(+): 9Kb before coding start ZFHX4 5'-UTR of ZFHX4(+): 2Kb before coding start Deletion within transcript 0 0 0 0 2 0 0 1 -1.313019e+00 -5.089949e-01 1 4 1 4 1 77607530 77614431 1 77607564 34 77614359 -72 5 9.519094e-01 0 0 80 21 ATGTACCACTAAATACGCATA 17 1 -1 -77607531 -1 -77614432 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 567 8 1 145889314 8 0 146159242 tandem_dup 269875 4 0 0 0 26_samples:0 145889370 145889588 219 66 146159059 146159245 187 37 ZNF251 IGR: 57Kb before ZNF251(-) ZNF16 Intron of ZNF16(-): 1Kb before exon 3 - 2.000000e-02 0 0 0 1 0 1 0 6.970413e-01 -5.983309e-01 1 4 1 4 1 145889370 146159245 1 145889314 -56 146159242 -3 4 9.877100e-01 1 2 64 0 20 1 -1 -145889371 -1 -146159246 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 579 10 1 59724574 10 1 81000412 long_range 21275930 4 0 0 0 26_samples:0 59724568 59724738 171 32 81000498 81000644 147 21 IPMK IGR: 231Kb before IPMK(-) ZMIZ1 Intron of ZMIZ1(+): 24Kb after exon 7 - 0 0 0 0 3 0 1 0 -8.216710e-01 -1.313019e+00 1 4 1 4 1 59724568 81000498 1 59724574 6 81000412 -86 4 9.706866e-01 1 1 76 0 10 1 -1 -59724569 -1 -81000499 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 580 10 0 68013927 10 1 68128545 deletion 114653 4 0 0 0 26_samples:0 68013661 68013888 228 58 68128541 68128773 233 64 CTNNA3 Intron of CTNNA3(-): 26Kb after exon 13 CTNNA3 Intron of CTNNA3(-): 10Kb after exon 12 Deletion of 1 exon: out of frame 0 0 0 0 1 0 1 1 3.396972e-01 6.077053e-01 1 4 1 4 1 68013888 68128541 1 68013927 39 68128545 4 5 1 0 2 82 0 10 1 -1 -68013889 -1 -68128542 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 581 10 0 81797384 10 0 81799613 inversion 2211 4 0 0 0 26_samples:0 81797145 81797375 231 62 81799356 81799586 231 62 LOC219347 IGR: 9Kb before LOC219347(-) LOC219347 IGR: 6Kb before LOC219347(-) - 5.000000e-02 3.000000e-02 4.000000e-02 3.000000e-02 1 1 0 0 5.183693e-01 5.183693e-01 1 4 1 4 1 81797375 81799586 1 81797384 9 81799613 27 4 9.565377e-01 0 2 71 0 14 1 -1 -81797376 -1 -81799587 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 584 10 0 49927673 20 0 32161657 inter_chr NaN 4 0 0 0 26_samples:0 49927459 49927673 215 58 32161441 32161657 217 53 WDFY4 Intron of WDFY4(+): 383bp before exon 3 CBFA2T2 Intron of CBFA2T2(+): 33Kb before exon 2 Antisense fusion 0 0 7.000000e-02 0 2 0 3 0 3.396972e-01 1.163572e-01 1 4 1 4 1 49927673 32161657 1 -1 -49927674 -1 -32161658 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -49927674 -1 -32161658 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2756 586 12 1 53100115 12 0 53346047 tandem_dup 245876 4 0 0 0 26_samples:0 53100143 53100327 185 58 53345856 53346019 164 33 KRT77 Promoter of KRT77(-): 3Kb from tx start KRT18 Exon 6 of KRT18(+) Antisense fusion 0 0 0 0 2 0 2 0 3.396972e-01 -7.770030e-01 1 4 1 4 1 53100143 53346019 1 53100115 -28 53346047 28 5 9.814611e-01 1 1 77 1 A 16 1 -1 -53100144 -1 -53346020 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2756 593 18 0 58993789 18 1 60038020 long_range 1044291 4 0 0 0 26_samples:0 58993611 58993769 159 31 60038060 60038276 217 62 CDH20 IGR: 164Kb before CDH20(+) TNFRSF11A Intron of TNFRSF11A(+): 1Kb after exon 9 - 0 0 5.000000e-02 6.000000e-02 2 1 1 2 -8.663390e-01 5.183693e-01 1 4 1 4 1 58993769 60038060 1 58993789 20 60038020 -40 2 1 0 2 80 0 4 1 -1 -58993770 -1 -60038061 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 3 3 0 143003752 16 0 70422178 inter_chr NaN 42 0 0 0 26_samples:0 143003459 143003683 225 42 70422016 70422175 160 28 SLC9A9 Intron of SLC9A9(-): 16Kb before exon 15 ST3GAL2 Intron of ST3GAL2(-): 95bp after exon 4 - 0 0 4.000000e-02 5.000000e-02 5 0 4 1 -9.873494e-01 -2.274983e+00 9.962541e-01 4.184267e+01 1 4.184267e+01 1 143003683 70422175 1 143003752 69 70422178 3 20 9.786583e-01 0 1 58 0 53 1 -1 -143003684 -1 -70422176 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 5 14 1 29758715 14 0 36900521 long_range 7141789 41 0 0 0 26_samples:0 29758707 29759008 302 58 36900202 36900496 295 57 PRKD1 IGR: 287Kb before PRKD1(-) SFTA3 IGR: 42Kb before SFTA3(-) - 0 0 0 0 1 0 3 0 4.842318e-01 3.922580e-01 1 41 1 41 1 29758707 36900496 1 29758715 8 36900521 25 20 9.772602e-01 1 8 79 0 49 1 -1 -29758708 -1 -36900497 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 2 8 0 49258510 11 0 114366824 inter_chr NaN 45 0 0 0 26_samples:0 49258165 49258504 340 68 114366516 114366826 311 69 UBE2V2 IGR: 338Kb before UBE2V2(+) FAM55A IGR: 26Kb before FAM55A(-) - 0 0 0 0 3 1 3 1 1.403970e+00 1.495944e+00 8.361562e-01 3.762703e+01 1 3.762703e+01 1 49258504 114366826 1 49258510 6 114366824 -2 17 9.794496e-01 0 1 80 0 56 1 -1 -49258505 -1 -114366827 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 9 3 0 143002662 6 0 49380638 inter_chr NaN 31 0 0 0 26_samples:0 143002325 143002646 322 48 49380494 49380640 147 26 SLC9A9 Intron of SLC9A9(-): 15Kb before exon 15 MUT IGR: 17Kb before MUT(-) - 0 0 0 0 4 0 6 0 -4.355064e-01 -2.458931e+00 9.327078e-01 2.891394e+01 1 2.891394e+01 1 143002646 49380640 1 143002662 16 49380638 -2 20 9.045386e-01 0 0 73 2 CT 63 1 -1 -143002647 -1 -49380641 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 12 14 0 28698681 14 0 36934918 long_range 8236237 26 0 0 0 26_samples:0 28698383 28698658 276 43 36934678 36934895 218 48 FOXG1 IGR: 538Kb before FOXG1(+) SFTA3 IGR: 8Kb before SFTA3(-) - 0 0 0 0 1 0 2 1 -7.865504e-01 -3.712490e-01 1 26 1 26 1 28698658 36934895 1 28698681 23 36934918 23 17 9.739011e-01 0 0 65 0 35 1 -1 -28698659 -1 -36934896 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 13 14 1 23177506 14 1 36895128 long_range 13717622 24 0 0 0 26_samples:0 23177506 23177752 247 48 36895128 36895401 274 52 OXA1L IGR: 58Kb before OXA1L(+) SFTA3 IGR: 47Kb before SFTA3(-) - 3.000000e-02 3.000000e-02 0 0 2 0 1 0 -3.712490e-01 -3.900781e-02 1 24 1 24 1 23177506 36895128 1 23177506 0 36895127 -1 8 7.888954e-01 1 1 71 29 ATATAAGTTATCATTATAATTTTTGTATC 43 1 -1 -23177507 -1 -36895129 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2757 15 14 1 29717101 14 1 30735931 long_range 1018841 23 0 0 0 26_samples:0 29717095 29717372 278 68 30735936 30736164 229 47 PRKD1 IGR: 329Kb before PRKD1(-) G2E3 IGR: 292Kb before G2E3(+) - 2.000000e-02 0 0 0 2 1 1 2 1.289957e+00 -4.543093e-01 9.762020e-01 2.245265e+01 1 2.245265e+01 1 29717095 30735936 1 29717101 6 30735931 -5 2 8.736735e-01 1 0 81 63 TATTAAAATGAGAAAAATAATTATGTACACCTATATACATTATAGGTATATACATATTGTACA 55 1 -1 -29717096 -1 -30735937 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 17 8 1 51430548 8 0 77986886 long_range 26556326 22 0 0 0 26_samples:0 51430552 51430827 276 62 77986623 77986878 256 54 SNTG1 Intron of SNTG1(+): 12Kb before exon 10 PEX2 IGR: 94Kb before PEX2(-) - 5.000000e-02 2.000000e-02 0 0 2 1 5 1 7.915951e-01 1.271128e-01 9.920043e-01 2.182409e+01 1 2.182409e+01 1 51430552 77986878 1 51430548 -4 77986886 8 4 9.059426e-01 1 1 74 0 16 1 -1 -51430553 -1 -77986879 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 6 6 1 2692499 6 0 2810338 tandem_dup 117834 39 0 0 0 26_samples:0 2692501 2692833 333 74 2810049 2810335 287 68 MYLK4 Intron of MYLK4(-): 517bp after exon 3 SERPINB1 IGR: 23Kb before SERPINB1(-) - 0 0 0 0 2 0 2 0 1.955813e+00 1.403970e+00 5.008261e-01 1.953222e+01 1 1.953222e+01 1 2692501 2810335 1 2692499 -2 2810338 3 19 9.493885e-01 1 3 75 0 34 1 -1 -2692502 -1 -2810336 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 22 3 0 143002660 14 1 81701584 inter_chr NaN 18 0 0 0 26_samples:0 143002523 143002660 138 27 81701584 81701730 147 35 SLC9A9 Intron of SLC9A9(-): 15Kb before exon 15 SNORA79 IGR: 33Kb before SNORA79(-) - 0 0 0 2.000000e-02 4 0 4 0 -1.944033e+00 -1.328147e+00 1 18 1 18 1 143002660 81701584 1 143002662 2 81701602 18 1 8.716245e-01 0 0 74 2 CT 40 1 143002861 201 81701674 90 1 8.420062e-01 0 1 68 17 AATAAATAGTTCCAGGA 33 0 1.212121e+00 LUSC-66-2757 25 8 1 58142142 8 1 58376044 inversion 233929 18 0 0 0 26_samples:0 58142114 58142423 310 65 58376043 58376362 320 56 C8orf71 IGR: 50Kb before C8orf71(+) C8orf71 IGR: 184Kb before C8orf71(+) - 0 0 5.000000e-02 5.000000e-02 3 0 3 0 9.814246e-01 2.885530e-01 1 18 1 18 1 58142114 58376043 1 58142142 28 58376044 1 15 9.771633e-01 1 4 69 0 27 1 -1 -58142115 -1 -58376044 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 24 8 0 51547167 8 1 58095601 long_range 6548449 18 0 0 0 26_samples:0 51546864 51547160 297 67 58095609 58095917 309 70 SNTG1 Intron of SNTG1(+): 22Kb before exon 14 C8orf71 IGR: 96Kb before C8orf71(+) - 0 0 0 0 2 1 1 0 1.135396e+00 1.366353e+00 9.507745e-01 1.711394e+01 1 1.711394e+01 1 51547160 58095609 1 51547167 7 58095601 -8 11 8.738860e-01 0 0 67 0 41 1 51547362 202 58095653 44 1 8.229604e-01 0 1 76 0 14 1 2.928571e+00 LUSC-66-2757 28 10 1 89696658 10 0 89720375 tandem_dup 23730 17 0 0 0 26_samples:0 89696654 89696945 292 53 89720103 89720384 282 60 PTEN Intron of PTEN(+): 4Kb after exon 5 PTEN Intron of PTEN(+): 267bp before exon 8 Duplication of 2 exons: in frame 0 0 0 0 1 1 2 1 5.759579e-02 5.964959e-01 1 17 1 17 1 89696654 89720384 1 89696658 4 89720375 -9 9 9.634076e-01 1 7 74 0 21 1 89696725 71 89720585 201 1 7.803239e-01 1 1 63 30 AATAAAACATCATTAATTAAATATGTCATT 25 1 8.400000e-01 LUSC-66-2757 30 19 0 50222824 19 1 50227097 deletion 4276 17 0 0 0 26_samples:0 50222492 50222822 331 66 50227098 50227354 257 69 CPT1C IGR: 6Kb after CPT1C(+) TSKS IGR: 16Kb before TSKS(-) - 1.000000e-01 1.600000e-01 2.500000e-01 1.900000e-01 3 0 3 2 1.058410e+00 1.289368e+00 9.761489e-01 1.659453e+01 1 1.659453e+01 1 50222822 50227098 1 50222824 2 50227097 -1 6 9.523024e-01 0 1 68 0 9 1 -1 -50222823 -1 -50227099 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 18 8 1 127664996 8 1 128903191 long_range 1238187 21 0 0 0 26_samples:0 127665008 127665267 260 69 128903195 128903479 285 72 FAM84B IGR: 100Kb before FAM84B(-) PVT1 5'-UTR of PVT1(+): 210Kb before coding start - 0 0 0 0 1 1 1 0 1.373017e+00 1.622198e+00 7.661217e-01 1.608856e+01 1 1.608856e+01 1 127665008 128903195 1 127664996 -12 128903191 -4 7 8.441882e-01 1 0 69 1 C 25 1 -1 -127665009 -1 -128903196 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 23 6 1 49380511 16 1 70422014 inter_chr NaN 18 0 0 0 26_samples:0 49380511 49380632 122 22 70422014 70422144 131 26 MUT IGR: 18Kb before MUT(-) ST3GAL2 Intron of ST3GAL2(-): 256bp after exon 4 - 0 0 5.000000e-02 6.000000e-02 6 0 4 1 -2.328962e+00 -2.021019e+00 8.888889e-01 16 1 16 1 49380511 70422014 1 -1 -49380512 -1 -70422015 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -49380512 -1 -70422015 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2757 19 16 0 57067679 16 1 57069129 deletion 1471 21 0 0 0 26_samples:0 57067332 57067664 333 73 57069135 57069420 286 64 NLRC5 Intron of NLRC5(+): 83bp after exon 12 NLRC5 Intron of NLRC5(+): 877bp before exon 14 Deletion of 1 exon: in frame 0 0 0 0 0 1 0 1 1.705258e+00 9.577156e-01 7.403087e-01 1.554648e+01 1 1.554648e+01 1 57067664 57069135 1 57067679 15 57069129 -6 7 8.846216e-01 0 1 62 0 11 1 -1 -57067665 -1 -57069136 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 32 8 1 43406481 8 0 58565149 long_range 15158668 15 0 0 0 26_samples:0 43406481 43406729 249 56 58564908 58565149 242 65 POTEA IGR: 259Kb before POTEA(+) FAM110B IGR: 342Kb before FAM110B(+) - 2.000000e-02 1.300000e-01 0 0 1 0 2 0 2.885530e-01 9.814246e-01 1 15 1 15 1 43406481 58565149 1 43406478 -3 58565154 5 3 7.888943e-01 1 0 68 35 ACAATCCATTATAAAGTGTCTAAATAGAGCATAAC 40 1 -1 -43406482 -1 -58565150 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2757 37 14 0 23169052 14 1 33539432 long_range 10370452 15 0 0 0 26_samples:0 23168703 23168975 273 60 33539427 33539675 249 60 OXA1L IGR: 67Kb before OXA1L(+) NPAS3 Intron of NPAS3(+): 14Kb after exon 2 - 0 0 0 0 2 1 1 0 5.964959e-01 5.964959e-01 1 15 1 15 1 23168975 33539427 1 23169052 77 33539432 5 11 9.426528e-01 0 0 60 0 19 1 23169046 71 33539224 -203 1 7.848269e-01 0 2 74 0 12 1 1.583333e+00 LUSC-66-2757 34 8 0 128903172 8 0 128984549 inversion 81377 15 0 0 0 26_samples:0 128902891 128903172 282 66 128984341 128984549 209 51 PVT1 5'-UTR of PVT1(+): 210Kb before coding start PVT1 5'-UTR of PVT1(+): 129Kb before coding start Antisense fusion 0 0 0 0 2 0 1 1 1.058410e+00 -9.637567e-02 9.998008e-01 1.499701e+01 1 1.499701e+01 1 128903172 128984549 1 128903177 5 128984551 2 1 8.581931e-01 0 0 70 60 CACTAGCTTTGTTCTCTTGCTGAGCCGCTAACTCACTGGCTAAGTGGAAACTCACATTCA 23 1 -1 -128903173 -1 -128984550 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2757 38 8 0 35265816 8 0 38399672 long_range 3133856 14 0 0 0 26_samples:0 35265528 35265816 289 71 38399428 38399672 245 57 UNC5D Intron of UNC5D(+): 141Kb before exon 2 C8orf86 IGR: 31Kb before C8orf86(-) - 0 0 0 3.000000e-02 2 1 2 2 1.395673e+00 3.671029e-01 9.416682e-01 1.318335e+01 1 1.318335e+01 1 35265816 38399672 1 -1 -35265817 -1 -38399673 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -35265817 -1 -38399673 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2757 41 1 0 199310499 1 1 199314217 deletion 3756 13 0 0 0 26_samples:0 199310240 199310484 245 53 199314240 199314506 267 63 MIR181A1 IGR: 482Kb before MIR181A1(-) MIR181A1 IGR: 486Kb before MIR181A1(-) - 4.000000e-02 9.000000e-02 0 0 2 0 2 0 7.322582e-02 8.079185e-01 1 13 1 13 1 199310484 199314240 1 199310499 15 199314217 -23 13 9.890713e-01 0 3 78 0 28 1 -1 -199310485 -1 -199314241 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 43 4 0 27546840 4 1 28823109 long_range 1276271 13 0 0 0 26_samples:0 27546540 27546838 299 64 28823109 28823360 252 56 STIM2 IGR: 685Kb before STIM2(+) PCDH7 IGR: 2Mb before PCDH7(+) - 0 0 0 0 2 0 2 0 8.813877e-01 2.936336e-01 1 13 1 13 1 27546838 28823109 1 27546840 2 28823109 0 16 9.813419e-01 0 1 77 1 A 26 1 -1 -27546839 -1 -28823110 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 46 14 0 24549475 14 1 33591418 long_range 9041943 13 0 0 0 26_samples:0 24549219 24549475 257 57 33591418 33591607 190 41 NRL 3'-UTR of NRL(-): 970bp after coding stop NPAS3 Intron of NPAS3(+): 66Kb after exon 2 - 0 0 0 0 1 2 2 1 3.671029e-01 -8.084053e-01 1 13 1 13 1 24549475 33591418 1 24549555 80 33591421 3 1 7.892609e-01 0 1 75 0 16 1 -1 -24549476 -1 -33591419 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2757 47 14 0 24554713 14 0 33591617 long_range 9036948 13 0 0 0 26_samples:0 24554379 24554673 295 54 33591420 33591621 202 53 NRL Promoter of NRL(-): 841bp from tx start NPAS3 Intron of NPAS3(+): 66Kb after exon 2 Transcript fusion (NPAS3-NRL) 0 0 0 0 3 0 2 1 1.466951e-01 7.322582e-02 1 13 1 13 1 24554673 33591621 1 24554713 40 33591617 -4 11 9.663486e-01 0 2 69 0 31 1 -1 -24554674 -1 -33591622 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 42 3 0 143003750 14 0 81701793 inter_chr NaN 13 0 0 0 26_samples:0 143003602 143003750 149 31 81701648 81701793 146 25 SLC9A9 Intron of SLC9A9(-): 16Kb before exon 15 SNORA79 IGR: 33Kb before SNORA79(-) - 0 0 0 2.000000e-02 5 0 4 0 -1.543098e+00 -1.983914e+00 9.846154e-01 1.280000e+01 1 1.280000e+01 1 143003750 81701793 1 -1 -143003751 -1 -81701794 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -143003751 -1 -81701794 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2757 40 8 1 58482116 8 0 59641813 long_range 1159660 14 0 0 0 26_samples:0 58482133 58482425 293 62 59641550 59641793 244 52 C8orf71 IGR: 290Kb before C8orf71(+) TOX IGR: 76Kb before TOX(-) - 1.700000e-01 2.500000e-01 2.000000e-01 2.000000e-01 6 3 5 3 7.344492e-01 -2.434463e-04 8.752137e-01 1.225299e+01 1 1.225299e+01 1 58482133 59641793 1 58482116 -17 59641813 20 6 9.554459e-01 1 1 85 4 TGGA 29 1 -1 -58482134 -1 -59641794 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 33 8 0 43416010 8 1 58378085 long_range 14962108 15 0 0 0 26_samples:0 43415720 43415973 254 68 58378081 58378366 286 73 POTEA IGR: 268Kb before POTEA(+) C8orf71 IGR: 186Kb before C8orf71(+) - 8.000000e-02 1.400000e-01 0 0 5 3 3 1 1.212382e+00 1.597310e+00 8.039452e-01 1.205918e+01 1 1.205918e+01 1 43415973 58378081 1 43416010 37 58378085 4 2 1 0 0 75 0 20 1 -1 -43415974 -1 -58378082 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 49 3 0 196284843 4 1 75866344 inter_chr NaN 12 0 0 0 26_samples:0 196284687 196284846 160 27 75866439 75866650 212 41 WDR53 Intron of WDR53(-): 3Kb after exon 3 PARM1 Intron of PARM1(+): 8Kb after exon 1 - 4.000000e-02 7.000000e-02 0 0 4 0 3 1 -1.836975e+00 -8.084053e-01 1 12 1 12 1 196284846 75866439 1 196284843 -3 75866344 -95 14 9.832761e-01 0 3 73 0 28 1 -1 -196284847 -1 -75866440 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 50 8 0 58431651 8 1 58539858 deletion 108207 12 0 0 0 26_samples:0 58431416 58431651 236 58 58539858 58540093 236 64 C8orf71 IGR: 240Kb before C8orf71(+) C8orf71 IGR: 348Kb before C8orf71(+) - 0 0 0 0 2 1 4 1 4.405721e-01 8.813877e-01 1 12 1 12 1 58431651 58539858 1 58431674 23 58539843 -15 1 8.821237e-01 0 0 66 38 TTAAGCAACAGGTATAATCCTGTTGTATTAGTATTGTA 51 1 -1 -58431652 -1 -58539859 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2757 51 14 0 21068161 14 0 25028599 long_range 3960438 12 0 0 0 26_samples:0 21067970 21068161 192 34 25028388 25028599 212 39 RNASE12 IGR: 10Kb before RNASE12(-) CTSG IGR: 14Kb before CTSG(-) - 0 0 1.300000e-01 1.900000e-01 2 0 3 1 -1.322690e+00 -9.553439e-01 1 12 1 12 1 21068161 25028599 1 -1 -21068162 -1 -25028600 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -21068162 -1 -25028600 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2757 52 14 0 81701790 16 1 70422012 inter_chr NaN 12 0 0 0 26_samples:0 81701594 81701713 120 18 70422024 70422181 158 37 SNORA79 IGR: 33Kb before SNORA79(-) ST3GAL2 Intron of ST3GAL2(-): 246bp after exon 4 - 0 0 2.000000e-02 3.000000e-02 4 0 4 1 -2.498198e+00 -1.102282e+00 1 12 1 12 1 81701713 70422024 1 81701790 77 70422012 -12 4 9.363076e-01 0 2 71 0 27 1 81701914 201 70422179 155 1 7.535234e-01 0 0 73 1 G 9 1 3 LUSC-66-2757 20 8 1 49978877 8 1 50382633 inversion 403746 20 0 0 0 26_samples:0 49978888 49979173 286 72 50382634 50382939 306 73 C8orf22 IGR: 6Kb before C8orf22(+) C8orf22 IGR: 398Kb before C8orf22(+) - 0 0 0 0 1 0 2 0 1.622198e+00 1.705258e+00 5.966038e-01 1.193208e+01 1 1.193208e+01 1 49978888 50382634 1 49978877 -11 50382633 -1 11 9.693277e-01 1 4 69 0 22 1 -1 -49978889 -1 -50382635 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 27 8 1 51503259 8 1 65035375 long_range 13532130 17 0 0 0 26_samples:0 51503256 51503557 302 75 65035386 65035631 246 66 SNTG1 Intron of SNTG1(+): 183bp before exon 13 MIR124-2 IGR: 256Kb before MIR124-2(+) - 0 0 8.000000e-02 7.000000e-02 5 0 1 0 1.751282e+00 1.058410e+00 6.912853e-01 1.175185e+01 1 1.175185e+01 1 51503256 65035386 1 51503259 3 65035375 -11 13 9.701915e-01 1 2 65 0 20 1 -1 -51503257 -1 -65035387 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 44 8 0 35360212 8 0 51434085 long_range 16073873 13 0 0 0 26_samples:0 35359978 35360212 235 46 51433860 51434085 226 48 UNC5D Intron of UNC5D(+): 47Kb before exon 2 SNTG1 Intron of SNTG1(+): 9Kb before exon 10 Antisense fusion 2.900000e-01 1.500000e-01 8.000000e-02 1.200000e-01 6 1 2 3 -4.410590e-01 -2.941205e-01 8.667013e-01 1.126712e+01 1 1.126712e+01 1 35360212 51434085 1 35360107 -105 51434286 201 4 7.865096e-01 0 1 77 56 ATTCTTGGTGAAGATGCTATGAACATTGTTGAAATGACAATAAAGTATTTAGAATA 61 1 -1 -35360213 -1 -51434086 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2757 54 14 1 28678192 14 0 33545401 long_range 4867180 11 0 0 0 26_samples:0 28678194 28678432 239 52 33545113 33545374 262 55 FOXG1 IGR: 558Kb before FOXG1(+) NPAS3 Intron of NPAS3(+): 20Kb after exon 2 - 2.000000e-02 4.000000e-02 0 0 1 0 2 1 1.110853e-02 2.154115e-01 1 11 1 11 1 28678194 33545374 1 28678192 -2 33545401 27 12 8.886499e-01 1 0 69 1 T 29 1 -1 -28678195 -1 -33545375 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 53 8 0 58374709 8 1 58457778 deletion 83075 11 0 0 0 26_samples:0 58374423 58374708 286 69 58457783 58458056 274 63 C8orf71 IGR: 183Kb before C8orf71(+) C8orf71 IGR: 266Kb before C8orf71(+) - 5.000000e-02 3.000000e-02 1.000000e-02 0 1 0 2 0 1.168826e+00 7.602196e-01 9.952112e-01 1.094732e+01 1 1.094732e+01 1 58374708 58457783 1 58374709 1 58457778 -5 16 8.817587e-01 0 0 66 0 30 1 -1 -58374709 -1 -58457784 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 55 3 1 196284679 17 1 57919294 inter_chr NaN 10 0 0 0 26_samples:0 196284716 196284841 126 21 57919349 57919556 208 41 WDR53 Intron of WDR53(-): 3Kb before exon 4 MIR21 IGR: 722bp before MIR21(+) - 4.000000e-02 7.000000e-02 2.100000e-01 1.400000e-01 4 0 3 1 -2.100023e+00 -7.380025e-01 1 10 1 10 1 196284716 57919349 1 196284679 -37 57919294 -55 10 9.618810e-01 1 3 73 0 16 1 196284511 -205 57919329 -20 7 8.429398e-01 1 4 79 0 12 1 1.333333e+00 LUSC-66-2757 57 8 0 58532534 8 0 65043024 long_range 6510490 10 0 0 0 26_samples:0 58532293 58532534 242 52 65042827 65043024 198 49 C8orf71 IGR: 340Kb before C8orf71(+) MIR124-2 IGR: 249Kb before MIR124-2(+) - 0 0 0 0 1 0 1 0 1.110853e-02 -1.931945e-01 1 10 1 10 1 58532534 65043024 1 58532744 210 65042902 -122 11 8.513212e-01 0 11 78 0 27 1 58532744 210 65042902 -122 1 7.684189e-01 0 11 78 0 19 0 1.421053e+00 LUSC-66-2757 59 14 1 24992932 14 1 29542394 long_range 4549463 10 0 0 0 26_samples:0 24992965 24993170 206 55 29542428 29542624 197 43 CMA1 IGR: 18Kb before CMA1(-) C14orf23 IGR: 301Kb before C14orf23(+) - 0 2.000000e-02 0 2.000000e-02 2 1 1 2 2.154115e-01 -6.018005e-01 1 10 1 10 1 24992965 29542428 1 24992932 -33 29542394 -34 8 8.820640e-01 1 2 72 22 ATATAATTATAAGTTTCATATA 17 1 -1 -24992966 -1 -29542429 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 56 8 0 43705389 8 0 50662411 long_range 6956997 10 0 0 0 26_samples:0 43705135 43705388 254 68 50662140 50662385 246 57 POTEA IGR: 487Kb after POTEA(+) SNTG1 IGR: 162Kb before SNTG1(+) - 4.000000e-02 1.000000e-01 4.000000e-02 3.000000e-02 4 1 4 2 1.100725e+00 3.516136e-01 9.989791e-01 9.989791e+00 1 9.989791e+00 1 43705388 50662385 1 43705389 1 50662411 26 6 8.196250e-01 0 0 65 1 C 34 1 -1 -43705389 -1 -50662386 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 1 14 1 21043586 14 1 34793674 long_range 13750091 54 0 0 0 26_samples:0 21043581 21043942 362 79 34793672 34794004 333 72 RNASE11 IGR: 7Kb before RNASE11(-) C14orf147 IGR: 108Kb before C14orf147(-) - 0 0 0 0 2 0 2 2 2.415682e+00 1.771865e+00 1.785127e-01 9.639687e+00 1 9.639687e+00 1 21043581 34793672 1 21043586 5 34793674 2 14 9.239553e-01 1 3 77 0 33 1 21043718 137 34793464 -208 1 8.399373e-01 1 7 77 0 7 1 4.714286e+00 LUSC-66-2757 21 1 0 115173892 1 1 115177522 deletion 3628 18 0 0 0 26_samples:0 115173634 115173903 270 73 115177531 115177883 353 77 DENND2C 5'-UTR of DENND2C(-): 5Kb before coding start DENND2C 5'-UTR of DENND2C(-): 9Kb before coding start Deletion within transcript 9.000000e-02 9.000000e-02 1.100000e-01 1.800000e-01 5 0 2 2 1.597310e+00 1.905253e+00 4.659708e-01 8.387474e+00 1 8.387474e+00 1 115173903 115177531 1 115173892 -11 115177522 -9 2 9.337196e-01 0 22 113 0 22 1 115174011 108 115177330 -201 4 8.403782e-01 0 0 69 2 GT 13 1 1.692308e+00 LUSC-66-2757 63 1 1 78439113 1 0 78441806 tandem_dup 2677 8 0 0 0 26_samples:0 78439106 78439385 280 70 78441564 78441783 220 57 FUBP1 Intron of FUBP1(-): 3Kb before exon 2 FUBP1 Intron of FUBP1(-): 3Kb after exon 1 Duplication within intron 2.600000e-01 9.000000e-02 0 0 3 2 4 0 1.185411e+00 3.541023e-01 9.920791e-01 7.936633e+00 1 7.936633e+00 1 78439106 78441783 1 78439113 7 78441806 23 7 9.605499e-01 1 6 66 0 20 1 -1 -78439107 -1 -78441784 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 67 11 1 104086551 11 0 104126786 tandem_dup 40235 8 0 0 0 26_samples:0 104086551 104086799 249 63 104126540 104126786 247 72 PDGFD IGR: 52Kb after PDGFD(-) DDI1 IGR: 219Kb before DDI1(+) - 0 0 0 0 2 1 1 0 7.377832e-01 1.313304e+00 9.701637e-01 7.761310e+00 1 7.761310e+00 1 104086551 104126786 1 104086526 -25 104126822 36 1 9.902726e-01 1 2 73 0 15 1 -1 -104086552 -1 -104126787 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2757 10 4 0 73555599 4 1 73576799 deletion 21207 31 0 0 0 26_samples:0 73555272 73555600 329 72 73576807 73577136 330 77 COX18 IGR: 365Kb before COX18(-) COX18 IGR: 344Kb before COX18(-) - 0 0 0 0 1 0 1 1 1.771865e+00 2.231735e+00 2.387791e-01 7.402151e+00 1 7.402151e+00 1 73555600 73576807 1 73555599 -1 73576799 -8 10 9.549219e-01 0 3 67 0 22 1 -1 -73555601 -1 -73576808 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 64 6 1 49380498 14 1 81701587 inter_chr NaN 8 0 0 0 26_samples:0 49380518 49380638 121 30 81701600 81701792 193 42 MUT IGR: 18Kb before MUT(-) SNORA79 IGR: 33Kb before SNORA79(-) - 0 0 0 2.000000e-02 6 0 4 0 -1.372462e+00 -6.050999e-01 8.888889e-01 7.111111e+00 1 7.111111e+00 1 49380518 81701600 1 49380498 -20 81701587 -13 5 9.387260e-01 1 1 73 0 25 1 49380317 -201 81701725 125 3 8.623458e-01 1 1 75 9 GCTTTCTTC 12 1 2.083333e+00 LUSC-66-2757 66 8 0 38370927 8 1 43435123 long_range 5064196 8 0 0 0 26_samples:0 38370728 38370927 200 61 43435123 43435386 264 72 C8orf86 Intron of C8orf86(-): 770bp before exon 3 POTEA IGR: 288Kb before POTEA(+) - 2.400000e-01 2.600000e-01 3.000000e-02 4.000000e-02 4 3 6 1 6.098895e-01 1.313304e+00 8.609902e-01 6.887921e+00 1 6.887921e+00 1 38370927 43435123 1 38370947 20 43435087 -36 4 7.971573e-01 0 3 68 2 TG 24 1 -1 -38370928 -1 -43435124 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2757 35 8 0 127959163 8 1 128079755 deletion 120600 15 0 0 0 26_samples:0 127958892 127959152 261 64 128079752 128080072 321 79 FAM84B IGR: 394Kb before FAM84B(-) POU5F1B IGR: 348Kb before POU5F1B(+) - 0 0 0 0 2 0 1 0 9.044389e-01 2.059225e+00 4.569538e-01 6.854307e+00 1 6.854307e+00 1 127959152 128079752 1 127959163 11 128079755 3 12 9.409138e-01 0 1 74 0 27 1 -1 -127959153 -1 -128079753 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 48 20 1 52325865 20 0 52602484 tandem_dup 276615 13 0 0 0 26_samples:0 52325864 52326184 321 79 52602187 52602479 293 67 ZNF217 IGR: 142Kb before ZNF217(-) BCAS1 Intron of BCAS1(-): 441bp before exon 7 - 4.000000e-02 9.000000e-02 0 0 4 2 4 0 1.983427e+00 1.101796e+00 5.119915e-01 6.655889e+00 1 6.655889e+00 1 52325864 52602479 1 52325865 1 52602484 5 11 9.897573e-01 1 6 69 0 31 1 -1 -52325865 -1 -52602480 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 74 11 1 102844162 23 0 22096046 inter_chr NaN 6 0 0 0 26_samples:0 102844207 102844428 222 61 22095866 22096037 172 31 MMP13 IGR: 30Kb before MMP13(-) PHEX Intron of PHEX(+): 217bp after exon 5 - 1.100000e-01 7.000000e-02 0 0 2 1 1 0 5.707081e-01 -1.118964e+00 1 6 1 6 1 102844207 22096037 1 102844162 -45 22096046 9 5 9.937268e-01 1 1 64 0 22 1 -1 -102844208 -1 -22096038 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 72 2 1 86290863 2 1 86367621 inversion 76786 6 0 0 0 26_samples:0 86290866 86291118 253 73 86367652 86367864 213 54 POLR1A Intron of POLR1A(-): 2Kb after exon 14 PTCD3 3'-UTR of PTCD3(+): 3Kb after coding stop - 0 0 0 0 1 1 1 0 1.246577e+00 1.764513e-01 9.852295e-01 5.911377e+00 1 5.911377e+00 1 86290866 86367652 1 86290863 -3 86367621 -31 3 9.743464e-01 1 0 74 1 T 12 1 -1 -86290867 -1 -86367653 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 71 11 0 42513584 11 1 42517763 deletion 4211 7 0 0 0 26_samples:0 42513260 42513553 294 62 42517764 42517972 209 48 API5 IGR: 820Kb before API5(+) API5 IGR: 816Kb before API5(+) - 0 0 3.200000e-01 1.900000e-01 6 2 2 2 6.270305e-01 -1.614831e-01 8.242664e-01 5.769865e+00 1 5.769865e+00 1 42513553 42517764 1 42513584 31 42517763 -1 6 9.085912e-01 0 1 70 0 12 1 -1 -42513554 -1 -42517765 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 60 1 0 153198633 1 1 153202011 deletion 3444 9 0 0 0 26_samples:0 153198337 153198597 261 52 153202041 153202202 162 22 LELP1 IGR: 23Kb before LELP1(+) LELP1 IGR: 26Kb before LELP1(+) - 0 0 4.400000e-01 2.400000e-01 1 2 1 0 3.436824e-02 -1.884036e+00 6.338742e-01 5.704868e+00 1 5.704868e+00 1 153198597 153202041 1 153198633 36 153202011 -30 10 9.332557e-01 0 3 68 0 24 1 -1 -153198598 -1 -153202042 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 73 4 0 63903633 9 0 31780967 inter_chr NaN 6 0 0 0 26_samples:0 63903405 63903634 230 58 31780701 31780950 250 76 TECRL IGR: 1Mb before TECRL(-) ACO1 IGR: 604Kb before ACO1(+) - 0 0 8.000000e-02 2.200000e-01 1 0 3 0 4.017409e-01 1.415544e+00 9.330492e-01 5.598295e+00 1 5.598295e+00 1 63903634 31780950 1 63903633 -1 31780967 17 6 9.634992e-01 0 1 54 0 12 1 -1 -63903635 -1 -31780951 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 16 8 0 51430016 8 0 58614729 long_range 7184712 22 0 0 0 26_samples:0 51429699 51430012 314 75 58614431 58614724 294 76 SNTG1 Intron of SNTG1(+): 13Kb before exon 10 FAM110B IGR: 292Kb before FAM110B(+) - 5.000000e-02 8.000000e-02 0 0 7 1 2 0 1.871379e+00 1.954439e+00 2.447317e-01 5.384098e+00 1 5.384098e+00 1 51430012 58614724 1 51430016 4 58614729 5 11 9.818725e-01 0 3 72 0 44 1 -1 -51430013 -1 -58614725 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 83 4 1 75866351 17 1 57919293 inter_chr NaN 5 0 0 0 26_samples:0 75866351 75866473 123 19 57919293 57919459 167 53 PARM1 Intron of PARM1(+): 8Kb after exon 1 MIR21 IGR: 666bp before MIR21(+) - 0 0 1.500000e-01 1.300000e-01 3 1 3 0 -1.641585e+00 1.416214e-01 1 5 1 5 1 75866351 57919293 1 -1 -75866352 -1 -57919294 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -75866352 -1 -57919294 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2757 7 14 0 29763831 14 1 37188028 long_range 7424183 36 0 0 0 26_samples:0 29763507 29763836 330 56 37188019 37188317 299 68 PRKD1 IGR: 282Kb before PRKD1(-) SLC25A21 Intron of SLC25A21(-): 7Kb after exon 6 - 4.000000e-02 9.000000e-02 0 0 2 0 12 0 3.002842e-01 1.403970e+00 1.362287e-01 4.904232e+00 1 4.904232e+00 1 29763836 37188019 1 29763831 -5 37188028 9 15 9.352758e-01 0 2 66 17 GTATAACCTCAAACCAT 24 1 -1 -29763837 -1 -37188020 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 36 11 0 1385568 11 1 2320980 deletion 935415 15 0 0 0 26_samples:0 1385243 1385563 321 80 2320978 2321271 294 74 BRSK2 IGR: 26Kb before BRSK2(+) C11orf21 Intron of C11orf21(-): 41bp before exon 4 - 0 0 0 0 2 0 1 0 2.136211e+00 1.674296e+00 3.102593e-01 4.653889e+00 1 4.653889e+00 1 1385563 2320978 1 1385568 5 2320980 2 9 9.283665e-01 0 2 66 0 20 1 -1 -1385564 -1 -2320979 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 26 8 1 34846934 8 1 58118486 long_range 23271557 17 0 0 0 26_samples:0 34846944 34847243 300 73 58118501 58118835 335 82 UNC5D IGR: 246Kb before UNC5D(+) C8orf71 IGR: 74Kb before C8orf71(+) - 0 0 1.500000e-01 1.800000e-01 2 1 3 3 1.597310e+00 2.290182e+00 2.618914e-01 4.452153e+00 1 4.452153e+00 1 34846944 58118501 1 34846934 -10 58118486 -15 4 8.715371e-01 1 3 73 0 49 1 -1 -34846945 -1 -58118502 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 84 9 0 139375828 9 1 139396772 deletion 21109 5 0 0 0 26_samples:0 139375550 139375712 163 34 139396821 139396926 106 28 SEC16A 5'-UTR of SEC16A(-): 4Kb before coding start NOTCH1 Exon 28 of NOTCH1(-) Protein fusion: mid-exon (NOTCH1-SEC16A) 3.500000e-01 3.100000e-01 0 0 2 2 4 0 -8.548760e-01 -1.169559e+00 8.151182e-01 4.075591e+00 1 4.075591e+00 1 139375712 139396821 1 139375828 116 139396772 -49 2 9.569977e-01 0 2 82 0 5 1 -1 -139375713 -1 -139396822 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 94 2 1 84182927 5 0 45511136 inter_chr NaN 4 0 0 0 26_samples:0 84182969 84183088 120 18 45510956 45511125 170 36 FUNDC2P2 IGR: 335Kb before FUNDC2P2(+) HCN1 Intron of HCN1(-): 49Kb before exon 3 - 0 0 0 0 1 1 1 0 -1.460041e+00 -6.223790e-01 1 4 1 4 1 84182969 45511125 1 84182927 -42 45511136 11 2 9.650811e-01 1 3 71 0 16 1 -1 -84182970 -1 -45511126 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 110 8 1 37390366 8 1 128096029 long_range 90705617 4 0 0 0 26_samples:0 37390434 37390574 141 25 128096051 128096281 231 67 ZNF703 IGR: 163Kb before ZNF703(+) POU5F1B IGR: 332Kb before POU5F1B(+) - 0 0 0 0 2 0 1 1 -1.134284e+00 8.202615e-01 1 4 1 4 1 37390434 128096051 1 37390366 -68 128096029 -22 3 9.645336e-01 1 1 71 6 TAAAAG 16 1 -1 -37390435 -1 -128096052 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2757 115 11 0 90491435 11 1 103192575 long_range 12701245 4 0 0 0 26_samples:0 90491185 90491396 212 56 103192641 103192825 185 50 CHORDC1 IGR: 558Kb before CHORDC1(-) DYNC2H1 Intron of DYNC2H1(+): 675bp after exon 82 - 0 0 0 0 1 0 1 0 3.083568e-01 2.913607e-02 1 4 1 4 1 90491396 103192641 1 90491435 39 103192575 -66 6 9.857563e-01 0 3 81 0 16 1 -1 -90491397 -1 -103192642 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 1 3 1 189634514 3 0 189645842 tandem_dup 11345 310 0 0 0 26_samples:0 189634507 189634847 341 58 189645484 189645852 369 59 LEPREL1 IGR: 40Kb before LEPREL1(-) LEPREL1 IGR: 29Kb before LEPREL1(-) - 0 0 0 0 10 1 5 0 3.778361e-01 4.726269e-01 9.988437e-01 3.096416e+02 1 3.096416e+02 1 189634507 189645852 1 189634514 7 189645842 -10 20 9.929358e-01 1 1 71 0 306 1 189634303 -204 189645691 -161 1 8.002164e-01 1 4 84 1 A 12 1 2.550000e+01 LUSC-66-2766 3 3 1 189656583 3 0 189684848 tandem_dup 28263 105 0 0 0 26_samples:0 189656587 189656851 265 40 189684557 189684850 294 51 LEPREL1 IGR: 18Kb before LEPREL1(-) LEPREL1 Intron of LEPREL1(-): 3Kb before exon 14 - 0 0 0 0 5 0 5 1 -1.328399e+00 -2.856997e-01 9.999948e-01 1.049995e+02 1 1.049995e+02 1 189656587 189684850 1 189656583 -4 189684848 -2 20 8.911975e-01 1 1 73 1 G 94 1 -1 -189656588 -1 -189684851 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 4 3 1 189588578 3 1 189593704 inversion 5134 79 0 0 0 26_samples:0 189588576 189588931 356 63 189593710 189594045 336 63 TP63 Intron of TP63(+): 1Kb after exon 9 TP63 Intron of TP63(+): 3Kb after exon 10 - 0 0 0 0 2 0 1 1 8.517902e-01 8.517902e-01 1 79 1 79 1 189588576 189593710 1 189588578 2 189593704 -6 20 8.173308e-01 1 0 74 0 76 1 -1 -189588577 -1 -189593711 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 6 17 0 57940797 17 1 57942901 deletion 2087 67 0 0 0 26_samples:0 57940473 57940805 333 62 57942892 57943193 302 59 TUBD1 Intron of TUBD1(-): 220bp after exon 8 TUBD1 Intron of TUBD1(-): 1Kb after exon 7 Deletion of 1 exon: out of frame 1.000000e-02 4.000000e-02 3.000000e-02 1.000000e-01 2 1 4 0 7.569994e-01 4.726269e-01 1 67 1 67 1 57940805 57942892 1 57940797 -8 57942901 9 20 9.880803e-01 0 0 84 0 74 1 57940745 -60 57942689 -203 8 8.199008e-01 0 2 98 0 23 1 3.217391e+00 LUSC-66-2766 8 18 1 37925414 22 1 18965146 inter_chr NaN 63 0 0 0 26_samples:0 37925415 37925714 300 54 18965145 18965470 326 64 KC6 IGR: 1Mb before KC6(-) DGCR5 5'-UTR of DGCR5(+): 17Kb before coding start - 0 0 0 0 3 1 3 1 -1.327241e-03 9.465811e-01 1 63 1 63 1 37925415 18965145 1 37925414 -1 18965146 1 20 8.930157e-01 1 0 68 0 70 1 -1 -37925416 -1 -18965146 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 9 9 0 102454010 9 1 102455280 deletion 1289 57 0 0 0 26_samples:0 102453661 102454005 345 61 102455294 102455571 278 49 NR4A3 IGR: 130Kb before NR4A3(+) NR4A3 IGR: 129Kb before NR4A3(+) - 0 0 0 0 1 1 0 0 6.622086e-01 -4.752814e-01 1 57 1 57 1 102454005 102455294 1 102454010 5 102455280 -14 20 9.218400e-01 0 3 71 0 28 1 -1 -102454006 -1 -102455295 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 7 18 0 19140159 18 1 21347634 long_range 2207471 66 0 0 0 26_samples:0 19139846 19140164 319 55 21347635 21347936 302 61 ESCO1 Intron of ESCO1(-): 656bp after exon 8 LAMA3 Intron of LAMA3(+): 4Kb after exon 8 - 0 0 1.000000e-02 9.000000e-02 7 1 3 2 9.346359e-02 6.622086e-01 8.625834e-01 5.693050e+01 1 5.693050e+01 1 19140164 21347635 1 19140159 -5 21347634 -1 20 9.467142e-01 0 2 60 0 83 1 -1 -19140165 -1 -21347636 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 11 2 0 57199138 2 1 57205228 deletion 6079 55 0 0 0 26_samples:0 57198856 57199141 286 57 57205220 57205535 316 66 CCDC85A IGR: 788Kb before CCDC85A(+) CCDC85A IGR: 794Kb before CCDC85A(+) - 1.000000e-02 0 0 3.000000e-02 2 2 0 1 2.830453e-01 1.136163e+00 9.974819e-01 5.486150e+01 1 5.486150e+01 1 57199141 57205220 1 57199138 -3 57205228 8 20 9.965958e-01 0 3 79 0 65 1 57199348 207 57205360 140 1 9.050272e-01 0 6 81 0 4 1 1.625000e+01 LUSC-66-2766 12 3 0 191446464 3 1 191447542 deletion 1066 52 0 0 0 26_samples:0 191446171 191446472 302 58 191447538 191447865 328 59 PYDC2 IGR: 268Kb before PYDC2(+) PYDC2 IGR: 269Kb before PYDC2(+) - 0 0 0 0 0 1 3 0 3.778361e-01 4.726269e-01 1 52 1 52 1 191446472 191447538 1 191446464 -8 191447542 4 20 9.769303e-01 0 3 63 0 49 1 -1 -191446473 -1 -191447539 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 13 3 1 107423739 3 0 107426926 tandem_dup 3183 51 0 0 0 26_samples:0 107423735 107424077 343 67 107426638 107426918 281 55 BBX 5'-UTR of BBX(+): 6Kb before coding start BBX 5'-UTR of BBX(+): 2Kb before coding start Duplication within transcript 0 0 0 0 1 1 1 1 1.230954e+00 9.346359e-02 9.878310e-01 5.037938e+01 1 5.037938e+01 1 107423735 107426918 1 107423739 4 107426926 8 20 9.381863e-01 1 0 72 0 56 1 -1 -107423736 -1 -107426919 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 16 2 1 61645038 2 0 61658015 tandem_dup 12985 48 0 0 0 26_samples:0 61645035 61645340 306 56 61657741 61658020 280 53 USP34 Intron of USP34(-): 3Kb after exon 2 USP34 Intron of USP34(-): 10Kb before exon 2 Duplication of 1 exon: out of frame 2.000000e-02 1.000000e-01 0 0 3 2 4 1 1.882544e-01 -9.611807e-02 1 48 1 48 1 61645035 61658020 1 61645038 3 61658015 -5 20 9.780851e-01 1 2 79 0 50 1 -1 -61645036 -1 -61658021 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 5 3 1 189602801 3 0 189679821 tandem_dup 77031 75 0 0 0 26_samples:0 189602795 189603123 329 70 189679517 189679826 310 62 TP63 Intron of TP63(+): 1Kb before exon 11 LEPREL1 Intron of LEPREL1(-): 2Kb after exon 14 - 0 0 0 0 4 1 8 2 1.515326e+00 7.569994e-01 6.332703e-01 4.749527e+01 1 4.749527e+01 1 189602795 189679826 1 189602801 6 189679821 -5 20 9.853514e-01 1 5 68 0 139 1 -1 -189602796 -1 -189679827 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 19 18 0 38299280 22 0 22028258 inter_chr NaN 47 0 0 0 26_samples:0 38298985 38299288 304 53 22027960 22028266 307 51 KC6 IGR: 761Kb before KC6(-) PPIL2 Intron of PPIL2(+): 1Kb before exon 6 - 0 0 0 0 3 2 4 0 -9.611807e-02 -2.856997e-01 1 47 1 47 1 38299288 22028266 1 38299280 -8 22028258 -8 20 9.907322e-01 0 3 63 0 54 1 -1 -38299289 -1 -22028267 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 20 5 1 121215933 5 0 121219562 tandem_dup 3632 46 0 0 0 26_samples:0 121215935 121216227 293 55 121219275 121219567 293 55 FTMT IGR: 28Kb before FTMT(+) FTMT IGR: 32Kb before FTMT(+) - 0 0 0 0 1 1 1 0 9.346359e-02 9.346359e-02 1 46 1 46 1 121215935 121219567 1 121215933 -2 121219562 -5 20 9.905130e-01 1 0 84 0 59 1 121215732 -203 121219728 161 2 8.072516e-01 1 3 81 0 12 1 4.916667e+00 LUSC-66-2766 22 18 1 19132743 18 1 19138883 inversion 6134 46 0 0 0 26_samples:0 19132738 19133037 300 57 19138872 19139189 318 62 ESCO1 Intron of ESCO1(-): 8Kb after exon 8 ESCO1 Intron of ESCO1(-): 2Kb after exon 8 Antisense fusion 0 3.000000e-02 0 0 3 1 3 1 2.830453e-01 7.569994e-01 1 46 1 46 1 19132738 19138872 1 19132743 5 19138883 11 20 9.882440e-01 1 3 60 0 67 1 19132537 -201 19138921 49 1 7.534352e-01 1 0 67 29 GTGAGTTAATTAAACCTCTCTCCTTTATA 24 1 2.791667e+00 LUSC-66-2766 21 14 0 87870861 14 1 87872771 deletion 1902 46 0 0 0 26_samples:0 87870608 87870865 258 51 87872767 87873109 343 68 GALC IGR: 528Kb before GALC(-) GALC IGR: 527Kb before GALC(-) - 3.000000e-02 8.000000e-02 0 0 0 1 1 1 -2.856997e-01 1.325744e+00 9.665902e-01 4.446315e+01 1 4.446315e+01 1 87870865 87872767 1 87870861 -4 87872771 4 13 9.413604e-01 0 0 74 0 23 1 -1 -87870866 -1 -87872768 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 24 3 1 144561526 3 1 144567990 inversion 6453 44 0 0 0 26_samples:0 144561529 144561824 296 53 144567982 144568306 325 64 C3orf58 IGR: 869Kb before C3orf58(+) C3orf58 IGR: 876Kb before C3orf58(+) - 0 0 0 0 3 2 1 0 -9.611807e-02 9.465811e-01 1 44 1 44 1 144561529 144567982 1 144561526 -3 144567990 8 20 9.872571e-01 1 6 83 0 43 1 -1 -144561530 -1 -144567983 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 27 12 1 125957753 12 0 125969321 tandem_dup 11569 44 0 0 0 26_samples:0 125957752 125958060 309 46 125969009 125969321 313 58 TMEM132B Intron of TMEM132B(+): 46Kb before exon 4 TMEM132B Intron of TMEM132B(+): 35Kb before exon 4 Duplication within intron 0 0 3.000000e-02 0 4 0 2 0 -7.596539e-01 3.778361e-01 1 44 1 44 1 125957752 125969321 1 125957753 1 125969321 0 20 9.703069e-01 1 0 84 0 57 1 -1 -125957753 -1 -125969322 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 26 5 1 142096419 5 0 142103021 tandem_dup 6611 44 0 0 0 26_samples:0 142096418 142096709 292 65 142102697 142103029 333 63 ARHGAP26 IGR: 54Kb before ARHGAP26(+) ARHGAP26 IGR: 47Kb before ARHGAP26(+) - 0 0 2.000000e-02 4.000000e-02 3 0 1 2 1.041372e+00 8.517902e-01 9.999292e-01 4.399688e+01 1 4.399688e+01 1 142096418 142103029 1 142096419 1 142103021 -8 18 9.883436e-01 1 2 79 0 38 1 142096217 -201 142102899 -130 3 7.855008e-01 1 0 81 34 GCCTCCCAGGGCCATCTGGTGATGTCTGAGACAC 27 1 1.407407e+00 LUSC-66-2766 25 3 0 160617481 3 1 160621877 deletion 4289 44 0 0 0 26_samples:0 160617282 160617584 303 59 160621873 160622178 306 62 PPM1L Intron of PPM1L(+): 62Kb before exon 2 PPM1L Intron of PPM1L(+): 58Kb before exon 2 Deletion within intron 0 0 0 0 5 1 5 1 4.726269e-01 7.569994e-01 9.931495e-01 4.369858e+01 1 4.369858e+01 1 160617584 160621873 1 160617481 -103 160621877 4 6 8.238976e-01 0 0 72 0 38 1 -1 -160617585 -1 -160621874 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 28 15 0 98148909 15 1 98224837 deletion 75930 43 0 0 0 26_samples:0 98148585 98148909 325 65 98224839 98225189 351 64 LOC91948 IGR: 137Kb before LOC91948(-) LOC91948 IGR: 61Kb before LOC91948(-) - 0 0 0 0 1 0 2 1 1.041372e+00 9.465811e-01 9.999292e-01 4.299696e+01 1 4.299696e+01 1 98148909 98224839 1 98148909 0 98224837 -2 20 9.915773e-01 0 2 66 0 51 1 -1 -98148910 -1 -98224840 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 14 16 0 3788223 16 1 3802432 deletion 14204 51 0 0 0 26_samples:0 3787936 3788227 292 52 3802431 3802726 296 53 CREBBP Intron of CREBBP(-): 333bp after exon 26 CREBBP Intron of CREBBP(-): 624bp before exon 20 Deletion of 7 exons: in frame 1.400000e-01 9.000000e-02 0 0 3 2 7 0 -1.909089e-01 -9.611807e-02 8.300815e-01 4.233416e+01 1 4.233416e+01 1 3788227 3802431 1 3788223 -4 3802432 1 20 9.734322e-01 0 2 72 0 31 1 -1 -3788228 -1 -3802432 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 30 15 0 98228471 15 1 98229424 deletion 955 42 0 0 0 26_samples:0 98228183 98228479 297 58 98229434 98229751 318 59 LOC91948 IGR: 57Kb before LOC91948(-) LOC91948 IGR: 56Kb before LOC91948(-) - 0 0 0 0 1 0 1 1 3.778361e-01 4.726269e-01 1 42 1 42 1 98228479 98229434 1 98228471 -8 98229424 -10 20 9.931023e-01 0 4 68 0 42 1 -1 -98228480 -1 -98229435 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 33 23 0 8358781 23 1 8361771 deletion 2973 41 0 0 0 26_samples:0 8358485 8358792 308 56 8361765 8362076 312 63 VCX3B IGR: 74Kb before VCX3B(+) VCX3B IGR: 71Kb before VCX3B(+) - 0 0 0 0 0 0 1 0 1.882544e-01 8.517902e-01 1 41 1 41 1 8358792 8361765 1 8358781 -11 8361771 6 20 9.802400e-01 0 2 85 0 33 1 8358817 25 8361564 -201 1 8.101378e-01 0 0 77 1 G 5 1 6.600000e+00 LUSC-66-2766 32 16 0 33611254 16 1 33612452 deletion 1209 41 0 0 0 26_samples:0 33610984 33611248 265 67 33612457 33612783 327 67 TP53TG3 IGR: 350Kb before TP53TG3(+) TP53TG3 IGR: 351Kb before TP53TG3(+) - 9.000000e-02 0 5.000000e-02 4.000000e-02 1 0 2 0 1.230954e+00 1.230954e+00 9.758100e-01 4.000821e+01 1 4.000821e+01 1 33611248 33612457 1 33611254 6 33612452 -5 20 9.411945e-01 0 0 81 0 40 1 -1 -33611249 -1 -33612458 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 35 11 1 12873171 11 0 12896649 tandem_dup 23475 40 0 0 0 26_samples:0 12873177 12873438 262 53 12896392 12896652 261 46 TEAD1 Intron of TEAD1(+): 11Kb before exon 4 TEAD1 Intron of TEAD1(+): 5Kb before exon 6 Duplication of 2 exons: out of frame 1.000000e-02 3.000000e-02 0 0 3 1 2 1 -9.611807e-02 -7.596539e-01 1 40 1 40 1 12873177 12896652 1 12873171 -6 12896649 -3 20 9.550996e-01 1 2 69 0 41 1 -1 -12873178 -1 -12896653 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 31 3 0 155599716 3 1 157230573 long_range 1630846 41 0 0 0 26_samples:0 155599435 155599726 292 55 157230572 157230910 339 68 GMPS Intron of GMPS(+): 11Kb after exon 1 C3orf55 IGR: 31Kb before C3orf55(+) - 0 0 0 0 2 0 2 1 9.346359e-02 1.325744e+00 9.665902e-01 3.963020e+01 1 3.963020e+01 1 155599726 157230572 1 155599716 -10 157230573 1 20 9.687521e-01 0 2 80 0 68 1 -1 -155599727 -1 -157230573 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 17 3 1 189595982 3 0 189602800 tandem_dup 6807 48 0 0 0 26_samples:0 189595983 189596323 341 66 189602506 189602790 285 56 TP63 Intron of TP63(+): 2Kb before exon 11 TP63 Intron of TP63(+): 1Kb before exon 11 Duplication within intron 7.000000e-02 2.000000e-01 0 0 5 1 7 1 1.136163e+00 1.882544e-01 8.188265e-01 3.930367e+01 1 3.930367e+01 1 189595983 189602790 1 189595982 -1 189602800 10 20 9.422997e-01 1 0 74 3 TTG 80 1 -1 -189595984 -1 -189602791 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 36 3 1 64227954 3 0 64233400 tandem_dup 5442 39 0 0 0 26_samples:0 64227957 64228261 305 57 64233099 64233399 301 54 PRICKLE2 IGR: 17Kb after PRICKLE2(-) PRICKLE2 IGR: 22Kb after PRICKLE2(-) - 0 0 0 0 1 0 0 0 2.830453e-01 -1.327241e-03 1 39 1 39 1 64227957 64233399 1 64227954 -3 64233400 1 20 9.757603e-01 1 0 78 0 41 1 -1 -64227958 -1 -64233400 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 37 6 0 125558092 6 0 125563396 inversion 5296 39 0 0 0 26_samples:0 125557767 125558098 332 64 125563097 125563394 298 63 TPD52L1 Intron of TPD52L1(+): 8Kb after exon 3 TPD52L1 Intron of TPD52L1(+): 6Kb before exon 4 Antisense fusion 0 0 0 2.000000e-02 1 1 3 0 9.465811e-01 8.517902e-01 1 39 1 39 1 125558098 125563394 1 125558092 -6 125563396 2 20 9.926097e-01 0 3 88 0 54 1 -1 -125558099 -1 -125563395 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 39 8 0 107343987 8 1 107349441 deletion 5459 39 0 0 0 26_samples:0 107343710 107343984 275 51 107349443 107349716 274 46 OXR1 5'-UTR of OXR1(+): 28Kb before coding start OXR1 5'-UTR of OXR1(+): 22Kb before coding start Deletion within transcript 2.000000e-02 7.000000e-02 0 0 1 1 4 1 -2.856997e-01 -7.596539e-01 1 39 1 39 1 107343984 107349443 1 107343987 3 107349441 -2 20 9.963107e-01 0 2 70 0 37 1 -1 -107343985 -1 -107349444 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 41 3 1 46631748 3 0 46640491 tandem_dup 8719 38 0 0 0 26_samples:0 46631744 46632061 318 66 46640220 46640463 244 63 TDGF1 IGR: 8Kb after TDGF1(+) TDGF1 IGR: 21Kb before TDGF1(+) - 1.000000e-02 3.000000e-02 0 0 2 1 2 3 1.136163e+00 8.517902e-01 9.974819e-01 3.790431e+01 1 3.790431e+01 1 46631744 46640463 1 46631748 4 46640491 28 20 9.613831e-01 1 0 65 2 TA 44 1 -1 -46631745 -1 -46640464 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 44 3 1 100581357 3 0 100588525 tandem_dup 7183 37 0 0 0 26_samples:0 100581349 100581648 300 52 100588251 100588532 282 46 ABI3BP Intron of ABI3BP(-): 120bp before exon 12 ABI3BP Intron of ABI3BP(-): 3Kb before exon 10 Duplication of 2 exons: in frame 0 0 1.000000e-02 4.000000e-02 2 1 3 1 -1.909089e-01 -7.596539e-01 1 37 1 37 1 100581349 100588532 1 100581357 8 100588525 -7 20 9.898194e-01 1 3 77 0 36 1 -1 -100581350 -1 -100588533 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 46 8 0 138616381 8 1 138618296 deletion 1905 37 0 0 0 26_samples:0 138616103 138616385 283 60 138618290 138618590 301 62 FAM135B IGR: 526Kb before FAM135B(-) FAM135B IGR: 524Kb before FAM135B(-) - 0 0 0 0 1 0 0 0 5.674177e-01 7.569994e-01 1 37 1 37 1 138616385 138618290 1 138616381 -4 138618296 6 20 9.961462e-01 0 4 72 0 41 1 -1 -138616386 -1 -138618291 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 47 16 1 80409936 16 0 80424604 tandem_dup 14669 37 0 0 0 26_samples:0 80409931 80410218 288 64 80424321 80424600 280 54 DYNLRB2 IGR: 165Kb before DYNLRB2(+) DYNLRB2 IGR: 150Kb before DYNLRB2(+) - 0 0 0 0 3 0 3 1 9.465811e-01 -1.327241e-03 1 37 1 37 1 80409931 80424600 1 80409936 5 80424604 4 20 9.896453e-01 1 2 74 0 25 1 -1 -80409932 -1 -80424601 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 49 2 1 109534306 2 0 109546467 tandem_dup 12154 36 0 0 0 26_samples:0 109534298 109534607 310 54 109546195 109546452 258 53 EDAR Intron of EDAR(-): 5Kb before exon 6 EDAR Intron of EDAR(-): 124bp after exon 3 Duplication of 2 exons: out of frame 0 0 0 0 2 0 1 0 -1.327241e-03 -9.611807e-02 1 36 1 36 1 109534298 109546452 1 109534306 8 109546467 15 13 9.420737e-01 1 3 71 0 30 1 -1 -109534299 -1 -109546453 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 53 5 1 4259662 5 0 4268956 tandem_dup 9282 36 0 0 0 26_samples:0 4259660 4259968 309 64 4268634 4268942 309 62 IRX1 IGR: 663Kb before IRX1(+) IRX1 IGR: 673Kb before IRX1(+) - 0 0 1.000000e-02 2.000000e-02 1 0 0 1 9.465811e-01 7.569994e-01 1 36 1 36 1 4259660 4268942 1 4259662 2 4268956 14 20 9.085762e-01 1 3 60 3 GCC 38 1 -1 -4259661 -1 -4268943 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 54 6 1 125376027 6 1 125558567 inversion 182543 36 0 0 0 26_samples:0 125376023 125376312 290 59 125558566 125558854 289 60 RNF217 Intron of RNF217(+): 3Kb before exon 5 TPD52L1 Intron of TPD52L1(+): 8Kb after exon 3 - 0 0 0 0 1 1 4 1 4.726269e-01 5.674177e-01 1 36 1 36 1 125376023 125558566 1 125376027 4 125558567 1 20 9.907387e-01 1 4 66 0 29 1 -1 -125376024 -1 -125558567 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 55 12 0 19298574 12 1 19415731 deletion 117143 36 0 0 0 26_samples:0 19298293 19298584 292 55 19415727 19416025 299 59 PLEKHA5 Intron of PLEKHA5(+): 13Kb after exon 3 PLEKHA5 Intron of PLEKHA5(+): 2Kb after exon 7 Deletion of 4 exons: out of frame 0 0 0 0 2 0 4 1 9.346359e-02 4.726269e-01 1 36 1 36 1 19298584 19415727 1 19298574 -10 19415731 4 20 9.858785e-01 0 2 75 0 40 1 -1 -19298585 -1 -19415728 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 52 3 0 127847736 3 1 127852251 deletion 4517 36 0 0 0 26_samples:0 127847496 127847732 237 52 127852249 127852560 312 65 RUVBL1 IGR: 5Kb after RUVBL1(-) EEFSEC IGR: 20Kb before EEFSEC(+) - 0 0 0 2.000000e-02 1 1 1 1 -1.909089e-01 1.041372e+00 9.999292e-01 3.599745e+01 1 3.599745e+01 1 127847732 127852249 1 127847736 4 127852251 2 20 9.731556e-01 0 4 68 0 46 1 -1 -127847733 -1 -127852250 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 51 3 1 94337749 3 0 97680881 long_range 3343139 36 0 0 0 26_samples:0 94337745 94338008 264 41 97680586 97680884 299 57 LOC255025 IGR: 319Kb before LOC255025(+) MINA Intron of MINA(-): 332bp before exon 3 - 7.000000e-02 1.400000e-01 0 0 2 1 5 1 -1.233608e+00 2.830453e-01 9.951964e-01 3.582707e+01 1 3.582707e+01 1 94337745 97680884 1 94337749 4 97680881 -3 20 9.923049e-01 1 1 71 0 66 1 -1 -94337746 -1 -97680885 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 56 20 0 1405227 20 0 1424029 inversion 18783 36 0 0 0 26_samples:0 1404910 1405224 315 67 1423777 1424007 231 60 NSFL1C IGR: 18Kb before NSFL1C(-) NSFL1C 3'-UTR of NSFL1C(-): 387bp after coding stop - 0 0 0 0 3 0 2 0 1.230954e+00 5.674177e-01 9.878310e-01 3.556191e+01 1 3.556191e+01 1 1405224 1424007 1 1405227 3 1424029 22 14 9.762702e-01 0 3 66 0 35 1 -1 -1405225 -1 -1424008 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 59 12 1 72313630 12 0 72329052 tandem_dup 15427 35 0 0 0 26_samples:0 72313629 72313934 306 55 72328756 72329056 301 52 TBC1D15 Intron of TBC1D15(+): 882bp before exon 15 TPH2 IGR: 4Kb before TPH2(+) - 0 0 0 0 2 1 2 0 9.346359e-02 -1.909089e-01 1 35 1 35 1 72313629 72329056 1 72313630 1 72329052 -4 20 9.985215e-01 1 0 65 0 34 1 -1 -72313630 -1 -72329057 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 58 10 1 34391816 10 0 34401665 tandem_dup 9849 35 0 0 0 26_samples:0 34391815 34392133 319 55 34401330 34401664 335 66 PARD3 IGR: 7Kb before PARD3(-) PARD3 Intron of PARD3(-): 1Kb before exon 23 - 0 0 0 0 0 1 0 0 9.346359e-02 1.136163e+00 9.974819e-01 3.491187e+01 1 3.491187e+01 1 34391815 34401664 1 34391816 1 34401665 1 20 9.826971e-01 1 4 70 0 36 1 -1 -34391816 -1 -34401665 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 50 3 0 46634492 3 1 46635506 deletion 1006 36 0 0 0 26_samples:0 46634172 46634497 326 68 46635503 46635803 301 66 TDGF1 IGR: 15Kb before TDGF1(+) TDGF1 IGR: 16Kb before TDGF1(+) - 2.000000e-02 4.000000e-02 0 5.000000e-02 3 2 0 2 1.325744e+00 1.136163e+00 9.641562e-01 3.470962e+01 1 3.470962e+01 1 46634497 46635503 1 46634492 -5 46635506 3 20 9.920607e-01 0 2 74 0 40 1 -1 -46634498 -1 -46635504 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 38 8 1 10220338 8 0 10223425 tandem_dup 3094 39 0 0 0 26_samples:0 10220337 10220650 314 64 10223096 10223431 336 70 MSRA Intron of MSRA(+): 43Kb after exon 5 MSRA Intron of MSRA(+): 46Kb after exon 5 Duplication within intron 0 0 0 0 0 0 2 1 9.465811e-01 1.515326e+00 8.796232e-01 3.430530e+01 1 3.430530e+01 1 10220337 10223431 1 10220338 1 10223425 -6 18 9.848787e-01 1 1 74 0 32 1 -1 -10220338 -1 -10223432 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 40 9 0 9283392 9 1 9285469 deletion 2062 39 0 0 0 26_samples:0 9283095 9283400 306 64 9285462 9285804 343 70 PTPRD 5'-UTR of PTPRD(-): 550Kb before coding start PTPRD 5'-UTR of PTPRD(-): 552Kb before coding start Deletion within transcript 0 0 0 0 1 0 0 0 9.465811e-01 1.515326e+00 8.796232e-01 3.430530e+01 1 3.430530e+01 1 9283400 9285462 1 9283392 -8 9285469 7 20 9.884011e-01 0 0 79 0 26 1 -1 -9283401 -1 -9285463 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 62 3 0 142844735 3 1 142845871 deletion 1129 34 0 0 0 26_samples:0 142844404 142844740 337 61 142845869 142846176 308 64 CHST2 IGR: 6Kb before CHST2(+) CHST2 IGR: 7Kb before CHST2(+) - 0 0 0 0 1 1 0 0 6.622086e-01 9.465811e-01 1 34 1 34 1 142844740 142845869 1 142844735 -5 142845871 2 20 9.816395e-01 0 2 76 0 38 1 -1 -142844741 -1 -142845870 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 42 17 1 57920589 17 0 57946007 tandem_dup 25425 38 0 0 0 26_samples:0 57920583 57920929 347 70 57945715 57946008 294 66 MIR21 IGR: 2Kb before MIR21(+) TUBD1 Intron of TUBD1(-): 2Kb before exon 7 - 0 0 1.000000e-02 8.000000e-02 3 0 2 1 1.515326e+00 1.136163e+00 8.774081e-01 3.334151e+01 1 3.334151e+01 1 57920583 57946008 1 57920589 6 57946007 -1 20 9.479105e-01 1 0 74 19 AGAAGTGCAGTGGTGTAAT 75 1 -1 -57920584 -1 -57946009 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 15 3 1 160454724 3 1 160458314 inversion 3585 50 0 0 0 26_samples:0 160454725 160455031 307 56 160458310 160458639 330 73 PPM1L IGR: 19Kb before PPM1L(+) PPM1L IGR: 16Kb before PPM1L(+) - 0 0 0 0 1 0 3 1 1.882544e-01 1.799699e+00 6.616288e-01 3.308144e+01 1 3.308144e+01 1 160454725 160458310 1 160454724 -1 160458314 4 20 9.880999e-01 1 6 71 0 75 1 -1 -160454726 -1 -160458311 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 63 1 1 165010472 1 0 165014675 tandem_dup 4202 33 0 0 0 26_samples:0 165010468 165010747 280 59 165014353 165014670 318 63 LMX1A IGR: 161Kb before LMX1A(-) LMX1A IGR: 156Kb before LMX1A(-) - 0 0 0 0 2 0 0 1 4.726269e-01 8.517902e-01 1 33 1 33 1 165010468 165014670 1 165010472 4 165014675 5 20 9.880940e-01 1 2 72 0 33 1 -1 -165010469 -1 -165014671 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 64 2 1 366363 2 0 370907 tandem_dup 4537 33 0 0 0 26_samples:0 366369 366648 280 60 370623 370906 284 58 FAM150B IGR: 87Kb before FAM150B(-) FAM150B IGR: 91Kb before FAM150B(-) - 0 0 3.000000e-02 3.000000e-02 1 0 2 3 5.674177e-01 3.778361e-01 1 33 1 33 1 366369 370906 1 366363 -6 370907 1 5 9.449678e-01 1 2 82 0 18 1 -1 -366370 -1 -370907 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 68 4 1 187668107 4 0 187670136 tandem_dup 2027 33 0 0 0 26_samples:0 187668106 187668407 302 59 187669862 187670133 272 55 FAT1 IGR: 23Kb after FAT1(-) FAT1 IGR: 25Kb after FAT1(-) - 0 3.000000e-02 0 0 1 1 1 0 4.726269e-01 9.346359e-02 1 33 1 33 1 187668106 187670133 1 187668107 1 187670136 3 20 9.699106e-01 1 3 73 0 38 1 -1 -187668107 -1 -187670134 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 70 9 0 86319352 9 1 86367414 deletion 48064 33 0 0 0 26_samples:0 86319078 86319358 281 57 86367422 86367745 324 64 UBQLN1 Intron of UBQLN1(-): 3Kb after exon 1 GKAP1 Intron of GKAP1(-): 751bp after exon 8 Protein fusion: in frame (GKAP1-UBQLN1) 0 0 0 0 1 1 2 1 2.830453e-01 9.465811e-01 1 33 1 33 1 86319358 86367422 1 86319352 -6 86367414 -8 19 9.798247e-01 0 4 68 0 28 1 86319498 140 86367219 -203 2 8.293021e-01 0 4 91 0 21 1 1.333333e+00 LUSC-66-2766 65 3 0 147348846 3 1 147350554 deletion 1694 33 0 0 0 26_samples:0 147348540 147348854 315 65 147350548 147350844 297 60 ZIC1 IGR: 222Kb before ZIC1(+) ZIC1 IGR: 223Kb before ZIC1(+) - 0 0 0 0 3 0 0 1 1.041372e+00 5.674177e-01 9.999292e-01 3.299766e+01 1 3.299766e+01 1 147348854 147350548 1 147348846 -8 147350554 6 20 9.783771e-01 0 0 59 0 46 1 -1 -147348855 -1 -147350549 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 66 3 0 160458314 3 0 160473595 inversion 15282 33 0 0 0 26_samples:0 160457991 160458313 323 61 160473327 160473595 269 58 PPM1L IGR: 16Kb before PPM1L(+) PPM1L Promoter of PPM1L(+): 401bp from tx start - 0 0 0 0 5 1 3 0 6.622086e-01 3.778361e-01 9.946007e-01 3.282182e+01 1 3.282182e+01 1 160458313 160473595 1 160458314 1 160473595 0 18 9.750421e-01 0 2 51 0 41 1 -1 -160458314 -1 -160473596 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 78 16 0 5847138 16 1 5850421 deletion 3275 32 0 0 0 26_samples:0 5846835 5847145 311 64 5850420 5850712 293 61 A2BP1 IGR: 222Kb before A2BP1(+) A2BP1 IGR: 219Kb before A2BP1(+) - 0 0 0 0 1 0 0 0 9.465811e-01 6.622086e-01 1 32 1 32 1 5847145 5850420 1 5847138 -7 5850421 1 20 9.737950e-01 0 2 77 0 36 1 -1 -5847146 -1 -5850421 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 73 3 0 128252876 3 1 128257619 deletion 4747 32 0 0 0 26_samples:0 128252590 128252867 278 61 128257614 128257988 375 65 LOC90246 IGR: 26Kb before LOC90246(+) LOC90246 IGR: 31Kb before LOC90246(+) - 4.000000e-02 5.000000e-02 0 0 2 1 3 2 6.622086e-01 1.041372e+00 9.999292e-01 3.199773e+01 1 3.199773e+01 1 128252867 128257614 1 128252876 9 128257619 5 20 9.905039e-01 0 4 78 0 36 1 -1 -128252868 -1 -128257615 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 79 3 0 34768904 3 1 36005630 long_range 1236716 31 0 0 0 26_samples:0 34768619 34768907 289 59 36005623 36005915 293 61 PDCD6IP IGR: 899Kb before PDCD6IP(+) MIR128-2 IGR: 220Kb before MIR128-2(+) - 5.000000e-02 6.000000e-02 0 0 3 1 1 0 4.726269e-01 6.622086e-01 1 31 1 31 1 34768907 36005623 1 34768904 -3 36005630 7 20 9.907248e-01 0 2 69 0 34 1 -1 -34768908 -1 -36005624 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 82 6 0 134780708 6 0 134783341 inversion 2633 31 0 0 0 26_samples:0 134780411 134780711 301 61 134783036 134783344 309 56 SGK1 IGR: 290Kb before SGK1(-) SGK1 IGR: 293Kb before SGK1(-) - 0 0 0 0 2 1 2 1 6.622086e-01 1.882544e-01 1 31 1 31 1 134780711 134783344 1 134780708 -3 134783341 -3 20 9.883844e-01 0 3 74 0 37 1 -1 -134780712 -1 -134783345 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 84 14 1 93243631 14 0 93271141 tandem_dup 27506 31 0 0 0 26_samples:0 93243632 93243908 277 50 93270837 93271138 302 55 GOLGA5 IGR: 17Kb before GOLGA5(+) GOLGA5 Intron of GOLGA5(+): 2Kb before exon 3 - 1.100000e-01 6.000000e-02 3.000000e-02 1.000000e-01 5 2 3 3 -3.804906e-01 9.346359e-02 9.941778e-01 3.081951e+01 1 3.081951e+01 1 93243632 93271138 1 93243631 -1 93271141 3 20 9.799454e-01 1 1 72 0 32 1 -1 -93243633 -1 -93271139 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 69 6 0 68238945 6 0 68809829 inversion 570895 33 0 0 0 26_samples:0 68238655 68238940 286 69 68809533 68809835 303 60 BAI3 IGR: 1Mb before BAI3(+) BAI3 IGR: 536Kb before BAI3(+) - 1.000000e-02 4.000000e-02 0 0 3 2 1 1 1.420535e+00 5.674177e-01 9.307766e-01 3.071563e+01 1 3.071563e+01 1 68238940 68809835 1 68238945 5 68809829 -6 12 9.625785e-01 0 0 69 3 AAA 39 1 -1 -68238941 -1 -68809836 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 43 18 0 36327862 22 0 17873901 inter_chr NaN 38 0 0 0 26_samples:0 36327582 36327867 286 49 17873601 17873901 301 59 LOC647946 IGR: 459Kb before LOC647946(-) CECR2 IGR: 83Kb before CECR2(+) - 0 0 1.000000e-01 1.200000e-01 7 1 3 1 -4.752814e-01 4.726269e-01 7.997413e-01 3.039017e+01 1 3.039017e+01 1 36327867 17873901 1 36327862 -5 17873901 0 20 9.844627e-01 0 0 74 0 45 1 -1 -36327868 -1 -17873902 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 85 3 1 97151334 3 1 97152696 inversion 1358 30 0 0 0 26_samples:0 97151332 97151620 289 62 97152690 97152947 258 57 EPHA6 Intron of EPHA6(+): 16Kb before exon 7 EPHA6 Intron of EPHA6(+): 15Kb before exon 7 - 0 4.000000e-02 0 0 3 1 3 1 7.569994e-01 2.830453e-01 1 30 1 30 1 97151332 97152690 1 97151334 2 97152696 6 6 9.608367e-01 1 0 77 10 AGATATAATA 31 1 -1 -97151333 -1 -97152691 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 86 6 0 55078866 6 1 55080359 deletion 1508 30 0 0 0 26_samples:0 55078577 55078849 273 56 55080357 55080637 281 55 HCRTR2 Intron of HCRTR2(+): 35Kb before exon 2 HCRTR2 Intron of HCRTR2(+): 33Kb before exon 2 Deletion within intron 0 0 0 0 1 1 0 0 1.882544e-01 9.346359e-02 1 30 1 30 1 55078849 55080357 1 55078866 17 55080359 2 16 9.600071e-01 0 0 78 13 TTCTATACCAGAA 38 1 -1 -55078850 -1 -55080358 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 88 8 0 51867672 8 1 51871297 deletion 3626 30 0 0 0 26_samples:0 51867372 51867667 296 52 51871293 51871564 272 50 PXDNL IGR: 364Kb before PXDNL(-) PXDNL IGR: 361Kb before PXDNL(-) - 0 2.000000e-02 0 0 1 0 0 0 -1.909089e-01 -3.804906e-01 1 30 1 30 1 51867667 51871293 1 51867672 5 51871297 4 20 9.926715e-01 0 1 68 0 29 1 -1 -51867668 -1 -51871294 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 89 8 1 131769967 8 0 131779416 tandem_dup 9454 30 0 0 0 26_samples:0 131769962 131770246 285 54 131779115 131779416 302 47 ADCY8 IGR: 23Kb before ADCY8(-) ADCY8 IGR: 13Kb before ADCY8(-) - 0 0 0 3.000000e-02 1 1 3 1 -1.327241e-03 -6.648631e-01 1 30 1 30 1 131769962 131779416 1 131769967 5 131779416 0 15 9.582898e-01 1 0 73 0 27 1 -1 -131769963 -1 -131779417 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 90 11 0 24003502 11 1 24005073 deletion 1569 30 0 0 0 26_samples:0 24003179 24003500 322 60 24005069 24005371 303 61 LUZP2 IGR: 515Kb before LUZP2(+) LUZP2 IGR: 513Kb before LUZP2(+) - 0 0 0 0 1 1 0 2 5.674177e-01 6.622086e-01 1 30 1 30 1 24003500 24005069 1 24003502 2 24005073 4 20 9.912695e-01 0 2 72 0 27 1 -1 -24003501 -1 -24005070 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 91 12 0 74350465 12 0 74353837 inversion 3361 30 0 0 0 26_samples:0 74350181 74350461 281 50 74353504 74353822 319 49 ATXN7L3B IGR: 581Kb before ATXN7L3B(+) ATXN7L3B IGR: 578Kb before ATXN7L3B(+) - 0 0 0 0 1 1 0 1 -3.804906e-01 -4.752814e-01 1 30 1 30 1 74350461 74353822 1 74350465 4 74353837 15 20 9.922903e-01 0 2 77 0 39 1 -1 -74350462 -1 -74353823 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 92 14 0 85437541 14 1 85438576 deletion 1047 30 0 0 0 26_samples:0 85437249 85437542 294 50 85438589 85438908 320 53 FLRT2 IGR: 559Kb before FLRT2(+) FLRT2 IGR: 558Kb before FLRT2(+) - 8.000000e-02 2.000000e-02 0 0 2 1 2 1 -3.804906e-01 -9.611807e-02 1 30 1 30 1 85437542 85438589 1 85437541 -1 85438576 -13 20 9.815565e-01 0 0 70 0 37 1 -1 -85437543 -1 -85438590 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 95 18 1 627473 18 0 632987 tandem_dup 5522 30 0 0 0 26_samples:0 627471 627775 305 61 632696 632993 298 58 CLUL1 Exon 5 of CLUL1(+) CLUL1 Intron of CLUL1(+): 305bp before exon 6 Duplication within transcript: mid-exon 0 0 0 3.000000e-02 3 1 0 2 6.622086e-01 3.778361e-01 1 30 1 30 1 627471 632993 1 627473 2 632987 -6 20 9.545721e-01 1 1 50 1 A 42 1 627486 15 633199 206 1 8.621227e-01 1 5 77 0 11 1 3.818182e+00 LUSC-66-2766 96 19 0 19039959 19 0 19057499 inversion 17541 30 0 0 0 26_samples:0 19039700 19039956 257 54 19057189 19057497 309 55 HOMER3 IGR: 54bp before HOMER3(-) HOMER3 IGR: 5Kb after HOMER3(-) - 0 0 0 0 1 0 2 0 -1.327241e-03 9.346359e-02 1 30 1 30 1 19039956 19057497 1 19039959 3 19057499 2 20 9.393982e-01 0 0 78 0 32 1 -1 -19039957 -1 -19057498 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 87 7 0 154057029 7 1 154058666 deletion 1648 30 0 0 0 26_samples:0 154056707 154057029 323 67 154058677 154058963 287 58 DPP6 Intron of DPP6(+): 54Kb after exon 1 DPP6 Intron of DPP6(+): 56Kb after exon 1 Deletion within intron 0 0 0 8.000000e-02 0 1 1 2 1.230954e+00 3.778361e-01 9.878310e-01 2.963493e+01 1 2.963493e+01 1 154057029 154058677 1 154057029 0 154058666 -11 11 9.475599e-01 0 4 73 0 18 1 -1 -154057030 -1 -154058678 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 98 3 0 88259202 3 1 96477371 long_range 8218170 29 0 0 0 26_samples:0 88258903 88259206 304 62 96477376 96477660 285 52 C3orf38 IGR: 60Kb before C3orf38(+) EPHA6 IGR: 56Kb before EPHA6(+) - 0 0 0 0 1 0 3 0 7.009222e-01 -1.512342e-01 1 29 1 29 1 88259206 96477376 1 88259202 -4 96477371 -5 20 9.862973e-01 0 5 68 0 42 1 -1 -88259207 -1 -96477377 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 99 3 0 190146266 3 1 190149377 deletion 3109 29 0 0 0 26_samples:0 190146014 190146273 260 50 190149382 190149656 275 55 TMEM207 IGR: 171bp before TMEM207(-) TMEM207 Intron of TMEM207(-): 2Kb before exon 5 - 0 0 0 0 1 0 1 1 -3.216655e-01 1.044127e-01 1 29 1 29 1 190146273 190149382 1 190146266 -7 190149377 -5 20 9.956628e-01 0 2 77 0 32 1 -1 -190146274 -1 -190149383 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 100 4 0 168220319 4 1 168221582 deletion 1248 29 0 0 0 26_samples:0 168219970 168220330 361 65 168221578 168221901 324 60 SPOCK3 IGR: 65Kb after SPOCK3(-) SPOCK3 IGR: 66Kb after SPOCK3(-) - 0 0 0 0 0 1 0 1 9.565691e-01 5.304909e-01 1 29 1 29 1 168220330 168221578 1 168220319 -11 168221582 4 17 9.940835e-01 0 4 71 0 23 1 -1 -168220331 -1 -168221579 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 102 6 1 129969680 6 1 129984321 inversion 14656 29 0 0 0 26_samples:0 129969674 129970010 337 62 129984330 129984615 286 58 ARHGAP18 Intron of ARHGAP18(-): 7Kb before exon 2 ARHGAP18 Intron of ARHGAP18(-): 21Kb before exon 2 Antisense fusion 0 9.000000e-02 0 0 2 1 4 0 7.009222e-01 3.600596e-01 1 29 1 29 1 129969674 129984330 1 129969680 6 129984321 -9 19 9.628232e-01 1 1 79 0 26 1 129969828 154 129984129 -201 2 8.217752e-01 1 0 68 1 C 8 1 3.250000e+00 LUSC-66-2766 103 8 0 89017708 8 1 89027636 deletion 9922 29 0 0 0 26_samples:0 89017410 89017710 301 62 89027632 89027928 297 65 MMP16 IGR: 32Kb before MMP16(-) MMP16 IGR: 22Kb before MMP16(-) - 0 0 0 0 1 0 1 0 7.009222e-01 9.565691e-01 1 29 1 29 1 89017710 89027632 1 89017708 -2 89027636 4 20 9.925614e-01 0 3 75 0 24 1 -1 -89017711 -1 -89027633 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 104 9 1 15270210 9 0 15283245 tandem_dup 13040 29 0 0 0 26_samples:0 15270214 15270492 279 62 15282902 15283254 353 63 TTC39B Intron of TTC39B(-): 2Kb before exon 2 TTC39B Intron of TTC39B(-): 15Kb before exon 2 Duplication within intron 0 0 0 0 2 0 1 1 7.009222e-01 7.861379e-01 1 29 1 29 1 15270214 15283254 1 15270210 -4 15283245 -9 17 9.602606e-01 1 2 74 0 29 1 -1 -15270215 -1 -15283255 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 108 23 0 37043233 23 1 37050251 deletion 7014 29 0 0 0 26_samples:0 37042949 37043233 285 49 37050247 37050533 287 52 FAM47C IGR: 17Kb before FAM47C(+) FAM47C IGR: 24Kb before FAM47C(+) - 0 0 0 4.000000e-02 0 0 1 0 -4.068811e-01 -1.512342e-01 1 29 1 29 1 37043233 37050247 1 37043233 0 37050251 4 19 9.893995e-01 0 2 79 0 19 1 -1 -37043234 -1 -37050248 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 109 1 0 152813713 1 1 152816903 deletion 3178 28 0 0 0 26_samples:0 152813418 152813720 303 60 152816898 152817171 274 51 LCE6A Promoter of LCE6A(+): 2Kb from tx start LCE6A IGR: 440bp after LCE6A(+) - 0 0 0 0 0 1 1 0 5.304909e-01 -2.364499e-01 1 28 1 28 1 152813720 152816898 1 152813713 -7 152816903 5 19 9.921683e-01 0 1 81 0 27 1 -1 -152813721 -1 -152816899 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 111 5 1 37624781 5 0 37632230 tandem_dup 7450 28 0 0 0 26_samples:0 37624783 37625057 275 52 37631965 37632233 269 45 WDR70 Intron of WDR70(+): 19Kb after exon 10 WDR70 Intron of WDR70(+): 27Kb after exon 10 Duplication within intron 1.000000e-02 0 0 0 1 0 1 0 -1.512342e-01 -7.477437e-01 1 28 1 28 1 37624783 37632233 1 37624781 -2 37632230 -3 20 9.393643e-01 1 0 75 1 T 43 1 -1 -37624784 -1 -37632234 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 112 6 0 5311733 6 1 5392303 deletion 80572 28 0 0 0 26_samples:0 5311471 5311727 257 43 5392299 5392559 261 47 FARS2 5'-UTR of FARS2(+): 57Kb before coding start FARS2 Intron of FARS2(+): 12Kb before exon 3 Deletion within transcript 0 0 0 0 1 0 2 0 -9.181750e-01 -5.773124e-01 1 28 1 28 1 5311727 5392299 1 5311733 6 5392303 4 20 9.927303e-01 0 3 71 0 32 1 -1 -5311728 -1 -5392300 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 114 7 0 78345824 7 1 78348437 deletion 2607 28 0 0 0 26_samples:0 78345515 78345826 312 60 78348433 78348741 309 62 MAGI2 Intron of MAGI2(-): 89Kb before exon 3 MAGI2 Intron of MAGI2(-): 92Kb before exon 3 Deletion within intron 0 0 0 0 1 1 0 0 5.304909e-01 7.009222e-01 1 28 1 28 1 78345826 78348433 1 78345824 -2 78348437 4 19 9.828327e-01 0 2 57 0 25 1 -1 -78345827 -1 -78348434 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 115 7 0 131654326 7 1 131658603 deletion 4275 28 0 0 0 26_samples:0 131654054 131654328 275 56 131658603 131658884 282 59 PLXNA4 IGR: 154Kb before PLXNA4(-) PLXNA4 IGR: 149Kb before PLXNA4(-) - 0 0 0 0 0 1 2 0 1.896284e-01 4.452753e-01 1 28 1 28 1 131654328 131658603 1 131654326 -2 131658603 0 20 9.716269e-01 0 3 83 0 26 1 -1 -131654329 -1 -131658604 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 117 8 1 83532369 8 1 83534737 inversion 2367 28 0 0 0 26_samples:0 83532365 83532651 287 54 83534732 83535002 271 59 SNX16 IGR: 821Kb before SNX16(-) SNX16 IGR: 823Kb before SNX16(-) - 0 0 0 0 0 2 0 1 1.919707e-02 4.452753e-01 1 28 1 28 1 83532365 83534732 1 83532369 4 83534737 5 20 9.976534e-01 1 2 69 0 36 1 -1 -83532366 -1 -83534733 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 120 15 1 36589653 15 0 36608312 tandem_dup 18672 28 0 0 0 26_samples:0 36589649 36589964 316 64 36608016 36608321 306 55 C15orf41 IGR: 282Kb before C15orf41(+) C15orf41 IGR: 263Kb before C15orf41(+) - 0 0 0 0 2 0 1 1 8.713535e-01 1.044127e-01 1 28 1 28 1 36589649 36608321 1 36589653 4 36608312 -9 20 9.989248e-01 1 2 75 0 27 1 -1 -36589650 -1 -36608322 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 116 8 0 30795889 8 1 100007090 long_range 69211198 28 0 0 0 26_samples:0 30795590 30795894 305 61 100007092 100007386 295 66 PURG IGR: 57Kb before PURG(-) VPS13B IGR: 18Kb before VPS13B(+) - 0 0 0 0 2 1 4 0 6.157066e-01 1.041785e+00 9.999271e-01 2.799796e+01 1 2.799796e+01 1 30795894 100007092 1 30795889 -5 100007090 -2 20 9.873307e-01 0 0 63 0 31 1 -1 -30795895 -1 -100007093 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 119 12 1 74138360 12 1 74139537 inversion 1166 28 0 0 0 26_samples:0 74138364 74138652 289 59 74139530 74139838 309 66 ATXN7L3B IGR: 793Kb before ATXN7L3B(+) ATXN7L3B IGR: 792Kb before ATXN7L3B(+) - 0 0 0 0 2 1 3 0 4.452753e-01 1.041785e+00 9.999271e-01 2.799796e+01 1 2.799796e+01 1 74138364 74139530 1 74138360 -4 74139537 7 20 9.658240e-01 1 4 70 0 33 1 -1 -74138365 -1 -74139531 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 93 17 1 26200401 17 0 26203868 tandem_dup 3483 30 0 0 0 26_samples:0 26200391 26200659 269 63 26203552 26203874 323 69 C17orf108 IGR: 5Kb before C17orf108(-) C17orf108 IGR: 1Kb before C17orf108(-) - 0 2.000000e-02 0 0 0 1 1 0 8.517902e-01 1.420535e+00 9.307766e-01 2.792330e+01 1 2.792330e+01 1 26200391 26203874 1 26200401 10 26203868 -6 20 9.776854e-01 1 1 77 0 36 1 -1 -26200392 -1 -26203875 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 123 1 0 167831645 1 1 167835853 deletion 4221 27 0 0 0 26_samples:0 167831376 167831650 275 54 167835871 167836125 255 56 ADCY10 Intron of ADCY10(-): 1Kb before exon 12 ADCY10 Intron of ADCY10(-): 4Kb after exon 11 Deletion within intron 0 0 1.300000e-01 1.100000e-01 2 1 1 0 1.919707e-02 1.896284e-01 1 27 1 27 1 167831650 167835871 1 167831645 -5 167835853 -18 17 9.939498e-01 0 3 71 0 21 1 -1 -167831651 -1 -167835872 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 124 2 1 166044329 2 0 166048032 tandem_dup 3694 27 0 0 0 26_samples:0 166044324 166044641 318 59 166047744 166048018 275 59 SCN3A 5'-UTR of SCN3A(-): 11Kb before coding start SCN3A 5'-UTR of SCN3A(-): 15Kb before coding start Duplication within transcript 0 0 0 0 2 2 1 1 4.452753e-01 4.452753e-01 1 27 1 27 1 166044324 166048018 1 166044329 5 166048032 14 20 9.940318e-01 1 0 74 0 31 1 -1 -166044325 -1 -166048019 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 125 2 0 190912176 2 1 190913671 deletion 1490 27 0 0 0 26_samples:0 190911887 190912183 297 56 190913673 190913951 279 40 MSTN IGR: 8Kb before MSTN(-) MSTN IGR: 7Kb before MSTN(-) - 0 0 0 0 2 0 2 0 1.896284e-01 -1.173822e+00 1 27 1 27 1 190912183 190913673 1 190912176 -7 190913671 -2 20 9.975718e-01 0 3 73 0 25 1 190912390 207 190913671 -2 1 8.713159e-01 0 6 69 0 27 1 9.259259e-01 LUSC-66-2766 131 10 0 67819427 10 1 67820408 deletion 971 27 0 0 0 26_samples:0 67819160 67819433 274 55 67820404 67820707 304 64 CTNNA3 Intron of CTNNA3(-): 10Kb after exon 15 CTNNA3 Intron of CTNNA3(-): 9Kb after exon 15 Deletion within intron 0 0 0 0 0 1 1 0 1.044127e-01 8.713535e-01 1 27 1 27 1 67819433 67820404 1 67819427 -6 67820408 4 20 9.862438e-01 0 3 65 0 36 1 -1 -67819434 -1 -67820405 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 133 10 0 77536154 10 1 77537830 deletion 1683 27 0 0 0 26_samples:0 77535872 77536145 274 44 77537828 77538110 283 45 C10orf11 IGR: 6Kb before C10orf11(+) C10orf11 IGR: 5Kb before C10orf11(+) - 0 0 4.000000e-02 6.000000e-02 1 1 1 2 -8.329594e-01 -7.477437e-01 1 27 1 27 1 77536145 77537828 1 77536154 9 77537830 2 20 9.921111e-01 0 6 88 0 36 1 77536349 204 77537886 58 2 7.679598e-01 0 3 75 0 11 1 3.272727e+00 LUSC-66-2766 135 12 1 2821780 12 0 2852588 tandem_dup 30793 27 0 0 0 26_samples:0 2821783 2822063 281 47 2852308 2852576 269 44 CACNA1C IGR: 15Kb after CACNA1C(+) FKBP4 IGR: 52Kb before FKBP4(+) - 0 0 0 4.000000e-02 2 0 3 0 -5.773124e-01 -8.329594e-01 1 27 1 27 1 2821783 2852576 1 2821780 -3 2852588 12 9 8.707613e-01 1 2 78 0 16 1 -1 -2821784 -1 -2852577 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 136 18 0 8136296 18 1 8138163 deletion 1860 27 0 0 0 26_samples:0 8136012 8136298 287 57 8138158 8138437 280 59 PTPRM Intron of PTPRM(+): 7Kb before exon 14 PTPRM Intron of PTPRM(+): 5Kb before exon 14 Deletion within intron 0 0 0 0 0 2 0 0 2.748440e-01 4.452753e-01 1 27 1 27 1 8136298 8138158 1 8136296 -2 8138163 5 20 9.717739e-01 0 0 66 0 31 1 -1 -8136299 -1 -8138159 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 139 20 1 9003822 20 1 9009932 inversion 6105 27 0 0 0 26_samples:0 9003822 9004124 303 58 9009927 9010278 352 65 PLCB4 IGR: 46Kb before PLCB4(+) PLCB4 IGR: 40Kb before PLCB4(+) - 1.300000e-01 5.000000e-02 6.000000e-02 3.000000e-02 2 1 1 0 3.600596e-01 9.565691e-01 1 27 1 27 1 9003822 9009927 1 9003822 0 9009932 5 17 9.917854e-01 1 4 80 0 24 1 -1 -9003823 -1 -9009928 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 140 23 1 18319067 23 0 18328304 tandem_dup 9219 27 0 0 0 26_samples:0 18319085 18319339 255 49 18328017 18328304 288 55 SCML2 Intron of SCML2(-): 4Kb after exon 7 SCML2 Intron of SCML2(-): 5Kb before exon 7 Duplication of 1 exon: out of frame 2.000000e-02 1.000000e-01 0 0 2 0 2 0 -4.068811e-01 1.044127e-01 1 27 1 27 1 18319085 18328304 1 18319067 -18 18328304 0 15 8.263909e-01 1 1 79 0 17 1 -1 -18319086 -1 -18328305 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 134 11 0 12881876 11 1 12896648 deletion 14763 27 0 0 0 26_samples:0 12881577 12881879 303 58 12896642 12896938 297 67 TEAD1 Intron of TEAD1(+): 2Kb before exon 4 TEAD1 Intron of TEAD1(+): 5Kb before exon 6 Deletion of 2 exons: out of frame 0 0 0 0 3 0 2 1 3.600596e-01 1.127000e+00 9.979558e-01 2.694481e+01 1 2.694481e+01 1 12881879 12896642 1 12881876 -3 12896648 6 20 9.925554e-01 0 3 69 0 42 1 -1 -12881880 -1 -12896643 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 61 2 0 65427450 20 0 2806950 inter_chr NaN 34 0 0 0 26_samples:0 65427207 65427450 244 46 2806690 2806950 261 49 ACTR2 IGR: 27Kb before ACTR2(+) FAM113A IGR: 9Kb before FAM113A(-) - 0 5.000000e-02 0 0 3 1 7 0 -7.596539e-01 -4.752814e-01 7.900618e-01 2.686210e+01 1 2.686210e+01 1 65427450 2806950 1 -1 -65427451 -1 -2806951 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -65427451 -1 -2806951 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2766 106 16 1 7645467 16 0 7657380 tandem_dup 11914 29 0 0 0 26_samples:0 7645464 7645772 309 71 7657110 7657378 269 61 A2BP1 Intron of A2BP1(+): 87bp before exon 8 A2BP1 Intron of A2BP1(+): 38bp after exon 10 Duplication of 3 exons: out of frame 0 0 0 0 2 1 2 0 1.467863e+00 6.157066e-01 9.071009e-01 2.630592e+01 1 2.630592e+01 1 7645464 7657378 1 7645467 3 7657380 2 16 9.767495e-01 1 2 72 0 29 1 -1 -7645465 -1 -7657379 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 144 2 0 78086120 2 1 78088052 deletion 1928 26 0 0 0 26_samples:0 78085806 78086121 316 60 78088049 78088333 285 53 SNAR-H IGR: 96Kb before SNAR-H(-) SNAR-H IGR: 94Kb before SNAR-H(-) - 0 0 0 0 2 0 0 1 5.304909e-01 -6.601857e-02 1 26 1 26 1 78086121 78088049 1 78086120 -1 78088052 3 20 9.590238e-01 0 4 71 0 32 1 78085962 -159 78087936 -113 1 9.658176e-01 0 0 97 0 9 1 3.555556e+00 LUSC-66-2766 147 6 0 129969560 6 0 129991558 inversion 22012 26 0 0 0 26_samples:0 129969241 129969541 301 56 129991277 129991553 277 53 ARHGAP18 Intron of ARHGAP18(-): 6Kb before exon 2 ARHGAP18 Intron of ARHGAP18(-): 28Kb before exon 2 - 2.000000e-02 6.000000e-02 0 0 2 1 3 1 1.896284e-01 -6.601857e-02 1 26 1 26 1 129969541 129991553 1 129969560 19 129991558 5 20 9.705104e-01 0 0 70 0 43 1 129969519 -22 129991754 201 1 7.570299e-01 0 0 75 22 TAGGTGGTATAAGAGACTTTTC 19 1 2.263158e+00 LUSC-66-2766 149 9 1 19773151 9 0 19782893 tandem_dup 9739 26 0 0 0 26_samples:0 19773150 19773454 305 56 19782602 19782889 288 55 SLC24A2 Intron of SLC24A2(-): 13Kb after exon 1 SLC24A2 Intron of SLC24A2(-): 3Kb after exon 1 Duplication within intron 0 0 0 0 1 1 0 1 1.896284e-01 1.044127e-01 1 26 1 26 1 19773150 19782889 1 19773151 1 19782893 4 20 9.899768e-01 1 3 74 0 35 1 -1 -19773151 -1 -19782890 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 150 9 1 123518944 9 0 123535131 tandem_dup 16189 26 0 0 0 26_samples:0 123518948 123519208 261 47 123534807 123535137 331 63 FBXW2 IGR: 306bp before FBXW2(-) FBXW2 Intron of FBXW2(-): 19bp before exon 6 - 0 0 0 0 3 0 3 1 -5.773124e-01 7.861379e-01 1 26 1 26 1 123518948 123535137 1 123518944 -4 123535131 -6 20 9.845898e-01 1 4 83 0 42 1 -1 -123518949 -1 -123535138 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 152 13 0 29977088 13 1 29979297 deletion 2229 26 0 0 0 26_samples:0 29976803 29977067 265 47 29979296 29979567 272 53 MTUS2 Intron of MTUS2(+): 37Kb before exon 7 MTUS2 Intron of MTUS2(+): 35Kb before exon 7 Deletion within intron 6.000000e-02 3.000000e-02 0 0 2 0 3 0 -5.773124e-01 -6.601857e-02 1 26 1 26 1 29977067 29979296 1 29977088 21 29979297 1 20 9.948619e-01 0 2 69 0 29 1 -1 -29977068 -1 -29979297 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 155 18 1 45758524 18 1 45760978 inversion 2425 26 0 0 0 26_samples:0 45758556 45758788 233 40 45760981 45761244 264 56 ZBTB7C IGR: 205Kb before ZBTB7C(-) ZBTB7C IGR: 207Kb before ZBTB7C(-) - 0 0 0 0 2 0 1 1 -1.173822e+00 1.896284e-01 1 26 1 26 1 45758556 45760981 1 45758524 -32 45760978 -3 20 9.792882e-01 1 3 71 0 34 1 -1 -45758557 -1 -45760982 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 141 1 0 43151438 1 1 43154957 deletion 3509 26 0 0 0 26_samples:0 43151135 43151441 307 66 43154950 43155274 325 63 YBX1 Intron of YBX1(+): 2Kb after exon 2 YBX1 Intron of YBX1(+): 4Kb before exon 3 Deletion within intron 0 0 0 0 1 0 2 1 1.041785e+00 7.861379e-01 9.999271e-01 2.599810e+01 1 2.599810e+01 1 43151441 43154950 1 43151438 -3 43154957 7 20 9.975490e-01 0 2 73 0 45 1 -1 -43151442 -1 -43154951 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 153 16 1 14718577 16 0 14731062 tandem_dup 12453 26 0 0 0 26_samples:0 14718588 14718877 290 67 14730767 14731041 275 56 PARN Intron of PARN(-): 2Kb after exon 5 BFAR 5'-UTR of BFAR(+): 7Kb before coding start Antisense fusion 2.000000e-02 6.000000e-02 7.000000e-02 1.700000e-01 3 1 2 2 1.127000e+00 1.896284e-01 9.979558e-01 2.594685e+01 1 2.594685e+01 1 14718588 14731041 1 14718577 -11 14731062 21 16 9.722596e-01 1 1 70 0 30 1 -1 -14718589 -1 -14731042 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 154 16 0 32618679 16 1 32620568 deletion 1882 26 0 0 0 26_samples:0 32618368 32618684 317 67 32620566 32620881 316 59 TP53TG3B IGR: 66Kb before TP53TG3B(-) TP53TG3B IGR: 64Kb before TP53TG3B(-) - 2.000000e-02 5.000000e-02 0 0 1 2 1 1 1.127000e+00 4.452753e-01 9.979558e-01 2.594685e+01 1 2.594685e+01 1 32618684 32620566 1 32618679 -5 32620568 2 15 9.851714e-01 0 1 73 0 32 1 -1 -32618685 -1 -32620567 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 113 6 1 134735533 6 1 134781000 inversion 45459 28 0 0 0 26_samples:0 134735536 134735825 290 59 134780995 134781316 322 71 SGK1 IGR: 245Kb before SGK1(-) SGK1 IGR: 291Kb before SGK1(-) - 2.000000e-02 3.000000e-02 0 0 2 1 1 2 4.452753e-01 1.467863e+00 9.071009e-01 2.539882e+01 1 2.539882e+01 1 134735536 134780995 1 134735533 -3 134781000 5 13 9.575044e-01 1 4 78 0 36 1 134735581 45 134780793 -202 2 8.205392e-01 1 2 82 2 AA 9 1 4 LUSC-66-2766 121 19 0 31777864 19 1 31779190 deletion 1332 28 0 0 0 26_samples:0 31777619 31777868 250 59 31779200 31779531 332 71 TSHZ3 Intron of TSHZ3(-): 7Kb before exon 2 TSHZ3 Intron of TSHZ3(-): 9Kb before exon 2 Deletion within intron 0 0 1.000000e-02 1.300000e-01 1 1 1 0 4.452753e-01 1.467863e+00 9.071009e-01 2.539882e+01 1 2.539882e+01 1 31777868 31779200 1 31777864 -4 31779190 -10 20 9.893346e-01 0 2 68 0 39 1 -1 -31777869 -1 -31779201 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 118 11 0 121806488 11 1 121807385 deletion 891 28 0 0 0 26_samples:0 121806152 121806493 342 71 121807384 121807655 272 67 LOC399959 IGR: 153Kb before LOC399959(-) LOC399959 IGR: 152Kb before LOC399959(-) - 0 3.000000e-02 0 0 1 1 1 0 1.467863e+00 1.127000e+00 9.052466e-01 2.534690e+01 1 2.534690e+01 1 121806493 121807384 1 121806488 -5 121807385 1 17 9.756025e-01 0 1 71 0 24 1 -1 -121806494 -1 -121807385 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 74 6 1 125327659 6 0 125639781 tandem_dup 312122 32 0 0 0 26_samples:0 125327656 125327921 266 47 125639476 125639778 303 52 RNF217 5'-UTR of RNF217(+): 3Kb before coding start HDDC2 IGR: 43Kb before HDDC2(-) - 9.000000e-02 5.000000e-02 2.000000e-02 4.000000e-02 2 2 7 1 -6.648631e-01 -1.909089e-01 7.851683e-01 2.512539e+01 1 2.512539e+01 1 125327656 125639778 1 125327659 3 125639781 3 14 9.896668e-01 1 4 72 0 22 1 125327450 -206 125639914 136 3 7.880310e-01 1 5 73 0 8 1 2.750000e+00 LUSC-66-2766 157 1 0 189886366 1 1 189887369 deletion 999 25 0 0 0 26_samples:0 189886092 189886368 277 52 189887367 189887615 249 52 FAM5C IGR: 180Kb before FAM5C(-) FAM5C IGR: 179Kb before FAM5C(-) - 0 0 0 0 1 1 1 0 -1.512342e-01 -1.512342e-01 1 25 1 25 1 189886368 189887367 1 189886366 -2 189887369 2 20 9.918278e-01 0 5 76 0 32 1 189886569 201 189887318 -49 1 8.443931e-01 0 0 77 51 CCTGGATATTAGTCCTTTGTCAGATATATAGTTTGCAAATATTTTCTCCCA 22 1 1.454545e+00 LUSC-66-2766 159 2 0 159279178 2 1 159282960 deletion 3781 25 0 0 0 26_samples:0 159278918 159279184 267 46 159282965 159283256 292 56 CCDC148 Intron of CCDC148(-): 34Kb after exon 1 CCDC148 Intron of CCDC148(-): 30Kb after exon 1 Deletion within intron 7.000000e-02 1.100000e-01 0 0 2 3 1 0 -6.625281e-01 1.896284e-01 1 25 1 25 1 159279184 159282965 1 159279178 -6 159282960 -5 18 9.571762e-01 0 1 68 1 T 22 1 -1 -159279185 -1 -159282966 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 160 3 1 9861330 3 0 9865872 tandem_dup 4533 25 0 0 0 26_samples:0 9861331 9861614 284 47 9865563 9865864 302 58 TTLL3 Intron of TTLL3(+): 727bp after exon 6 TTLL3 Intron of TTLL3(+): 2Kb before exon 8 Duplication of 1 exon: out of frame 0 0 0 0 2 0 1 0 -5.773124e-01 3.600596e-01 1 25 1 25 1 9861331 9865864 1 9861330 -1 9865872 8 20 9.837026e-01 1 2 68 0 41 1 -1 -9861332 -1 -9865865 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 161 4 1 151683475 4 0 151687051 tandem_dup 3578 25 0 0 0 26_samples:0 151683481 151683763 283 62 151686783 151687059 277 56 LRBA Intron of LRBA(-): 482bp before exon 35 LRBA Intron of LRBA(-): 4Kb before exon 35 Duplication within intron 0 0 0 0 1 0 2 1 7.009222e-01 1.896284e-01 1 25 1 25 1 151683481 151687059 1 151683475 -6 151687051 -8 12 9.773023e-01 1 2 85 0 18 1 -1 -151683482 -1 -151687060 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 162 4 0 190344701 4 1 190349087 deletion 4389 25 0 0 0 26_samples:0 190344437 190344706 270 48 190349095 190349368 274 47 FRG1 IGR: 517Kb before FRG1(+) FRG1 IGR: 513Kb before FRG1(+) - 0 0 0 0 0 0 0 0 -4.920968e-01 -5.773124e-01 1 25 1 25 1 190344706 190349095 1 190344701 -5 190349087 -8 19 9.407166e-01 0 0 75 8 CTGAAAAC 28 1 -1 -190344707 -1 -190349096 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 163 5 0 169400549 5 1 169404347 deletion 3800 25 0 0 0 26_samples:0 169400228 169400545 318 53 169404345 169404617 273 49 DOCK2 Intron of DOCK2(+): 10Kb before exon 28 DOCK2 Intron of DOCK2(+): 6Kb before exon 28 Deletion within intron 0 0 0 0 0 1 0 0 -6.601857e-02 -4.068811e-01 1 25 1 25 1 169400545 169404345 1 169400549 4 169404347 2 20 9.931209e-01 0 1 86 0 27 1 -1 -169400546 -1 -169404346 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 165 6 0 66734678 6 1 66738084 deletion 3445 25 0 0 0 26_samples:0 66734408 66734654 247 49 66738099 66738407 309 58 MCART3P IGR: 237Kb before MCART3P(+) MCART3P IGR: 240Kb before MCART3P(+) - 0 0 0 0 1 0 0 1 -4.068811e-01 3.600596e-01 1 25 1 25 1 66734654 66738099 1 66734678 24 66738084 -15 20 9.697781e-01 0 0 67 0 37 1 -1 -66734655 -1 -66738100 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 169 8 0 120440343 8 0 120445284 inversion 4935 25 0 0 0 26_samples:0 120440085 120440346 262 48 120445021 120445281 261 45 NOV IGR: 4Kb after NOV(+) NOV IGR: 17Kb before NOV(+) - 0 0 0 0 0 0 1 1 -4.920968e-01 -7.477437e-01 1 25 1 25 1 120440346 120445281 1 120440343 -3 120445284 3 11 9.285105e-01 0 2 74 17 ATTAGCACAGAATATTC 44 1 -1 -120440347 -1 -120445282 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 170 12 0 21331293 12 0 21557297 inversion 226027 25 0 0 0 26_samples:0 21330970 21331275 306 59 21557000 21557302 303 58 SLCO1B1 Intron of SLCO1B1(+): 235bp before exon 6 IAPP IGR: 32Kb before IAPP(+) - 2.000000e-02 4.000000e-02 0 4.000000e-02 3 1 4 0 4.452753e-01 3.600596e-01 1 25 1 25 1 21331275 21557302 1 21331293 18 21557297 -5 15 9.819148e-01 0 0 78 0 27 1 21331397 122 21557184 -118 1 8.818903e-01 0 1 83 0 12 1 2.250000e+00 LUSC-66-2766 171 13 0 60953248 13 1 60963635 deletion 10387 25 0 0 0 26_samples:0 60952978 60953248 271 51 60963635 60963916 282 55 TDRD3 IGR: 17Kb before TDRD3(+) TDRD3 IGR: 7Kb before TDRD3(+) - 0 0 0 0 2 0 1 0 -2.364499e-01 1.044127e-01 1 25 1 25 1 60953248 60963635 1 60953248 0 60963635 0 20 9.218420e-01 0 1 76 14 ATTGCTATAAATCA 38 1 -1 -60953249 -1 -60963636 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 174 19 1 46565684 19 0 46573294 tandem_dup 7603 25 0 0 0 26_samples:0 46565685 46565976 292 61 46573011 46573288 278 63 IGFL4 IGR: 23Kb before IGFL4(-) IGFL4 IGR: 30Kb before IGFL4(-) - 2.000000e-02 3.000000e-02 0 0 2 0 0 0 6.157066e-01 7.861379e-01 1 25 1 25 1 46565685 46573288 1 46565684 -1 46573294 6 5 9.841636e-01 1 2 73 0 22 1 -1 -46565686 -1 -46573289 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 158 2 0 61543942 2 0 61547022 inversion 3089 25 0 0 0 26_samples:0 61543699 61543929 231 54 61546724 61547018 295 51 USP34 Intron of USP34(-): 860bp after exon 23 USP34 Intron of USP34(-): 556bp before exon 22 - 4.000000e-02 2.700000e-01 4.000000e-02 5.000000e-02 4 1 3 1 1.919707e-02 -2.364499e-01 9.990150e-01 2.497538e+01 1 2.497538e+01 1 61543929 61547018 1 61543942 13 61547022 4 19 9.591133e-01 0 1 67 10 GAATTGCTAG 46 1 61544130 201 61546969 -49 1 8.294260e-01 0 3 86 0 13 1 3.538462e+00 LUSC-66-2766 101 5 1 16221787 5 0 16226641 tandem_dup 4852 29 0 0 0 26_samples:0 16221788 16222135 348 72 16226360 16226640 281 62 MARCH11 IGR: 42Kb after MARCH11(-) MARCH11 IGR: 47Kb after MARCH11(-) - 0 0 0 0 0 1 2 2 1.553079e+00 7.009222e-01 8.552970e-01 2.480361e+01 1 2.480361e+01 1 16221788 16226640 1 16221787 -1 16226641 1 18 9.775860e-01 1 2 74 0 36 1 -1 -16221789 -1 -16226641 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 143 2 1 137501138 2 0 137507872 tandem_dup 6740 26 0 0 0 26_samples:0 137501132 137501415 284 70 137507577 137507872 296 55 THSD7B IGR: 247Kb before THSD7B(+) THSD7B IGR: 241Kb before THSD7B(+) - 0 0 0 0 1 1 0 0 1.382647e+00 1.044127e-01 9.469456e-01 2.462059e+01 1 2.462059e+01 1 137501132 137507872 1 137501138 6 137507872 0 20 9.878955e-01 1 1 69 0 32 1 -1 -137501133 -1 -137507873 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 126 3 0 18522870 3 1 77008607 long_range 58485735 27 0 0 0 26_samples:0 18522601 18522866 266 57 77008601 77008901 301 71 SATB1 IGR: 43Kb after SATB1(-) ROBO2 IGR: 81Kb before ROBO2(+) - 0 0 0 0 1 1 1 0 2.748440e-01 1.467863e+00 9.071009e-01 2.449172e+01 1 2.449172e+01 1 18522866 77008601 1 18522870 4 77008607 6 6 9.436674e-01 0 1 82 10 AGCTACAAAT 16 1 18522744 -122 77008398 -203 6 8.295413e-01 0 2 81 0 10 1 1.600000e+00 LUSC-66-2766 148 7 0 105081043 7 1 105207283 deletion 126247 26 0 0 0 26_samples:0 105080722 105081044 323 58 105207291 105207594 304 64 PUS7 IGR: 16Kb before PUS7(-) RINT1 Intron of RINT1(+): 275bp before exon 15 - 1.000000e-01 3.300000e-01 0 0 2 1 1 0 3.600596e-01 8.713535e-01 9.374886e-01 2.437470e+01 1 2.437470e+01 1 105081044 105207291 1 105081043 -1 105207283 -8 20 9.885776e-01 0 0 65 0 53 1 105081225 181 105207090 -201 1 8.295804e-01 0 1 72 66 TGTAGTGAGCTATGATCGTGCAGTTTCACTCCAGCCTAGGTGACAGAGCAAGACCATGTCTCAAAA 23 1 2.304348e+00 LUSC-66-2766 166 7 1 138762261 7 0 138775899 tandem_dup 13639 25 0 0 0 26_samples:0 138762260 138762565 306 69 138775596 138775899 304 66 ZC3HAV1 Intron of ZC3HAV1(-): 1Kb after exon 5 ZC3HAV1 Intron of ZC3HAV1(-): 1Kb before exon 2 Duplication of 4 exons: out of frame 0 7.000000e-02 0 0 3 1 2 1 1.297432e+00 1.041785e+00 9.742910e-01 2.435728e+01 1 2.435728e+01 1 138762260 138775899 1 138762261 1 138775899 0 12 9.779766e-01 1 2 68 0 27 1 -1 -138762261 -1 -138775900 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 176 1 1 115337433 1 0 115349881 tandem_dup 12435 24 0 0 0 26_samples:0 115337448 115337759 312 64 115349623 115349883 261 52 SIKE1 IGR: 25Kb before SIKE1(-) SIKE1 IGR: 38Kb before SIKE1(-) - 0 0 0 0 2 1 1 1 8.713535e-01 -1.512342e-01 1 24 1 24 1 115337448 115349883 1 115337433 -15 115349881 -2 13 9.827724e-01 1 3 67 0 19 1 -1 -115337449 -1 -115349884 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 177 1 1 176298859 1 0 176300684 tandem_dup 1776 24 0 0 0 26_samples:0 176298855 176299132 278 56 176300394 176300631 238 48 PAPPA2 IGR: 133Kb before PAPPA2(+) PAPPA2 IGR: 132Kb before PAPPA2(+) - 0 0 4.000000e-02 1.200000e-01 0 0 3 3 1.896284e-01 -4.920968e-01 1 24 1 24 1 176298855 176300631 1 176298859 4 176300684 53 20 9.865109e-01 1 2 60 0 28 1 -1 -176298856 -1 -176300632 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 178 1 0 182204188 1 1 182208928 deletion 4742 24 0 0 0 26_samples:0 182203917 182204192 276 53 182208934 182209206 273 51 GLUL IGR: 147Kb before GLUL(-) GLUL IGR: 142Kb before GLUL(-) - 0 0 0 2.000000e-02 0 0 0 0 -6.601857e-02 -2.364499e-01 1 24 1 24 1 182204192 182208934 1 182204188 -4 182208928 -6 20 9.927350e-01 0 2 75 0 32 1 -1 -182204193 -1 -182208935 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 181 3 0 69248057 3 0 95576897 long_range 26328842 24 0 0 0 26_samples:0 69247781 69248061 281 52 95576617 95576903 287 62 FRMD4B Intron of FRMD4B(-): 136bp before exon 12 LOC255025 IGR: 920Kb before LOC255025(+) - 0 0 0 0 1 1 3 0 -1.512342e-01 7.009222e-01 1 24 1 24 1 69248061 95576903 1 69248057 -4 95576897 -6 20 9.983045e-01 0 0 77 0 39 1 -1 -69248062 -1 -95576904 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 182 4 0 35373071 4 1 35375307 deletion 2239 24 0 0 0 26_samples:0 35372800 35373073 274 48 35375312 35375595 284 50 ARAP2 IGR: 695Kb before ARAP2(-) ARAP2 IGR: 692Kb before ARAP2(-) - 0 0 0 0 0 1 1 1 -4.920968e-01 -3.216655e-01 1 24 1 24 1 35373073 35375312 1 35373071 -2 35375307 -5 20 9.750836e-01 0 0 70 0 31 1 -1 -35373074 -1 -35375313 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 188 8 1 115570387 8 0 115574341 tandem_dup 3946 24 0 0 0 26_samples:0 115570388 115570685 298 53 115574049 115574334 286 61 TRPS1 IGR: 850Kb before TRPS1(-) TRPS1 IGR: 846Kb before TRPS1(-) - 0 0 0 0 1 0 2 1 -6.601857e-02 6.157066e-01 1 24 1 24 1 115570388 115574334 1 115570387 -1 115574341 7 18 8.747549e-01 1 1 78 0 41 1 -1 -115570389 -1 -115574335 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 189 9 1 5547257 9 0 5591616 tandem_dup 44362 24 0 0 0 26_samples:0 5547255 5547535 281 46 5591316 5591617 302 50 PDCD1LG2 Intron of PDCD1LG2(+): 2Kb before exon 4 KIAA1432 IGR: 38Kb before KIAA1432(+) - 0 0 1.000000e-02 0 3 1 2 0 -6.625281e-01 -3.216655e-01 1 24 1 24 1 5547255 5591617 1 5547257 2 5591616 -1 20 9.610814e-01 1 0 72 1 A 39 1 -1 -5547256 -1 -5591618 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 193 18 0 32958757 18 1 34411807 long_range 1453055 24 0 0 0 26_samples:0 32958480 32958761 282 56 34411816 34412099 284 60 ZNF396 Promoter of ZNF396(-): 1Kb from tx start KIAA1328 Intron of KIAA1328(+): 2Kb before exon 2 - 0 0 0 0 1 1 1 1 1.896284e-01 5.304909e-01 1 24 1 24 1 32958761 34411816 1 32958757 -4 34411807 -9 20 9.860480e-01 0 0 58 0 31 1 -1 -32958762 -1 -34411817 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 194 18 0 45760977 18 0 45763120 inversion 2156 24 0 0 0 26_samples:0 45760698 45760975 278 62 45762827 45763131 305 64 ZBTB7C IGR: 207Kb before ZBTB7C(-) ZBTB7C IGR: 209Kb before ZBTB7C(-) - 0 0 0 0 0 1 1 1 7.009222e-01 8.713535e-01 1 24 1 24 1 45760975 45763131 1 45760977 2 45763120 -11 20 9.926608e-01 0 3 69 0 33 1 45761176 201 45763318 187 1 8.101330e-01 0 0 73 8 TCATGAGG 19 1 1.736842e+00 LUSC-66-2766 195 20 1 45315143 20 0 45318738 tandem_dup 3595 24 0 0 0 26_samples:0 45315143 45315395 253 42 45318415 45318738 324 58 TP53RK 3'-UTR of TP53RK(-): 249bp after coding stop TP53RK Promoter of TP53RK(-): 462bp from tx start - 0 0 0 0 0 1 1 0 -1.003391e+00 3.600596e-01 1 24 1 24 1 45315143 45318738 1 45315133 -10 45318746 8 4 7.938806e-01 1 0 69 0 20 1 -1 -45315144 -1 -45318739 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2766 187 7 0 108717422 13 1 89815512 inter_chr NaN 24 0 0 0 26_samples:0 108717143 108717427 285 65 89815508 89815816 309 66 C7orf66 IGR: 193Kb before C7orf66(-) MIR622 IGR: 1Mb before MIR622(+) - 0 0 0 2.000000e-02 2 1 2 1 9.565691e-01 1.041785e+00 9.999271e-01 2.399825e+01 1 2.399825e+01 1 108717427 89815508 1 108717422 -5 89815512 4 15 9.680034e-01 0 0 60 0 31 1 -1 -108717428 -1 -89815509 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 142 2 0 44671248 2 1 44752551 deletion 81329 26 0 0 0 26_samples:0 44670973 44671245 273 55 44752574 44752862 289 53 C2orf34 Intron of C2orf34(+): 54Kb after exon 3 C2orf34 Intron of C2orf34(+): 135Kb after exon 3 Deletion within intron 0 0 2.000000e-02 1.100000e-01 6 1 5 1 1.044127e-01 -6.601857e-02 9.199832e-01 2.391956e+01 1 2.391956e+01 1 44671245 44752574 1 44671248 3 44752551 -23 20 9.876223e-01 0 1 71 0 37 1 -1 -44671246 -1 -44752575 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 183 5 0 39727698 5 1 39731172 deletion 3465 24 0 0 0 26_samples:0 39727364 39727703 340 68 39731168 39731475 308 67 DAB2 IGR: 356Kb before DAB2(-) DAB2 IGR: 359Kb before DAB2(-) - 0 0 0 0 1 1 1 1 1.212216e+00 1.127000e+00 9.885083e-01 2.372420e+01 1 2.372420e+01 1 39727703 39731168 1 39727698 -5 39731172 4 20 9.917096e-01 0 0 74 0 28 1 39727715 12 39730967 -201 1 7.605825e-01 0 1 82 1 G 9 1 3.111111e+00 LUSC-66-2766 151 11 0 31855728 11 1 31858386 deletion 2653 26 0 0 0 26_samples:0 31855443 31855730 288 70 31858383 31858692 310 70 PAX6 IGR: 49Kb before PAX6(-) PAX6 IGR: 52Kb before PAX6(-) - 0 0 2.000000e-02 2.000000e-02 0 0 1 1 1.382647e+00 1.382647e+00 8.967060e-01 2.331436e+01 1 2.331436e+01 1 31855730 31858383 1 31855728 -2 31858386 3 20 9.809913e-01 0 3 65 0 40 1 -1 -31855731 -1 -31858384 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 179 2 0 3363583 2 1 3379858 deletion 16271 24 0 0 0 26_samples:0 3363253 3363584 332 68 3379855 3380143 289 69 TSSC1 Intron of TSSC1(-): 5Kb before exon 2 TSSC1 Intron of TSSC1(-): 2Kb after exon 1 Deletion within intron 0 0 0 0 2 0 2 0 1.212216e+00 1.297432e+00 9.651380e-01 2.316331e+01 1 2.316331e+01 1 3363584 3379855 1 3363583 -1 3379858 3 20 9.956808e-01 0 5 68 0 33 1 -1 -3363585 -1 -3379856 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 196 3 1 40871577 3 0 40880420 tandem_dup 8836 23 0 0 0 26_samples:0 40871585 40871842 258 49 40880157 40880421 265 55 ZNF621 IGR: 305Kb before ZNF621(+) ZNF621 IGR: 314Kb before ZNF621(+) - 0 0 0 0 1 0 0 0 -4.068811e-01 1.044127e-01 1 23 1 23 1 40871585 40880421 1 40871577 -8 40880420 -1 20 9.833688e-01 1 4 69 0 39 1 -1 -40871586 -1 -40880422 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 198 4 0 187156407 4 1 187159411 deletion 3009 23 0 0 0 26_samples:0 187156141 187156412 272 62 187159421 187159757 337 61 KLKB1 Intron of KLKB1(+): 1Kb after exon 4 KLKB1 Exon 6 of KLKB1(+) Deletion within transcript: mid-exon 0 0 0 0 0 1 0 0 7.009222e-01 6.157066e-01 1 23 1 23 1 187156412 187159421 1 187156407 -5 187159411 -10 20 9.792605e-01 0 0 61 0 28 1 -1 -187156413 -1 -187159422 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 199 7 1 153298244 7 0 153304475 tandem_dup 6201 23 0 0 0 26_samples:0 153298268 153298533 266 48 153304173 153304469 297 58 DPP6 IGR: 286Kb before DPP6(+) DPP6 IGR: 280Kb before DPP6(+) - 0 0 0 0 2 1 1 0 -4.920968e-01 3.600596e-01 1 23 1 23 1 153298268 153304469 1 153298244 -24 153304475 6 20 9.739271e-01 1 1 68 0 38 1 -1 -153298269 -1 -153304470 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 203 20 1 51244859 20 0 51247954 tandem_dup 3085 23 0 0 0 26_samples:0 51244869 51245134 266 57 51247650 51247954 305 54 TSHZ2 IGR: 344Kb before TSHZ2(+) TSHZ2 IGR: 341Kb before TSHZ2(+) - 0 0 0 0 0 0 1 1 2.748440e-01 1.919707e-02 1 23 1 23 1 51244869 51247954 1 51244859 -10 51247954 0 15 9.116586e-01 1 3 69 2 TA 17 1 -1 -51244870 -1 -51247955 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 81 4 1 27154816 8 1 30794629 inter_chr NaN 31 0 0 0 26_samples:0 27154821 27155106 286 68 30794629 30794965 337 72 STIM2 IGR: 293Kb before STIM2(+) PURG IGR: 59Kb before PURG(-) - 0 0 0 0 1 1 2 1 1.325744e+00 1.704908e+00 7.158522e-01 2.219142e+01 1 2.219142e+01 1 27154821 30794629 1 27154816 -5 30794629 0 20 9.472626e-01 1 0 78 0 25 1 -1 -27154822 -1 -30794630 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 204 1 0 43146008 1 1 43151029 deletion 5035 22 0 0 0 26_samples:0 43145721 43146000 280 58 43151035 43151362 328 65 YBX1 Promoter of YBX1(+): 2Kb from tx start YBX1 Intron of YBX1(+): 2Kb after exon 2 Deletion within transcript 0 0 0 0 1 0 1 0 3.600596e-01 9.565691e-01 1 22 1 22 1 43146000 43151035 1 43146008 8 43151029 -6 20 9.422974e-01 0 2 74 1 A 29 1 -1 -43146001 -1 -43151036 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 205 2 0 166046077 2 1 166052901 deletion 6824 22 0 0 0 26_samples:0 166045812 166046081 270 51 166052905 166053189 285 61 SCN3A 5'-UTR of SCN3A(-): 13Kb before coding start SCN3A 5'-UTR of SCN3A(-): 20Kb before coding start Deletion within transcript 0 0 0 0 0 1 0 0 -2.364499e-01 6.157066e-01 1 22 1 22 1 166046081 166052905 1 166046077 -4 166052901 -4 12 8.842698e-01 0 0 68 0 19 1 -1 -166046082 -1 -166052906 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 211 5 0 38731028 5 1 38734456 deletion 3442 22 0 0 0 26_samples:0 38730688 38731021 334 54 38734463 38734715 253 56 OSMR IGR: 115Kb before OSMR(+) OSMR IGR: 111Kb before OSMR(+) - 0 0 0 0 3 0 0 1 1.919707e-02 1.896284e-01 1 22 1 22 1 38731021 38734463 1 38731028 7 38734456 -7 12 8.475625e-01 0 0 74 1 A 21 1 -1 -38731022 -1 -38734464 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 212 5 0 128549913 5 1 128553860 deletion 3944 22 0 0 0 26_samples:0 128549637 128549916 280 53 128553860 128554168 309 52 ISOC1 IGR: 119Kb before ISOC1(+) ISOC1 IGR: 123Kb before ISOC1(+) - 0 0 0 0 0 1 1 2 -6.601857e-02 -1.512342e-01 1 22 1 22 1 128549916 128553860 1 128549913 -3 128553860 0 20 9.331700e-01 0 0 77 2 AC 41 1 -1 -128549917 -1 -128553861 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 213 6 0 134565055 6 1 134566304 deletion 1245 22 0 0 0 26_samples:0 134564770 134565060 291 51 134566305 134566577 273 51 SGK1 Intron of SGK1(-): 18Kb after exon 2 SGK1 Intron of SGK1(-): 17Kb after exon 2 Deletion within intron 2.000000e-02 0 0 0 3 2 0 2 -2.364499e-01 -2.364499e-01 1 22 1 22 1 134565060 134566305 1 134565055 -5 134566304 -1 15 9.612374e-01 0 0 63 1 A 22 1 -1 -134565061 -1 -134566306 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 218 7 0 126519372 7 1 126523414 deletion 4048 22 0 0 0 26_samples:0 126519102 126519379 278 41 126523427 126523710 284 46 GRM8 Intron of GRM8(-): 23Kb after exon 5 GRM8 Intron of GRM8(-): 19Kb after exon 5 Deletion within intron 8.000000e-02 6.000000e-02 5.000000e-02 4.000000e-02 1 3 1 2 -1.088606e+00 -6.625281e-01 1 22 1 22 1 126519379 126523427 1 126519372 -7 126523414 -13 16 9.746037e-01 0 0 67 0 22 1 -1 -126519380 -1 -126523428 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 219 7 0 89450238 7 1 89452010 deletion 1774 22 0 0 0 26_samples:0 89449950 89450240 291 63 89452014 89452326 313 58 DPY19L2P4 IGR: 298Kb before DPY19L2P4(+) DPY19L2P4 IGR: 297Kb before DPY19L2P4(+) - 0 0 0 0 0 2 1 0 7.861379e-01 3.600596e-01 1 22 1 22 1 89450240 89452014 1 89450238 -2 89452010 -4 14 8.793092e-01 0 0 70 1 T 23 1 -1 -89450241 -1 -89452015 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 221 10 1 5559526 10 0 5611354 tandem_dup 51810 22 0 0 0 26_samples:0 5559526 5559778 253 51 5611077 5611336 260 61 CALML3 IGR: 7Kb before CALML3(+) CALML3 IGR: 44Kb before CALML3(+) - 1.000000e-02 2.000000e-02 0 0 2 1 4 1 -2.364499e-01 6.157066e-01 1 22 1 22 1 5559526 5611336 1 5559526 0 5611354 18 10 9.713139e-01 1 3 69 0 23 1 -1 -5559527 -1 -5611337 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 222 12 1 21330226 12 0 21540154 tandem_dup 209934 22 0 0 0 26_samples:0 21330222 21330516 295 62 21539895 21540156 262 51 SLCO1B1 Intron of SLCO1B1(+): 391bp after exon 5 SLCO1A2 5'-UTR of SLCO1A2(-): 53Kb before coding start - 0 0 2.000000e-02 0 4 0 2 0 7.009222e-01 -2.364499e-01 1 22 1 22 1 21330222 21540156 1 21330226 4 21540154 -2 20 9.580369e-01 1 0 80 1 G 48 1 -1 -21330223 -1 -21540157 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 223 15 0 86971356 15 1 86973295 deletion 1949 22 0 0 0 26_samples:0 86971039 86971339 301 60 86973288 86973577 290 56 AGBL1 Intron of AGBL1(+): 31Kb after exon 17 AGBL1 Intron of AGBL1(+): 33Kb after exon 17 Deletion within intron 0 0 5.000000e-02 2.000000e-02 1 0 1 3 5.304909e-01 1.896284e-01 1 22 1 22 1 86971339 86973288 1 86971356 17 86973295 7 20 9.893682e-01 0 2 69 0 28 1 -1 -86971340 -1 -86973289 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 216 6 0 81478154 6 1 81486543 deletion 8392 22 0 0 0 26_samples:0 81477872 81478153 282 52 81486545 81486848 304 66 BCKDHB IGR: 422Kb after BCKDHB(+) BCKDHB IGR: 431Kb after BCKDHB(+) - 0 0 0 0 1 1 1 1 -1.512342e-01 1.041785e+00 9.999271e-01 2.199840e+01 1 2.199840e+01 1 81478153 81486545 1 81478154 1 81486543 -2 15 8.530216e-01 0 4 83 23 CTCAGTCTCCCAAGTAGCTGGAG 13 1 -1 -81478154 -1 -81486546 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 217 7 1 89844025 7 0 89847410 tandem_dup 3391 22 0 0 0 26_samples:0 89844022 89844333 312 66 89847160 89847413 254 57 STEAP2 5'-UTR of STEAP2(+): 10Kb before coding start STEAP2 5'-UTR of STEAP2(+): 7Kb before coding start Duplication within transcript 0 0 0 0 1 0 1 0 1.041785e+00 2.748440e-01 9.999271e-01 2.199840e+01 1 2.199840e+01 1 89844022 89847413 1 89844025 3 89847410 -3 20 9.603238e-01 1 0 68 14 TTAATTGCTTAATT 47 1 -1 -89844023 -1 -89847414 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 224 16 1 16127998 16 0 16139589 tandem_dup 11587 22 0 0 0 26_samples:0 16128002 16128278 277 61 16139282 16139589 308 67 ABCC1 Intron of ABCC1(+): 975bp after exon 6 ABCC1 Intron of ABCC1(+): 104bp before exon 9 Duplication of 2 exons: in frame 2.000000e-02 6.000000e-02 0 0 3 1 1 1 6.157066e-01 1.127000e+00 9.979558e-01 2.195503e+01 1 2.195503e+01 1 16128002 16139589 1 16127998 -4 16139589 0 5 9.153524e-01 1 0 84 0 27 1 16127797 -205 16139681 92 1 8.497920e-01 1 4 69 0 8 1 3.375000e+00 LUSC-66-2766 210 4 0 114938313 4 1 114941830 deletion 3507 22 0 0 0 26_samples:0 114937945 114938319 375 68 114941826 114942083 258 61 ARSJ IGR: 37Kb after ARSJ(-) ARSJ IGR: 41Kb after ARSJ(-) - 0 0 0 0 0 0 1 0 1.212216e+00 6.157066e-01 9.905332e-01 2.179173e+01 1 2.179173e+01 1 114938319 114941826 1 114938313 -6 114941830 4 20 9.811109e-01 0 3 77 0 24 1 -1 -114938320 -1 -114941827 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 206 3 0 176710219 3 1 176711281 deletion 1099 22 0 0 0 26_samples:0 176709934 176710187 254 53 176711286 176711531 246 47 TBL1XR1 IGR: 28Kb before TBL1XR1(-) TBL1XR1 IGR: 27Kb before TBL1XR1(-) - 5.000000e-02 2.800000e-01 0 0 0 4 5 0 -6.601857e-02 -5.773124e-01 9.863597e-01 2.169991e+01 1 2.169991e+01 1 176710187 176711286 1 176710219 32 176711281 -5 20 9.413168e-01 0 0 67 0 27 1 176710392 205 176711371 85 1 8.236124e-01 0 4 67 0 11 1 2.454545e+00 LUSC-66-2766 77 16 1 2660478 16 0 2743644 tandem_dup 83176 32 0 0 0 26_samples:0 2660471 2660791 321 73 2743344 2743647 304 59 LOC652276 5'-UTR of LOC652276(+): 20Kb before coding start KCTD5 Intron of KCTD5(+): 2Kb before exon 2 Transcript fusion (KCTD5-LOC652276) 0 8.000000e-02 0 0 3 0 3 0 1.799699e+00 4.726269e-01 6.616288e-01 2.117212e+01 1 2.117212e+01 1 2660471 2743647 1 2660478 7 2743644 -3 20 9.723195e-01 1 5 72 0 41 1 -1 -2660472 -1 -2743648 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 227 1 0 29133639 1 0 29137418 inversion 3765 21 0 0 0 26_samples:0 29133367 29133641 275 54 29137175 29137406 232 41 OPRD1 IGR: 5Kb before OPRD1(+) OPRD1 Promoter of OPRD1(+): 1Kb from tx start - 7.000000e-02 6.000000e-02 0 0 0 1 3 0 1.919707e-02 -1.088606e+00 1 21 1 21 1 29133641 29137406 1 29133639 -2 29137418 12 12 9.884852e-01 0 1 69 0 31 1 -1 -29133642 -1 -29137407 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 229 2 0 67228182 12 0 74316123 inter_chr NaN 21 0 0 0 26_samples:0 67227948 67228184 237 39 74315852 74316111 260 52 ETAA1 IGR: 396Kb before ETAA1(+) ATXN7L3B IGR: 615Kb before ATXN7L3B(+) - 0 0 0 6.000000e-02 3 1 4 2 -1.259038e+00 -1.512342e-01 1 21 1 21 1 67228184 74316111 1 67228182 -2 74316123 12 20 9.895404e-01 0 1 71 0 26 1 67228176 -8 74316322 211 4 8.804916e-01 0 10 74 0 8 1 3.250000e+00 LUSC-66-2766 232 4 0 118988286 4 1 118991219 deletion 2924 21 0 0 0 26_samples:0 118988018 118988287 270 46 118991211 118991520 310 46 NDST3 Intron of NDST3(+): 12Kb after exon 2 NDST3 Intron of NDST3(+): 15Kb after exon 2 Deletion within intron 0 0 0 0 0 0 0 2 -6.625281e-01 -6.625281e-01 1 21 1 21 1 118988287 118991211 1 118988286 -1 118991219 8 10 9.991419e-01 0 1 73 0 11 1 -1 -118988288 -1 -118991212 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 234 6 0 72902109 6 1 72904862 deletion 2772 21 0 0 0 26_samples:0 72901830 72902098 269 53 72904870 72905133 264 50 RIMS1 Intron of RIMS1(+): 9Kb after exon 6 RIMS1 Intron of RIMS1(+): 12Kb after exon 6 Deletion within intron 0 3.000000e-02 0 0 0 0 0 0 -6.601857e-02 -3.216655e-01 1 21 1 21 1 72902098 72904870 1 72902109 11 72904862 -8 8 9.437745e-01 0 0 71 0 22 1 -1 -72902099 -1 -72904871 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 239 10 0 110594762 10 1 110600100 deletion 5338 21 0 0 0 26_samples:0 110594533 110594762 230 36 110600100 110600338 239 41 XPNPEP1 IGR: 1Mb before XPNPEP1(-) XPNPEP1 IGR: 1Mb before XPNPEP1(-) - 1.200000e-01 1.700000e-01 0 0 1 2 1 1 -1.514685e+00 -1.088606e+00 1 21 1 21 1 110594762 110600100 1 110594781 19 110600090 -10 5 7.924052e-01 0 0 72 0 6 1 -1 -110594763 -1 -110600101 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2766 240 11 1 35957870 11 0 35973029 tandem_dup 15158 21 0 0 0 26_samples:0 35957874 35958141 268 44 35972714 35973032 319 55 LDLRAD3 IGR: 8Kb before LDLRAD3(+) LDLRAD3 Intron of LDLRAD3(+): 7Kb after exon 1 - 1.000000e-02 4.000000e-02 0 0 2 0 4 1 -8.329594e-01 1.044127e-01 1 21 1 21 1 35957874 35973032 1 35957870 -4 35973029 -3 14 9.331311e-01 1 0 65 3 ACA 27 1 -1 -35957875 -1 -35973033 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 241 12 0 13587627 12 1 13590051 deletion 2442 21 0 0 0 26_samples:0 13587374 13587628 255 58 13590070 13590354 285 57 C12orf36 IGR: 58Kb after C12orf36(-) C12orf36 IGR: 60Kb after C12orf36(-) - 0 0 0 0 0 1 0 1 3.600596e-01 2.748440e-01 1 21 1 21 1 13587628 13590070 1 13587627 -1 13590051 -19 20 9.474402e-01 0 0 59 14 GTCTCCTCACACAA 44 1 -1 -13587629 -1 -13590071 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 243 13 0 66206934 13 1 66208383 deletion 1439 21 0 0 0 26_samples:0 66206647 66206942 296 60 66208381 66208659 279 60 PCDH9 IGR: 670Kb before PCDH9(-) PCDH9 IGR: 669Kb before PCDH9(-) - 0 0 0 0 0 1 0 3 5.304909e-01 5.304909e-01 1 21 1 21 1 66206942 66208381 1 66206934 -8 66208383 2 6 9.920738e-01 0 6 79 0 12 1 -1 -66206943 -1 -66208382 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 242 12 1 126643241 12 0 126645997 tandem_dup 2753 21 0 0 0 26_samples:0 126643250 126643562 313 66 126645701 126646003 303 55 LOC100128554 IGR: 284Kb before LOC100128554(+) LOC100128554 IGR: 281Kb before LOC100128554(+) - 3.000000e-02 2.000000e-02 0 0 1 1 1 0 1.041785e+00 1.044127e-01 9.999271e-01 2.099847e+01 1 2.099847e+01 1 126643250 126646003 1 126643241 -9 126645997 -6 20 9.797414e-01 1 1 78 0 36 1 -1 -126643251 -1 -126646004 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 244 17 1 57917645 17 0 57942756 tandem_dup 25119 21 0 0 0 26_samples:0 57917641 57917945 305 60 57942415 57942760 346 67 TMEM49 3'-UTR of TMEM49(+): 369bp after coding stop TUBD1 Intron of TUBD1(-): 1Kb after exon 7 - 0 0 1.000000e-02 3.000000e-02 3 0 3 2 5.304909e-01 1.127000e+00 9.979558e-01 2.095707e+01 1 2.095707e+01 1 57917641 57942760 1 57917645 4 57942756 -4 14 9.669750e-01 1 3 69 0 21 1 -1 -57917642 -1 -57942761 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 207 4 1 32211310 4 0 32213938 tandem_dup 2606 22 0 0 0 26_samples:0 32211331 32211613 283 62 32213632 32213937 306 70 PCDH7 IGR: 1Mb before PCDH7(+) PCDH7 IGR: 1Mb before PCDH7(+) - 0 0 5.000000e-02 7.000000e-02 2 1 1 2 7.009222e-01 1.382647e+00 9.469456e-01 2.083280e+01 1 2.083280e+01 1 32211331 32213937 1 32211310 -21 32213938 1 5 9.937576e-01 1 0 70 0 27 1 32211129 -202 32214057 120 1 7.859495e-01 1 1 71 0 12 1 2.250000e+00 LUSC-66-2766 236 7 0 71539651 7 1 71541028 deletion 1368 21 0 0 0 26_samples:0 71539386 71539653 268 63 71541021 71541310 290 59 CALN1 Intron of CALN1(-): 31Kb after exon 4 CALN1 Intron of CALN1(-): 30Kb after exon 4 Deletion within intron 8.000000e-02 7.000000e-02 2.000000e-02 3.000000e-02 1 2 5 1 7.861379e-01 4.452753e-01 9.917343e-01 2.082642e+01 1 2.082642e+01 1 71539653 71541021 1 71539651 -2 71541028 7 7 9.915503e-01 0 2 72 0 21 1 71539694 41 71540820 -201 1 7.910274e-01 0 0 71 62 CTGCCCTATCTTCAAAGCCCTCAGGCCATGGGAGGTTAGGTTTCAACAAATAGAGACATCTG 49 1 4.285714e-01 LUSC-66-2766 191 12 0 53381288 12 1 53383580 deletion 2324 24 0 0 0 26_samples:0 53380961 53381259 299 64 53383583 53383875 293 56 EIF4B IGR: 19Kb before EIF4B(+) EIF4B IGR: 16Kb before EIF4B(+) - 1.100000e-01 1.500000e-01 2.000000e-02 2.000000e-02 6 1 6 1 8.713535e-01 1.896284e-01 8.534994e-01 2.048398e+01 1 2.048398e+01 1 53381259 53383583 1 53381288 29 53383580 -3 20 8.468644e-01 0 1 99 0 28 1 53381161 -98 53383486 -97 9 7.936125e-01 0 4 116 0 43 1 6.511628e-01 LUSC-66-2766 209 4 1 118428177 4 0 118441943 tandem_dup 13767 22 0 0 0 26_samples:0 118428176 118428484 309 58 118441666 118441943 278 55 TRAM1L1 IGR: 423Kb before TRAM1L1(-) TRAM1L1 IGR: 437Kb before TRAM1L1(-) - 0 0 2.000000e-02 7.000000e-02 2 2 6 2 3.600596e-01 1.044127e-01 9.212065e-01 2.026654e+01 1 2.026654e+01 1 118428176 118441943 1 118428177 1 118441943 0 20 9.944145e-01 1 3 72 0 28 1 -1 -118428177 -1 -118441944 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 247 1 1 8395584 1 0 8403270 tandem_dup 7650 20 0 0 0 26_samples:0 8395581 8395859 279 53 8402963 8403231 269 55 SLC45A1 Exon 5 of SLC45A1(+) SLC45A1 Intron of SLC45A1(+): 576bp before exon 8 Duplication within transcript: mid-exon 0 0 0 3.000000e-02 1 1 1 1 -6.601857e-02 1.044127e-01 1 20 1 20 1 8395581 8403231 1 8395584 3 8403270 39 9 9.413635e-01 1 0 81 1 T 14 1 -1 -8395582 -1 -8403232 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 248 2 0 78687748 2 1 78729083 deletion 41341 20 0 0 0 26_samples:0 78687474 78687738 265 52 78729079 78729380 302 54 SNAR-H IGR: 506Kb before SNAR-H(-) REG3G IGR: 524Kb before REG3G(+) - 0 0 2.000000e-02 4.000000e-02 2 2 2 1 -1.512342e-01 1.919707e-02 1 20 1 20 1 78687738 78729079 1 78687748 10 78729083 4 8 9.973135e-01 0 3 73 0 17 1 -1 -78687739 -1 -78729080 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 252 3 1 189597451 3 1 189603514 inversion 6072 20 0 0 0 26_samples:0 189597450 189597720 271 52 189603522 189603812 291 55 TP63 Intron of TP63(+): 403bp before exon 11 TP63 Intron of TP63(+): 661bp before exon 11 - 0 0 0 0 4 1 3 1 -1.512342e-01 1.044127e-01 1 20 1 20 1 189597450 189603522 1 189597451 1 189603514 -8 13 9.256392e-01 1 2 77 2 TT 34 1 -1 -189597451 -1 -189603523 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 254 3 0 197610125 3 0 197613481 inversion 3315 20 0 0 0 26_samples:0 197609908 197610130 223 39 197613213 197613445 233 38 IQCG IGR: 6Kb before IQCG(-) IQCG IGR: 3Kb before IQCG(-) - 0 0 0 0 1 1 1 0 -1.259038e+00 -1.344253e+00 1 20 1 20 1 197610130 197613445 1 197610125 -5 197613481 36 10 9.829529e-01 0 3 77 0 39 1 197610288 158 197613646 201 1 8.937086e-01 0 1 69 1 C 21 1 1.857143e+00 LUSC-66-2766 262 6 1 165422425 6 0 165443856 tandem_dup 21429 20 0 0 0 26_samples:0 165422425 165422696 272 52 165443583 165443854 272 51 C6orf118 IGR: 271Kb before C6orf118(-) C6orf118 IGR: 249Kb before C6orf118(-) - 0 0 0 2.000000e-02 2 0 1 1 -1.512342e-01 -2.364499e-01 1 20 1 20 1 165422425 165443854 1 165422425 0 165443856 2 20 9.734944e-01 1 0 64 1 A 32 1 -1 -165422426 -1 -165443855 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 264 7 0 126031714 7 1 126033837 deletion 2119 20 0 0 0 26_samples:0 126031409 126031719 311 63 126033838 126034109 272 64 GRM8 IGR: 47Kb before GRM8(-) GRM8 IGR: 45Kb before GRM8(-) - 2.000000e-02 0 0 0 1 0 1 1 7.861379e-01 8.713535e-01 1 20 1 20 1 126031719 126033838 1 126031714 -5 126033837 -1 20 9.570734e-01 0 0 63 1 G 43 1 -1 -126031720 -1 -126033839 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 265 8 0 64625386 8 1 64636588 deletion 11216 20 0 0 0 26_samples:0 64625071 64625388 318 62 64636604 64636862 259 48 YTHDF3 IGR: 500Kb after YTHDF3(+) YTHDF3 IGR: 555Kb before YTHDF3(+) - 4.000000e-02 5.000000e-02 0 0 2 0 1 1 7.009222e-01 -4.920968e-01 1 20 1 20 1 64625388 64636604 1 64625386 -2 64636588 -16 20 9.870275e-01 0 1 76 0 26 1 -1 -64625389 -1 -64636605 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 266 8 1 120426713 8 1 120440379 inversion 13677 20 0 0 0 26_samples:0 120426707 120426960 254 48 120440384 120440673 290 60 NOV Promoter of NOV(+): 2Kb from tx start NOV IGR: 4Kb after NOV(+) - 0 0 0 0 1 0 1 1 -4.920968e-01 5.304909e-01 1 20 1 20 1 120426707 120440384 1 120426713 6 120440379 -5 20 9.775582e-01 1 2 71 0 31 1 -1 -120426708 -1 -120440385 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 268 9 0 8988359 9 1 8991106 deletion 2744 20 0 0 0 26_samples:0 8988103 8988365 263 62 8991109 8991396 288 59 PTPRD 5'-UTR of PTPRD(-): 255Kb before coding start PTPRD 5'-UTR of PTPRD(-): 257Kb before coding start Deletion within transcript 0 0 5.000000e-02 1.100000e-01 4 0 0 2 7.009222e-01 4.452753e-01 1 20 1 20 1 8988365 8991109 1 8988359 -6 8991106 -3 20 9.924335e-01 0 0 68 0 32 1 -1 -8988366 -1 -8991110 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 270 10 0 120137227 10 1 120140568 deletion 3353 20 0 0 0 26_samples:0 120136912 120137235 324 58 120140588 120140860 273 62 C10orf84 IGR: 35Kb after C10orf84(-) C10orf84 IGR: 39Kb after C10orf84(-) - 0 0 0 0 0 0 0 1 3.600596e-01 7.009222e-01 1 20 1 20 1 120137235 120140588 1 120137227 -8 120140568 -20 20 9.592806e-01 0 3 74 0 26 1 -1 -120137236 -1 -120140589 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 271 10 1 27739475 10 0 27746143 tandem_dup 6677 20 0 0 0 26_samples:0 27739477 27739735 259 44 27745813 27746154 342 56 PTCHD3 IGR: 52Kb before PTCHD3(-) RAB18 IGR: 47Kb before RAB18(+) - 0 0 0 0 1 1 0 0 -8.329594e-01 1.896284e-01 1 20 1 20 1 27739477 27746154 1 27739475 -2 27746143 -11 17 9.987352e-01 1 2 76 0 22 1 -1 -27739478 -1 -27746155 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 272 11 0 34433566 11 1 34438793 deletion 5266 20 0 0 0 26_samples:0 34433323 34433543 221 42 34438809 34439108 300 63 CAT IGR: 27Kb before CAT(+) CAT IGR: 22Kb before CAT(+) - 0 0 0 0 0 0 2 1 -1.003391e+00 7.861379e-01 1 20 1 20 1 34433543 34438809 1 34433566 23 34438793 -16 11 8.971995e-01 0 1 68 1 A 17 1 -1 -34433544 -1 -34438810 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 273 12 1 59254711 12 0 59265808 tandem_dup 11085 20 0 0 0 26_samples:0 59254729 59255007 279 47 59265553 59265814 262 52 LRIG3 IGR: 11Kb before LRIG3(-) LRIG3 IGR: 124bp before LRIG3(-) - 1.000000e-02 0 0 0 1 0 4 0 -5.773124e-01 -1.512342e-01 1 20 1 20 1 59254729 59265814 1 59254711 -18 59265808 -6 5 9.436245e-01 1 0 73 8 AAAAAAAA 25 1 -1 -59254730 -1 -59265815 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 275 17 0 21941537 17 1 21945796 deletion 4264 20 0 0 0 26_samples:0 21941245 21941528 284 64 21945792 21946064 273 57 FLJ36000 IGR: 37Kb before FLJ36000(+) FLJ36000 IGR: 42Kb before FLJ36000(+) - 0 2.000000e-02 0 1.300000e-01 2 0 1 1 8.713535e-01 2.748440e-01 1 20 1 20 1 21941528 21945792 1 21941537 9 21945796 4 13 9.918786e-01 0 2 59 0 31 1 -1 -21941529 -1 -21945793 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 277 18 1 33860000 18 0 33874428 tandem_dup 14402 20 0 0 0 26_samples:0 33860019 33860292 274 53 33874163 33874421 259 60 FHOD3 IGR: 18Kb before FHOD3(+) FHOD3 IGR: 3Kb before FHOD3(+) - 0 0 0 0 1 1 2 0 -6.601857e-02 5.304909e-01 1 20 1 20 1 33860019 33874421 1 33860000 -19 33874428 7 9 8.162400e-01 1 2 78 1 T 16 1 -1 -33860020 -1 -33874422 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 278 23 0 9004342 23 1 9007963 deletion 3623 20 0 0 0 26_samples:0 9004109 9004343 235 44 9007966 9008267 302 65 FAM9B IGR: 3Kb after FAM9B(-) FAM9B IGR: 7Kb after FAM9B(-) - 1.700000e-01 1.700000e-01 0 0 1 1 2 1 -8.329594e-01 9.565691e-01 1 20 1 20 1 9004343 9007966 1 9004342 -1 9007963 -3 12 9.943448e-01 0 1 77 0 18 1 -1 -9004344 -1 -9007967 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 269 10 0 90053831 10 0 90063121 inversion 9294 20 0 0 0 26_samples:0 90053496 90053819 324 67 90062853 90063113 261 60 RNLS Intron of RNLS(-): 9Kb before exon 7 RNLS Intron of RNLS(-): 11Kb after exon 6 - 0 0 0 0 1 1 0 1 1.127000e+00 5.304909e-01 9.979558e-01 1.995912e+01 1 1.995912e+01 1 90053819 90063113 1 90053831 12 90063121 8 7 9.806676e-01 0 1 70 1 C 25 1 -1 -90053820 -1 -90063114 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 267 8 1 118981103 8 0 118988249 tandem_dup 7138 20 0 0 0 26_samples:0 118981118 118981414 297 63 118987958 118988256 299 68 EXT1 Intron of EXT1(-): 132Kb before exon 2 EXT1 Intron of EXT1(-): 134Kb after exon 1 Duplication within intron 0 0 0 0 1 1 2 0 7.861379e-01 1.212216e+00 9.905332e-01 1.981066e+01 1 1.981066e+01 1 118981118 118988256 1 118981103 -15 118988249 -7 13 9.779033e-01 1 5 67 0 22 1 -1 -118981119 -1 -118988257 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 261 6 1 164844492 6 0 164847529 tandem_dup 3028 20 0 0 0 26_samples:0 164844498 164844823 326 68 164847255 164847526 272 68 C6orf118 IGR: 849Kb before C6orf118(-) C6orf118 IGR: 846Kb before C6orf118(-) - 0 0 0 0 2 1 3 1 1.212216e+00 1.212216e+00 9.811560e-01 1.962312e+01 1 1.962312e+01 1 164844498 164847526 1 164844492 -6 164847529 3 2 9.155442e-01 1 0 77 0 17 1 -1 -164844499 -1 -164847527 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 251 3 0 160121985 3 1 160146459 deletion 24477 20 0 0 0 26_samples:0 160121668 160121992 325 69 160146469 160146719 251 53 SMC4 Intron of SMC4(+): 124bp before exon 4 SMC4 Intron of SMC4(+): 72bp before exon 17 Deletion of 13 exons: out of frame 0 0 0 0 4 2 3 0 1.297432e+00 -6.601857e-02 9.743621e-01 1.948724e+01 1 1.948724e+01 1 160121992 160146469 1 160121985 -7 160146459 -10 16 9.746896e-01 0 3 72 0 39 1 -1 -160121993 -1 -160146470 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 72 20 0 9003594 20 0 9009457 inversion 5854 33 0 0 0 26_samples:0 9003243 9003596 354 74 9009153 9009450 298 65 PLCB4 IGR: 46Kb before PLCB4(+) PLCB4 IGR: 40Kb before PLCB4(+) - 0 0 0 0 1 1 1 0 1.894489e+00 1.041372e+00 5.828143e-01 1.923287e+01 1 1.923287e+01 1 9003596 9009450 1 9003594 -2 9009457 7 18 9.822837e-01 0 2 73 0 31 1 -1 -9003597 -1 -9009451 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 279 1 0 94471004 1 0 94473260 inversion 2244 19 0 0 0 26_samples:0 94470717 94471002 286 62 94472943 94473246 304 65 ABCA4 Exon 44 of ABCA4(-) ABCA4 Exon 43 of ABCA4(-) - 0 0 0 0 1 1 0 0 6.626660e-01 8.978648e-01 1 19 1 19 1 94471002 94473246 1 94471004 2 94473260 14 10 9.260566e-01 0 1 71 0 29 1 -1 -94471003 -1 -94473247 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 280 1 0 108359169 1 0 108362127 inversion 2859 19 0 0 0 26_samples:0 108358939 108359173 235 36 108361839 108362032 194 45 VAV3 Intron of VAV3(-): 37Kb before exon 3 VAV3 Intron of VAV3(-): 40Kb before exon 3 - 0 0 0 0 0 0 2 1 -1.375724e+00 -6.701273e-01 1 19 1 19 1 108359173 108362032 1 108359169 -4 108362127 95 5 9.535545e-01 0 0 70 10 AACCAACCAA 15 1 -1 -108359174 -1 -108362033 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 283 3 1 128889814 3 0 128913851 tandem_dup 24024 19 0 0 0 26_samples:0 128889830 128890116 287 51 128913587 128913854 268 46 CNBP Intron of CNBP(-): 92bp after exon 4 CNBP IGR: 27Kb before CNBP(-) - 0 0 2.000000e-02 9.000000e-02 4 0 3 1 -1.997297e-01 -5.917277e-01 1 19 1 19 1 128889830 128913854 1 128889814 -16 128913851 -3 13 9.816182e-01 1 1 72 0 25 1 128889619 -211 128913802 -52 6 8.790200e-01 1 11 75 0 6 1 4.166667e+00 LUSC-66-2766 284 4 1 93611101 15 1 48722924 inter_chr NaN 19 0 0 0 26_samples:0 93611102 93611343 242 55 48722932 48723221 290 57 GRID2 Intron of GRID2(+): 100Kb after exon 2 FBN1 Exon 56 of FBN1(-) Protein fusion: mid-exon (FBN1-GRID2) 0 0 0 0 3 1 2 0 1.138687e-01 2.706680e-01 1 19 1 19 1 93611102 48722932 1 93611101 -1 48722924 -8 8 9.973699e-01 1 1 64 0 18 1 -1 -93611103 -1 -48722933 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 286 6 0 167571828 6 1 167577489 deletion 5668 19 0 0 0 26_samples:0 167571551 167571819 269 56 167577487 167577762 276 62 GPR31 Promoter of GPR31(-): 500bp from tx start TCP10L2 IGR: 7Kb before TCP10L2(+) - 0 0 0 0 0 0 0 1 1.922684e-01 6.626660e-01 1 19 1 19 1 167571819 167577487 1 167571828 9 167577489 2 12 9.889066e-01 0 1 68 0 20 1 -1 -167571820 -1 -167577488 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 287 6 0 65551874 6 1 65553932 deletion 2053 19 0 0 0 26_samples:0 65551575 65551880 306 61 65553933 65554185 253 52 EYS Intron of EYS(-): 19Kb before exon 20 EYS Intron of EYS(-): 21Kb before exon 20 Deletion within intron 0 0 2.000000e-02 4.000000e-02 1 0 0 1 5.842664e-01 -1.213301e-01 1 19 1 19 1 65551880 65553933 1 65551874 -6 65553932 -1 20 9.844332e-01 0 0 72 1 C 36 1 -1 -65551881 -1 -65553934 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 288 8 1 102385439 8 0 102401908 tandem_dup 16468 19 0 0 0 26_samples:0 102385443 102385705 263 56 102401599 102401911 313 59 NACAP1 IGR: 4Kb before NACAP1(+) NACAP1 IGR: 21Kb before NACAP1(+) - 2.000000e-02 3.000000e-02 0 0 2 1 3 2 1.922684e-01 4.274672e-01 1 19 1 19 1 102385443 102401911 1 102385439 -4 102401908 -3 12 9.806238e-01 1 4 57 0 26 1 -1 -102385444 -1 -102401912 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 289 10 0 63007989 10 1 63010142 deletion 2148 19 0 0 0 26_samples:0 63007701 63007995 295 56 63010143 63010428 286 54 TMEM26 IGR: 158Kb before TMEM26(-) TMEM26 IGR: 156Kb before TMEM26(-) - 0 0 0 0 2 1 1 0 1.922684e-01 3.546914e-02 1 19 1 19 1 63007995 63010143 1 63007989 -6 63010142 -1 10 9.926356e-01 0 3 77 0 20 1 -1 -63007996 -1 -63010144 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 291 10 0 107896772 10 1 107899396 deletion 2630 19 0 0 0 26_samples:0 107896457 107896766 310 60 107899396 107899649 254 58 SORCS1 IGR: 437Kb before SORCS1(-) SORCS1 IGR: 434Kb before SORCS1(-) - 0 0 0 0 0 0 1 1 5.058668e-01 3.490676e-01 1 19 1 19 1 107896766 107899396 1 107896772 6 107899396 0 17 9.418558e-01 0 8 72 0 22 1 -1 -107896767 -1 -107899397 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 292 10 1 122182846 10 0 122191475 tandem_dup 8617 19 0 0 0 26_samples:0 122182856 122183106 251 54 122191198 122191473 276 54 PPAPDC1A IGR: 34Kb before PPAPDC1A(+) PPAPDC1A IGR: 25Kb before PPAPDC1A(+) - 0 0 2.000000e-02 0 0 0 1 1 3.546914e-02 3.546914e-02 1 19 1 19 1 122182856 122191473 1 122182846 -10 122191475 2 12 9.489108e-01 1 0 69 8 ACATGGTC 26 1 -1 -122182857 -1 -122191474 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 293 11 1 23980379 11 0 23989835 tandem_dup 9445 19 0 0 0 26_samples:0 23980393 23980653 261 52 23989576 23989838 263 58 LUZP2 IGR: 538Kb before LUZP2(+) LUZP2 IGR: 529Kb before LUZP2(+) - 0 0 0 0 1 0 1 0 -1.213301e-01 3.490676e-01 1 19 1 19 1 23980393 23989838 1 23980379 -14 23989835 -3 8 9.452054e-01 1 0 60 28 GAATTTCCCACACTGAAATTTCACAGAA 51 1 -1 -23980394 -1 -23989839 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 295 13 0 38331887 13 1 38333817 deletion 1981 19 0 0 0 26_samples:0 38331612 38331872 261 44 38333853 38334119 267 55 TRPC4 Intron of TRPC4(-): 11Kb before exon 3 TRPC4 Intron of TRPC4(-): 13Kb before exon 3 Deletion within intron 0 0 0 0 0 1 1 1 -7.485269e-01 1.138687e-01 1 19 1 19 1 38331872 38333853 1 38331887 15 38333817 -36 12 9.809701e-01 0 2 82 0 17 1 -1 -38331873 -1 -38333854 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 297 17 0 57419765 17 1 57421641 deletion 1899 19 0 0 0 26_samples:0 57419431 57419768 338 59 57421667 57421934 268 55 YPEL2 5'-UTR of YPEL2(+): 11Kb before coding start YPEL2 5'-UTR of YPEL2(+): 9Kb before coding start Deletion within transcript 0 0 0 7.000000e-02 3 1 0 0 4.274672e-01 1.138687e-01 1 19 1 19 1 57419768 57421667 1 57419765 -3 57421641 -26 20 9.471048e-01 0 2 75 0 38 1 -1 -57419769 -1 -57421668 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 299 19 0 22154864 19 0 22180901 inversion 26033 19 0 0 0 26_samples:0 22154562 22154874 313 58 22180605 22180907 303 59 ZNF208 Exon 4 of ZNF208(-) ZNF208 Intron of ZNF208(-): 9Kb before exon 2 - 5.000000e-02 1.400000e-01 9.000000e-02 1.000000e-01 2 1 2 0 3.490676e-01 4.274672e-01 1 19 1 19 1 22154874 22180907 1 22154864 -10 22180901 -6 18 9.982508e-01 0 1 74 0 29 1 -1 -22154875 -1 -22180908 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 302 22 0 19720058 22 1 21110177 long_range 1390163 19 0 0 0 26_samples:0 19719770 19720030 261 46 21110193 21110428 236 46 GP1BB IGR: 8Kb after GP1BB(+) PI4KA Intron of PI4KA(-): 3Kb before exon 24 - 1.000000e-02 6.000000e-02 0 0 2 2 2 0 -5.917277e-01 -5.917277e-01 1 19 1 19 1 19720030 21110193 1 19720058 28 21110177 -16 12 9.802609e-01 0 1 68 0 52 1 -1 -19720031 -1 -21110194 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 10 18 1 35291730 22 1 18432965 inter_chr NaN 56 0 0 0 26_samples:0 35291737 35292035 299 59 18432961 18433250 290 53 CELF4 IGR: 469Kb before CELF4(-) MICAL3 5'-UTR of MICAL3(-): 43Kb before coding start - 0 0 7.000000e-02 2.000000e-01 10 0 3 5 4.726269e-01 -9.611807e-02 3.390546e-01 1.898706e+01 1 1.898706e+01 1 35291737 18432961 1 35291730 -7 18432965 4 20 9.758078e-01 1 0 74 1 T 77 1 -1 -35291738 -1 -18432962 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 255 4 1 35865534 4 0 35873498 tandem_dup 7953 20 0 0 0 26_samples:0 35865532 35865856 325 64 35873135 35873485 351 70 ARAP2 IGR: 202Kb before ARAP2(-) ARAP2 IGR: 194Kb before ARAP2(-) - 2.000000e-02 6.000000e-02 0 0 1 1 2 1 8.713535e-01 1.382647e+00 9.469456e-01 1.893891e+01 1 1.893891e+01 1 35865532 35873485 1 35865534 2 35873498 13 20 9.626274e-01 1 5 76 0 36 1 -1 -35865533 -1 -35873486 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 276 17 0 46342226 17 1 46344945 deletion 2769 20 0 0 0 26_samples:0 46341910 46342178 269 70 46344947 46345203 257 53 SKAP1 Intron of SKAP1(-): 75Kb before exon 5 SKAP1 Intron of SKAP1(-): 78Kb before exon 5 Deletion within intron 0 3.000000e-02 0 0 1 1 2 1 1.382647e+00 -6.601857e-02 9.469456e-01 1.893891e+01 1 1.893891e+01 1 46342178 46344947 1 46342226 48 46344945 -2 20 9.763527e-01 0 5 77 0 29 1 -1 -46342179 -1 -46344948 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 45 4 0 166732662 4 1 166734255 deletion 1586 37 0 0 0 26_samples:0 166732364 166732664 301 54 166734250 166734594 345 75 TLL1 IGR: 62Kb before TLL1(+) TLL1 IGR: 60Kb before TLL1(+) - 0 0 0 0 1 1 1 0 -1.327241e-03 1.989280e+00 5.080825e-01 1.879905e+01 1 1.879905e+01 1 166732664 166734250 1 166732662 -2 166734255 5 20 9.744021e-01 0 2 67 0 27 1 -1 -166732665 -1 -166734251 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 294 13 1 106149417 13 0 106159477 tandem_dup 10072 19 0 0 0 26_samples:0 106149412 106149729 318 70 106159137 106159484 348 67 DAOA IGR: 6Kb after DAOA(+) DAOA IGR: 41Kb before DAOA(+) - 0 0 0 0 1 0 1 1 1.289863e+00 1.054664e+00 9.760652e-01 1.854524e+01 1 1.854524e+01 1 106149412 106159484 1 106149417 5 106159477 -7 16 9.837929e-01 1 0 69 0 28 1 -1 -106149413 -1 -106159485 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 215 6 0 62780283 6 1 62781303 deletion 1014 22 0 0 0 26_samples:0 62779981 62780289 309 72 62781303 62781611 309 69 KHDRBS2 Intron of KHDRBS2(-): 22Kb before exon 3 KHDRBS2 Intron of KHDRBS2(-): 23Kb before exon 3 Deletion within intron 1.300000e-01 3.000000e-02 1.300000e-01 2.500000e-01 1 1 1 2 1.553079e+00 1.297432e+00 8.333690e-01 1.833412e+01 1 1.833412e+01 1 62780289 62781303 1 62780283 -6 62781303 0 17 9.957589e-01 0 5 76 0 29 1 -1 -62780290 -1 -62781304 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 110 3 0 100613656 19 1 29655865 inter_chr NaN 28 0 0 0 26_samples:0 100613326 100613655 330 75 29655864 29656209 346 60 ABI3BP Intron of ABI3BP(-): 4Kb after exon 4 UQCRFS1 IGR: 42Kb before UQCRFS1(-) - 5.000000e-02 1.300000e-01 0 0 2 2 2 1 1.808726e+00 5.304909e-01 6.540494e-01 1.831338e+01 1 1.831338e+01 1 100613655 29655864 1 100613656 1 29655865 1 20 9.570867e-01 0 0 67 0 30 1 -1 -100613656 -1 -29655865 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 249 2 1 146330808 2 0 146335114 tandem_dup 4305 20 0 0 0 26_samples:0 146330804 146331144 341 71 146334853 146335109 257 55 PABPC1P2 IGR: 1Mb before PABPC1P2(+) PABPC1P2 IGR: 1Mb before PABPC1P2(+) - 0 0 0 0 1 1 2 1 1.467863e+00 1.044127e-01 9.071009e-01 1.814202e+01 1 1.814202e+01 1 146330804 146335109 1 146330808 4 146335114 5 9 1 1 4 74 0 13 1 146330617 -187 146335310 201 1 8.059888e-01 1 0 86 1 G 14 1 9.285714e-01 LUSC-66-2766 253 3 0 189677111 3 0 189682971 inversion 5850 20 0 0 0 26_samples:0 189676818 189677117 300 64 189682718 189682967 250 53 LEPREL1 Intron of LEPREL1(-): 1Kb before exon 15 LEPREL1 Intron of LEPREL1(-): 1Kb before exon 14 - 2.000000e-02 2.900000e-01 0 0 6 1 2 0 8.713535e-01 -6.601857e-02 9.058483e-01 1.811697e+01 1 1.811697e+01 1 189677117 189682967 1 189677111 -6 189682971 4 20 9.880830e-01 0 4 71 0 87 1 189677318 201 189682867 -100 1 7.549123e-01 0 0 87 1 C 8 1 1.087500e+01 LUSC-66-2766 220 8 0 83534312 8 0 83538218 inversion 3914 22 0 0 0 26_samples:0 83533980 83534314 335 71 83537861 83538228 368 71 SNX16 IGR: 822Kb before SNX16(-) SNX16 IGR: 826Kb before SNX16(-) - 0 3.000000e-02 0 0 1 0 0 0 1.467863e+00 1.467863e+00 8.228320e-01 1.810230e+01 1 1.810230e+01 1 83534314 83538228 1 83534312 -2 83538218 -10 18 9.869695e-01 0 3 78 0 29 1 83534517 203 83538381 153 1 7.521163e-01 0 4 79 0 7 1 4.142857e+00 LUSC-66-2766 296 17 0 8644940 17 1 8647434 deletion 2483 19 0 0 0 26_samples:0 8644631 8644946 316 71 8647429 8647736 308 68 CCDC42 Exon 4 of CCDC42(-) CCDC42 Exon 2 of CCDC42(-) Deletion within transcript: mid-exon 0 0 0 0 1 0 0 0 1.368262e+00 1.133064e+00 9.501942e-01 1.805369e+01 1 1.805369e+01 1 8644946 8647429 1 8644940 -6 8647434 5 16 9.817066e-01 0 4 86 0 24 1 -1 -8644947 -1 -8647430 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 304 1 1 40252960 1 1 201734533 long_range 161481582 18 0 0 0 26_samples:0 40252962 40253241 280 54 201734544 201734803 260 59 BMP8B Intron of BMP8B(-): 862bp after exon 1 NAV1 Intron of NAV1(+): 15Kb before exon 2 Protein fusion: out of frame (BMP8B-NAV1) 0 0 2.000000e-02 1.300000e-01 2 0 2 1 3.546914e-02 4.274672e-01 1 18 1 18 1 40252962 201734544 1 40252960 -2 201734533 -11 8 9.784670e-01 1 1 61 0 11 1 -1 -40252963 -1 -201734545 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 306 1 0 192142274 1 1 192144800 deletion 2515 18 0 0 0 26_samples:0 192142010 192142278 269 57 192144793 192145045 253 48 RGS18 Intron of RGS18(+): 8Kb before exon 4 RGS18 Intron of RGS18(+): 6Kb before exon 4 Deletion within intron 0 0 0 0 0 0 2 1 2.706680e-01 -4.349285e-01 1 18 1 18 1 192142278 192144793 1 192142274 -4 192144800 7 18 9.916503e-01 0 3 75 0 25 1 -1 -192142279 -1 -192144794 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 308 1 1 203687770 1 0 203693399 tandem_dup 5588 18 0 0 0 26_samples:0 203687802 203688061 260 54 203693108 203693390 283 58 ATP2B4 Intron of ATP2B4(+): 2Kb before exon 16 ATP2B4 Intron of ATP2B4(+): 274bp after exon 19 Duplication of 4 exons: in frame 0 0 0 0 1 0 1 0 3.546914e-02 3.490676e-01 1 18 1 18 1 203687802 203693390 1 203687770 -32 203693399 9 9 9.787040e-01 1 1 63 0 25 1 -1 -203687803 -1 -203693391 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 310 2 0 65029164 2 1 65037065 deletion 7934 18 0 0 0 26_samples:0 65028877 65029126 250 51 65037060 65037337 278 59 SERTAD2 IGR: 170Kb before SERTAD2(-) SERTAD2 IGR: 178Kb before SERTAD2(-) - 0 0 0 0 1 0 2 1 -1.997297e-01 4.274672e-01 1 18 1 18 1 65029126 65037060 1 65029164 38 65037065 5 13 9.743885e-01 0 2 76 0 31 1 -1 -65029127 -1 -65037061 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 311 2 1 102785030 2 1 102797310 inversion 12315 18 0 0 0 26_samples:0 102785030 102785343 314 51 102797345 102797606 262 57 IL1R1 Intron of IL1R1(+): 28bp before exon 6 IL1RL2 IGR: 6Kb before IL1RL2(+) - 0 0 0 0 1 1 1 1 -1.997297e-01 2.706680e-01 1 18 1 18 1 102785030 102797345 1 102785030 0 102797310 -35 12 9.697321e-01 1 1 76 0 18 1 -1 -102785031 -1 -102797346 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 316 2 0 126631553 9 1 77378691 inter_chr NaN 18 0 0 0 26_samples:0 126631226 126631516 291 59 77378686 77378912 227 45 GYPC IGR: 782Kb before GYPC(+) TRPM6 Intron of TRPM6(-): 636bp before exon 26 - 2.000000e-02 3.000000e-02 3.000000e-02 3.000000e-02 2 1 1 1 4.274672e-01 -6.701273e-01 1 18 1 18 1 126631516 77378686 1 126631553 37 77378691 5 13 9.578019e-01 0 0 72 1 G 22 1 126631719 203 77378519 -167 1 8.015669e-01 0 2 83 35 AAATGCAGAGGTCACTGATGTATCTTAACAACAAA 37 1 5.945946e-01 LUSC-66-2766 317 3 1 140935410 3 0 140945830 tandem_dup 10418 18 0 0 0 26_samples:0 140935408 140935674 267 53 140945534 140945826 293 65 ACPL2 IGR: 15Kb before ACPL2(+) ACPL2 IGR: 5Kb before ACPL2(+) - 0 0 0 0 2 0 2 3 -4.293047e-02 8.978648e-01 1 18 1 18 1 140935408 140945826 1 140935410 2 140945830 4 8 9.811558e-01 1 1 68 0 22 1 -1 -140935409 -1 -140945827 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 324 7 0 148412009 7 1 148413092 deletion 1113 18 0 0 0 26_samples:0 148411715 148411973 259 50 148413086 148413312 227 44 CUL1 5'-UTR of CUL1(+): 15Kb before coding start CUL1 5'-UTR of CUL1(+): 14Kb before coding start Deletion within transcript 0 0 0 0 1 1 0 1 -2.781293e-01 -7.485269e-01 1 18 1 18 1 148411973 148413086 1 148412009 36 148413092 6 9 9.975296e-01 0 2 74 0 26 1 -1 -148411974 -1 -148413087 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 329 8 1 139145218 8 0 139148518 tandem_dup 3301 18 0 0 0 26_samples:0 139145221 139145507 287 48 139148221 139148522 302 61 FAM135B Intron of FAM135B(-): 180bp before exon 20 FAM135B Intron of FAM135B(-): 868bp after exon 19 Duplication within intron 0 0 0 0 0 1 1 1 -4.349285e-01 5.842664e-01 1 18 1 18 1 139145221 139148522 1 139145218 -3 139148518 -4 7 9.266993e-01 1 0 76 1 G 27 1 -1 -139145222 -1 -139148523 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 330 9 1 5539393 9 0 5591592 tandem_dup 52174 18 0 0 0 26_samples:0 5539397 5539655 259 57 5591295 5591571 277 54 PDCD1LG2 Intron of PDCD1LG2(+): 4Kb after exon 3 KIAA1432 IGR: 38Kb before KIAA1432(+) - 0 0 1.000000e-02 0 2 1 2 0 2.706680e-01 3.546914e-02 1 18 1 18 1 5539397 5591571 1 5539393 -4 5591592 21 20 9.089928e-01 1 2 76 0 35 1 -1 -5539398 -1 -5591572 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 331 10 1 20507502 10 0 20511700 tandem_dup 4143 18 0 0 0 26_samples:0 20507547 20507789 243 48 20511439 20511690 252 52 PLXDC2 Intron of PLXDC2(+): 446bp before exon 12 PLXDC2 Intron of PLXDC2(+): 4Kb after exon 12 Duplication of 1 exon: in frame 0 0 0 4.000000e-02 1 1 0 1 -4.349285e-01 -1.213301e-01 1 18 1 18 1 20507547 20511690 1 20507502 -45 20511700 10 8 9.994785e-01 1 2 70 0 17 1 -1 -20507548 -1 -20511691 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 334 10 1 32833847 10 0 32838157 tandem_dup 4290 18 0 0 0 26_samples:0 32833855 32834113 259 62 32837851 32838145 295 60 CCDC7 Intron of CCDC7(+): 626bp after exon 14 CCDC7 Intron of CCDC7(+): 5Kb after exon 14 Duplication within intron 2.000000e-02 0 3.000000e-02 4.000000e-02 1 1 0 1 6.626660e-01 5.058668e-01 1 18 1 18 1 32833855 32838145 1 32833847 -8 32838157 12 8 8.910046e-01 1 0 78 0 9 1 32833809 -46 32838347 202 2 8.438600e-01 1 1 82 14 TAGGTCCCAGATAT 21 1 4.285714e-01 LUSC-66-2766 335 11 1 67955724 23 1 142879255 inter_chr NaN 18 0 0 0 26_samples:0 67955732 67955990 259 59 142879266 142879549 284 60 SUV420H1 Intron of SUV420H1(-): 2Kb after exon 2 SPANXN2 IGR: 84Kb before SPANXN2(-) - 0 1.100000e-01 0 0 1 2 1 1 4.274672e-01 5.058668e-01 1 18 1 18 1 67955732 142879266 1 67955724 -8 142879255 -11 3 9.972010e-01 1 3 62 0 12 1 -1 -67955733 -1 -142879267 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 339 14 1 30034133 14 0 30039143 tandem_dup 4978 18 0 0 0 26_samples:0 30034161 30034425 265 59 30038875 30039139 265 49 PRKD1 IGR: 12Kb before PRKD1(-) PRKD1 IGR: 7Kb before PRKD1(-) - 0 0 0 0 0 0 0 2 4.274672e-01 -3.565289e-01 1 18 1 18 1 30034161 30039139 1 30034133 -28 30039143 4 9 9.975967e-01 1 2 58 0 17 1 -1 -30034162 -1 -30039140 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 340 14 1 53135635 14 0 53185681 tandem_dup 50037 18 0 0 0 26_samples:0 53135646 53135913 268 61 53185432 53185683 252 50 ERO1L Intron of ERO1L(-): 2Kb before exon 7 PSMC6 Intron of PSMC6(+): 12bp before exon 10 Antisense fusion 0 0 2.000000e-02 3.000000e-02 1 0 4 0 5.842664e-01 -2.781293e-01 1 18 1 18 1 53135646 53185683 1 53135635 -11 53185681 -2 11 9.965256e-01 1 3 66 0 16 1 53135657 11 53185884 201 1 8.429983e-01 1 0 71 24 GGAACAAACATGTTTCTCTATCAC 17 1 9.411765e-01 LUSC-66-2766 341 15 0 96638849 15 1 96641025 deletion 2178 18 0 0 0 26_samples:0 96638560 96638845 286 48 96641023 96641263 241 46 NR2F2 IGR: 230Kb before NR2F2(+) NR2F2 IGR: 228Kb before NR2F2(+) - 0 0 0 0 1 0 0 1 -4.349285e-01 -5.917277e-01 1 18 1 18 1 96638845 96641023 1 96638849 4 96641025 2 3 9.448163e-01 0 0 76 20 TTTATTTTATTTTATTTATA 23 1 -1 -96638846 -1 -96641024 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 343 19 0 4834529 19 0 5248440 inversion 413930 18 0 0 0 26_samples:0 4834263 4834504 242 43 5248178 5248434 257 44 TICAM1 Promoter of TICAM1(-): 3Kb from tx start PTPRS Intron of PTPRS(-): 2Kb before exon 7 - 1.000000e-02 4.000000e-02 0 0 2 0 2 1 -8.269265e-01 -7.485269e-01 1 18 1 18 1 4834504 5248434 1 4834529 25 5248440 6 5 9.831783e-01 0 3 66 0 22 1 -1 -4834505 -1 -5248435 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 345 23 0 11211264 23 1 11212157 deletion 929 18 0 0 0 26_samples:0 11210983 11211259 277 53 11212188 11212410 223 40 ARHGAP6 Intron of ARHGAP6(-): 4Kb after exon 3 ARHGAP6 Intron of ARHGAP6(-): 3Kb after exon 3 Deletion within intron 0 0 0 0 0 1 0 0 -4.293047e-02 -1.062125e+00 1 18 1 18 1 11211259 11212188 1 11211264 5 11212157 -31 13 8.686573e-01 0 0 73 0 16 1 -1 -11211260 -1 -11212189 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 346 23 1 19909848 23 0 19917446 tandem_dup 7595 18 0 0 0 26_samples:0 19909852 19910116 265 44 19917144 19917447 304 66 SH3KBP1 IGR: 4Kb after SH3KBP1(-) CXorf23 IGR: 14Kb before CXorf23(-) - 0 0 0 0 1 0 1 1 -7.485269e-01 9.762644e-01 1 18 1 18 1 19909852 19917447 1 19909848 -4 19917446 -1 20 9.408105e-01 1 0 74 0 30 1 -1 -19909853 -1 -19917448 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 250 2 0 176970146 2 1 176976048 deletion 5919 20 0 0 0 26_samples:0 176969843 176970150 308 71 176976069 176976365 297 68 HOXD11 Promoter of HOXD11(+): 2Kb from tx start HOXD11 IGR: 4Kb before HOXD11(+) - 0 0 0 0 2 0 0 0 1.467863e+00 1.212216e+00 8.985135e-01 1.797027e+01 1 1.797027e+01 1 176970150 176976069 1 176970146 -4 176976048 -21 12 9.697884e-01 0 1 50 0 22 1 -1 -176970151 -1 -176976070 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 312 2 0 178079707 2 1 178082094 deletion 2397 18 0 0 0 26_samples:0 178079446 178079701 256 49 178082098 178082393 296 68 HNRNPA3 Intron of HNRNPA3(+): 566bp before exon 2 HNRNPA3 Intron of HNRNPA3(+): 335bp before exon 8 Deletion of 6 exons: out of frame 4.000000e-02 1.000000e-01 2.000000e-02 0 0 0 1 1 -3.565289e-01 1.133064e+00 9.976495e-01 1.795769e+01 1 1.795769e+01 1 178079701 178082098 1 178079707 6 178082094 -4 14 8.579215e-01 0 1 74 0 18 1 178079855 154 178081894 -204 1 7.621835e-01 0 3 75 0 8 1 2.250000e+00 LUSC-66-2766 336 12 1 6187739 12 0 6194664 tandem_dup 6932 18 0 0 0 26_samples:0 6187738 6188042 305 68 6194343 6194670 328 64 VWF Intron of VWF(-): 3Kb before exon 7 VWF Intron of VWF(-): 10Kb before exon 7 Duplication within intron 0 0 0 0 1 1 1 1 1.133064e+00 8.194652e-01 9.976495e-01 1.795769e+01 1 1.795769e+01 1 6187738 6194670 1 6187739 1 6194664 -6 13 9.145021e-01 1 0 62 0 18 1 -1 -6187739 -1 -6194671 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 337 12 0 71485061 12 1 71486970 deletion 1927 18 0 0 0 26_samples:0 71484746 71485063 318 62 71486990 71487252 263 69 TSPAN8 IGR: 34Kb before TSPAN8(-) TSPAN8 IGR: 32Kb before TSPAN8(-) - 0 2.000000e-02 0 0 2 2 1 1 6.626660e-01 1.211463e+00 9.906326e-01 1.783139e+01 1 1.783139e+01 1 71485063 71486990 1 71485061 -2 71486970 -20 13 9.398149e-01 0 0 74 1 C 23 1 -1 -71485064 -1 -71486991 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 344 19 1 32980930 19 0 32986145 tandem_dup 5218 18 0 0 0 26_samples:0 32980928 32981229 302 69 32985882 32986146 265 57 DPY19L3 IGR: 4Kb after DPY19L3(+) DPY19L3 IGR: 9Kb after DPY19L3(+) - 0 0 0 0 1 0 1 4 1.211463e+00 2.706680e-01 9.906326e-01 1.783139e+01 1 1.783139e+01 1 32980928 32986146 1 32980930 2 32986145 -1 6 9.812836e-01 1 2 75 0 26 1 -1 -32980929 -1 -32986147 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 328 8 0 99694805 8 1 99699271 deletion 4471 18 0 0 0 26_samples:0 99694502 99694804 303 69 99699275 99699585 311 69 STK3 Intron of STK3(-): 24Kb after exon 6 STK3 Intron of STK3(-): 19Kb after exon 6 Deletion within intron 0 0 0 0 0 0 1 2 1.211463e+00 1.211463e+00 9.813530e-01 1.766435e+01 1 1.766435e+01 1 99694804 99699275 1 99694805 1 99699271 -4 14 9.808512e-01 0 1 76 0 17 1 -1 -99694805 -1 -99699276 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 320 3 0 189592192 3 0 189670351 inversion 78158 18 0 0 0 26_samples:0 189591856 189592192 337 70 189670057 189670350 294 57 TP63 Intron of TP63(+): 1Kb after exon 10 LEPREL1 IGR: 4Kb before LEPREL1(-) - 0 6.000000e-02 0 0 3 2 4 0 1.289863e+00 2.706680e-01 9.762246e-01 1.757204e+01 1 1.757204e+01 1 189592192 189670350 1 189592192 0 189670351 1 13 9.254964e-01 0 1 65 0 87 1 -1 -189592193 -1 -189670351 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 323 6 0 111638725 6 1 111641464 deletion 2743 18 0 0 0 26_samples:0 111638449 111638724 276 70 111641467 111641765 299 60 REV3L Intron of REV3L(-): 2Kb before exon 27 REV3L Intron of REV3L(-): 2Kb after exon 26 Deletion within intron 0 0 0 8.000000e-02 3 0 1 2 1.289863e+00 5.058668e-01 9.762246e-01 1.757204e+01 1 1.757204e+01 1 111638724 111641467 1 111638725 1 111641464 -3 10 9.814090e-01 0 3 83 0 23 1 -1 -111638725 -1 -111641468 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 333 10 1 65083574 10 0 65086398 tandem_dup 2788 18 0 0 0 26_samples:0 65083585 65083866 282 70 65086098 65086373 276 52 JMJD1C Intron of JMJD1C(-): 56Kb after exon 2 JMJD1C Intron of JMJD1C(-): 54Kb after exon 2 Duplication within intron 0 0 4.000000e-02 0 3 1 2 0 1.289863e+00 -1.213301e-01 9.762246e-01 1.757204e+01 1 1.757204e+01 1 65083585 65086373 1 65083574 -11 65086398 25 8 9.701276e-01 1 4 66 0 21 1 -1 -65083586 -1 -65086374 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 256 4 0 116004988 4 1 116006491 deletion 1498 20 0 0 0 26_samples:0 116004695 116004991 297 59 116006489 116006782 294 72 NDST4 5'-UTR of NDST4(-): 7Kb before coding start NDST4 5'-UTR of NDST4(-): 8Kb before coding start Deletion within transcript 7.000000e-02 0 0 4.000000e-02 2 2 1 1 4.452753e-01 1.553079e+00 8.552970e-01 1.710594e+01 1 1.710594e+01 1 116004991 116006489 1 116004988 -3 116006491 2 16 9.813079e-01 0 4 69 0 18 1 -1 -116004992 -1 -116006490 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 347 1 0 106877274 1 1 106878565 deletion 1291 17 0 0 0 26_samples:0 106876992 106877274 283 61 106878565 106878818 254 55 PRMT6 IGR: 722Kb before PRMT6(+) PRMT6 IGR: 721Kb before PRMT6(+) - 9.000000e-02 7.000000e-02 0 0 2 2 1 0 5.842664e-01 1.138687e-01 1 17 1 17 1 106877274 106878565 1 106877276 2 106878539 -26 1 9.139744e-01 0 0 77 0 7 1 -1 -106877275 -1 -106878566 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2766 348 1 0 159687118 1 1 159690414 deletion 3297 17 0 0 0 26_samples:0 159686855 159687115 261 61 159690412 159690723 312 62 CRP Promoter of CRP(-): 3Kb from tx start CRP IGR: 6Kb after CRP(-) - 3.000000e-02 0 0 0 2 2 2 1 5.842664e-01 6.626660e-01 1 17 1 17 1 159687115 159690412 1 159687118 3 159690414 2 20 9.782622e-01 0 0 63 0 33 1 159687248 133 159690202 -210 1 8.924563e-01 0 9 72 0 14 1 2.357143e+00 LUSC-66-2766 349 1 1 219120405 1 0 219130480 tandem_dup 10050 17 0 0 0 26_samples:0 219120408 219120676 269 42 219130218 219130458 241 39 LYPLAL1 IGR: 227Kb before LYPLAL1(+) LYPLAL1 IGR: 217Kb before LYPLAL1(+) - 0 0 0 0 1 0 0 1 -9.053261e-01 -1.140525e+00 1 17 1 17 1 219120408 219130458 1 219120405 -3 219130480 22 9 8.868274e-01 1 0 69 1 G 9 1 -1 -219120409 -1 -219130459 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 351 2 1 78685174 2 0 78733603 tandem_dup 48415 17 0 0 0 26_samples:0 78685174 78685453 280 58 78733305 78733589 285 54 SNAR-H IGR: 503Kb before SNAR-H(-) REG3G IGR: 519Kb before REG3G(+) - 2.000000e-02 3.000000e-02 0 3.000000e-02 4 1 2 1 3.490676e-01 3.546914e-02 1 17 1 17 1 78685174 78733589 1 78685174 0 78733603 14 4 9.908612e-01 1 3 75 0 15 1 -1 -78685175 -1 -78733590 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 352 2 1 103222751 2 0 103234324 tandem_dup 11587 17 0 0 0 26_samples:0 103222746 103223009 264 55 103234041 103234333 293 52 SLC9A2 IGR: 13Kb before SLC9A2(+) SLC9A2 Promoter of SLC9A2(+): 2Kb from tx start - 0 0 0 0 2 0 2 1 1.138687e-01 -1.213301e-01 1 17 1 17 1 103222746 103234333 1 103222751 5 103234324 -9 8 9.976409e-01 1 3 74 0 22 1 103222545 -201 103234184 -149 1 7.737787e-01 1 0 80 43 GCATGAGCCACCATGCCCAGCTAATTTTTGTATTTTTAGTAGA 32 1 6.875000e-01 LUSC-66-2766 353 2 1 164840459 2 0 189749385 long_range 24908928 17 0 0 0 26_samples:0 164840461 164840752 292 54 189749144 189749389 246 51 FIGN IGR: 376Kb before FIGN(-) COL3A1 IGR: 90Kb before COL3A1(+) - 0 0 0 0 3 0 1 0 3.546914e-02 -1.997297e-01 1 17 1 17 1 164840461 189749389 1 164840459 -2 189749385 -4 20 9.663780e-01 1 1 73 1 G 35 1 -1 -164840462 -1 -189749390 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 354 2 0 165795641 2 1 165797331 deletion 1679 17 0 0 0 26_samples:0 165795392 165795646 255 49 165797325 165797626 302 60 SLC38A11 Intron of SLC38A11(-): 314bp after exon 4 SLC38A11 Intron of SLC38A11(-): 1Kb before exon 4 Deletion of 1 exon: out of frame 0 0 0 0 0 0 2 0 -3.565289e-01 5.058668e-01 1 17 1 17 1 165795646 165797325 1 165795641 -5 165797331 6 16 9.630532e-01 0 0 85 0 27 1 -1 -165795647 -1 -165797326 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 355 2 1 173481114 2 1 173488400 inversion 7269 17 0 0 0 26_samples:0 173481126 173481392 267 56 173488395 173488670 276 66 PDK1 IGR: 60Kb before PDK1(+) PDK1 IGR: 25Kb after PDK1(+) - 0 0 0 0 0 2 1 0 1.922684e-01 9.762644e-01 1 17 1 17 1 173481126 173488395 1 173481114 -12 173488400 5 6 9.533416e-01 1 0 79 0 20 1 -1 -173481127 -1 -173488396 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 356 2 1 192386442 3 0 180173871 inter_chr NaN 17 0 0 0 26_samples:0 192386456 192386722 267 66 180173601 180173879 279 66 OBFC2A IGR: 156Kb before OBFC2A(+) TTC14 IGR: 146Kb before TTC14(+) - 0 0 0 0 1 1 3 0 9.762644e-01 9.762644e-01 1 17 1 17 1 192386456 180173879 1 192386442 -14 180173871 -8 14 9.940160e-01 1 2 80 0 27 1 192386253 -203 180174005 126 1 8.278871e-01 1 2 74 1 T 7 1 3.857143e+00 LUSC-66-2766 358 3 1 189518499 3 0 190022456 tandem_dup 503907 17 0 0 0 26_samples:0 189518529 189518765 237 38 190022221 190022436 216 31 TP63 Intron of TP63(+): 8Kb before exon 4 CLDN1 IGR: 1Kb before CLDN1(-) - 0 0 0 0 1 0 2 0 -1.218925e+00 -1.767722e+00 1 17 1 17 1 189518529 190022436 1 189518499 -30 190022456 20 18 9.776992e-01 1 1 78 0 32 1 -1 -189518530 -1 -190022437 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 360 4 0 21042681 4 1 21044543 deletion 1853 17 0 0 0 26_samples:0 21042412 21042691 280 61 21044544 21044824 281 64 KCNIP4 Intron of KCNIP4(-): 190Kb before exon 2 KCNIP4 Intron of KCNIP4(-): 192Kb before exon 2 Deletion within intron 0 0 0 0 0 0 0 0 5.842664e-01 8.194652e-01 1 17 1 17 1 21042691 21044544 1 21042681 -10 21044543 -1 11 9.970629e-01 0 2 69 0 18 1 21042893 202 21044579 35 1 8.560403e-01 0 1 73 0 13 1 1.384615e+00 LUSC-66-2766 361 4 0 62362640 4 1 62366151 deletion 3566 17 0 0 0 26_samples:0 62362324 62362586 263 51 62366152 62366365 214 47 LPHN3 Promoter of LPHN3(+): 253bp from tx start LPHN3 Intron of LPHN3(+): 3Kb after exon 1 Deletion within transcript 7.000000e-02 8.000000e-02 0 0 2 0 2 1 -1.997297e-01 -5.133281e-01 1 17 1 17 1 62362586 62366152 1 62362640 54 62366151 -1 19 9.887312e-01 0 1 70 0 25 1 -1 -62362587 -1 -62366153 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 362 5 1 138880375 5 0 138922046 tandem_dup 41671 17 0 0 0 26_samples:0 138880375 138880622 248 44 138921821 138922046 226 47 TMEM173 IGR: 25Kb before TMEM173(-) UBE2D2 IGR: 19Kb before UBE2D2(+) - 8.000000e-02 1.800000e-01 5.000000e-02 8.000000e-02 3 1 2 1 -7.485269e-01 -5.133281e-01 1 17 1 17 1 138880375 138922046 1 138880315 -60 138922037 -9 1 9.657041e-01 1 13 98 0 16 1 -1 -138880376 -1 -138922047 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2766 369 10 0 74097777 10 1 74099189 deletion 1409 17 0 0 0 26_samples:0 74097523 74097781 259 53 74099190 74099490 301 54 DNAJB12 Intron of DNAJB12(-): 179bp after exon 6 DNAJB12 Intron of DNAJB12(-): 1Kb before exon 6 Deletion of 1 exon: out of frame 0 0 5.000000e-02 1.200000e-01 2 1 2 0 -4.293047e-02 3.546914e-02 1 17 1 17 1 74097781 74099190 1 74097777 -4 74099189 -1 8 9.851643e-01 0 1 72 1 T 17 1 -1 -74097782 -1 -74099191 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 371 12 0 27532410 12 1 27534570 deletion 2182 17 0 0 0 26_samples:0 27532144 27532414 271 54 27534596 27534859 264 56 ARNTL2 Intron of ARNTL2(+): 766bp before exon 5 ARNTL2 Intron of ARNTL2(+): 1Kb after exon 5 Deletion of 1 exon: out of frame 0 0 0 3.000000e-02 0 0 1 0 3.546914e-02 1.922684e-01 1 17 1 17 1 27532414 27534596 1 27532410 -4 27534570 -26 6 9.654472e-01 0 3 67 0 10 1 -1 -27532415 -1 -27534597 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 372 12 0 47993331 12 1 48023724 deletion 30395 17 0 0 0 26_samples:0 47993077 47993336 260 54 48023731 48024010 280 52 RPAP3 IGR: 62Kb before RPAP3(-) RPAP3 IGR: 32Kb before RPAP3(-) - 1.300000e-01 1.300000e-01 8.000000e-02 8.000000e-02 4 0 4 3 3.546914e-02 -1.213301e-01 1 17 1 17 1 47993336 48023731 1 47993331 -5 48023724 -7 4 9.380120e-01 0 1 68 1 C 12 1 -1 -47993337 -1 -48023732 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 373 12 1 51717423 12 0 51755989 tandem_dup 38556 17 0 0 0 26_samples:0 51717425 51717695 271 57 51755676 51755981 306 65 BIN2 Intron of BIN2(-): 381bp after exon 1 GALNT6 Intron of GALNT6(-): 1Kb before exon 7 Protein fusion: out of frame (BIN2-GALNT6) 0 0 0 0 1 0 3 0 2.706680e-01 8.978648e-01 1 17 1 17 1 51717425 51755981 1 51717423 -2 51755989 8 7 9.876727e-01 1 0 71 0 27 1 51717293 -132 51756188 207 1 7.877765e-01 1 6 66 0 17 1 1.588235e+00 LUSC-66-2766 374 12 1 105681617 12 0 105687116 tandem_dup 5500 17 0 0 0 26_samples:0 105681623 105681889 267 56 105686825 105687123 299 59 C12orf75 IGR: 43Kb before C12orf75(+) C12orf75 IGR: 37Kb before C12orf75(+) - 0 0 0 0 1 2 0 2 1.922684e-01 4.274672e-01 1 17 1 17 1 105681623 105687123 1 105681617 -6 105687116 -7 10 9.617838e-01 1 6 77 0 16 1 105681466 -157 105687325 202 3 7.983074e-01 1 1 75 0 13 1 1.230769e+00 LUSC-66-2766 375 12 1 96125885 12 0 96133663 tandem_dup 7781 17 0 0 0 26_samples:0 96125887 96126170 284 58 96133372 96133668 297 55 NTN4 Intron of NTN4(-): 6Kb after exon 3 NTN4 Intron of NTN4(-): 2Kb before exon 3 Duplication of 1 exon: in frame 0 5.000000e-02 0 0 0 2 0 1 3.490676e-01 1.138687e-01 1 17 1 17 1 96125887 96133668 1 96125885 -2 96133663 -5 9 9.903940e-01 1 0 70 0 15 1 96125891 4 96133654 -14 1 7.844813e-01 1 0 64 0 12 1 1.250000e+00 LUSC-66-2766 376 14 0 41254175 14 1 41258263 deletion 4085 17 0 0 0 26_samples:0 41253893 41254174 282 61 41258259 41258521 263 50 LRFN5 IGR: 823Kb before LRFN5(+) LRFN5 IGR: 819Kb before LRFN5(+) - 0 0 0 0 0 1 0 0 5.842664e-01 -2.781293e-01 1 17 1 17 1 41254174 41258259 1 41254175 1 41258263 4 18 9.881293e-01 0 2 71 0 21 1 -1 -41254175 -1 -41258260 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 377 17 0 64139502 17 0 64401540 inversion 262063 17 0 0 0 26_samples:0 64139206 64139484 279 59 64401301 64401547 247 49 CCDC46 Intron of CCDC46(-): 11Kb before exon 5 PRKCA Intron of PRKCA(+): 91Kb before exon 3 Protein fusion: out of frame (PRKCA-CCDC46) 0 0 0 0 2 0 3 0 4.274672e-01 -3.565289e-01 1 17 1 17 1 64139484 64401547 1 64139502 18 64401540 -7 10 9.896531e-01 0 1 75 0 24 1 -1 -64139485 -1 -64401548 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 379 17 0 30873037 17 1 30875931 deletion 2930 17 0 0 0 26_samples:0 30872749 30873034 286 59 30875964 30876209 246 42 MYO1D Intron of MYO1D(-): 51Kb before exon 22 MYO1D Intron of MYO1D(-): 54Kb before exon 22 Deletion within intron 0 0 3.000000e-02 0 0 1 1 0 4.274672e-01 -9.053261e-01 1 17 1 17 1 30873034 30875964 1 30873037 3 30875931 -33 6 9.972909e-01 0 3 76 0 12 1 30873033 -1 30875759 -205 1 9.002694e-01 0 4 83 0 16 1 7.500000e-01 LUSC-66-2766 380 18 1 3602720 18 0 3646228 tandem_dup 43517 17 0 0 0 26_samples:0 3602719 3602971 253 52 3645948 3646236 289 54 DLGAP1 Intron of DLGAP1(-): 20Kb before exon 5 DLGAP1 Intron of DLGAP1(-): 64Kb before exon 5 Duplication within intron 0 0 6.000000e-02 3.000000e-02 2 1 1 1 -1.213301e-01 3.546914e-02 1 17 1 17 1 3602719 3646236 1 3602720 1 3646228 -8 10 9.913122e-01 1 0 71 0 12 1 3602518 -201 3646185 -51 2 7.807423e-01 1 0 91 1 G 16 1 7.500000e-01 LUSC-66-2766 383 19 1 30991460 19 0 30997894 tandem_dup 6368 17 0 0 0 26_samples:0 30991530 30991814 285 44 30997633 30997898 266 48 ZNF536 Intron of ZNF536(+): 34Kb before exon 3 ZNF536 Intron of ZNF536(+): 28Kb before exon 3 Duplication within intron 0 2.000000e-02 0 0 1 0 0 0 -7.485269e-01 -4.349285e-01 1 17 1 17 1 30991530 30997898 1 30991460 -70 30997894 -4 5 9.929682e-01 1 2 74 0 42 1 -1 -30991531 -1 -30997899 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 385 20 0 40062916 20 0 40395459 inversion 332534 17 0 0 0 26_samples:0 40062650 40062920 271 63 40395177 40395454 278 50 CHD6 Intron of CHD6(-): 3Kb after exon 27 PTPRT IGR: 306Kb before PTPRT(-) - 0 0 5.000000e-02 9.000000e-02 3 0 4 0 7.410656e-01 -2.781293e-01 1 17 1 17 1 40062920 40395454 1 40062916 -4 40395459 5 20 9.581749e-01 0 3 63 0 38 1 -1 -40062921 -1 -40395455 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 389 22 1 18500984 22 0 18517614 tandem_dup 16632 17 0 0 0 26_samples:0 18500983 18501315 333 59 18517322 18517615 294 51 MICAL3 5'-UTR of MICAL3(-): 111Kb before coding start FLJ41941 5'-UTR of FLJ41941(+): 3Kb before coding start Antisense fusion 2.000000e-02 4.000000e-02 0 0 2 1 1 1 4.274672e-01 -1.997297e-01 1 17 1 17 1 18500983 18517615 1 18500984 1 18517614 -1 8 9.924178e-01 1 2 64 0 17 1 -1 -18500984 -1 -18517616 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 391 23 0 19220988 23 1 19225041 deletion 4063 17 0 0 0 26_samples:0 19220712 19220997 286 63 19225060 19225321 262 65 PDHA1 IGR: 141Kb before PDHA1(+) PDHA1 IGR: 137Kb before PDHA1(+) - 0 0 0 5.000000e-02 0 1 0 1 7.410656e-01 8.978648e-01 1 17 1 17 1 19220997 19225060 1 19220988 -9 19225041 -19 9 9.960221e-01 0 3 75 0 16 1 -1 -19220998 -1 -19225061 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 350 1 0 88637614 1 1 88639940 deletion 2319 17 0 0 0 26_samples:0 88637331 88637619 289 54 88639938 88640254 317 67 PKN2 IGR: 512Kb before PKN2(+) PKN2 IGR: 510Kb before PKN2(+) - 0 0 0 0 1 2 0 1 3.546914e-02 1.054664e+00 9.998367e-01 1.699722e+01 1 1.699722e+01 1 88637619 88639938 1 88637614 -5 88639940 2 8 9.938481e-01 0 0 88 0 11 1 -1 -88637620 -1 -88639939 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 367 8 1 127541083 8 0 127555682 tandem_dup 14607 17 0 0 0 26_samples:0 127541081 127541355 275 69 127555372 127555688 317 60 FAM84B IGR: 24Kb before FAM84B(-) FAM84B IGR: 9Kb before FAM84B(-) - 0 0 1.000000e-02 3.000000e-02 2 1 2 2 1.211463e+00 5.058668e-01 9.906326e-01 1.684075e+01 1 1.684075e+01 1 127541081 127555688 1 127541083 2 127555682 -6 13 9.718103e-01 1 2 71 0 23 1 -1 -127541082 -1 -127555689 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 382 19 0 30429039 19 1 30431601 deletion 2587 17 0 0 0 26_samples:0 30428750 30429016 267 60 30431603 30431877 275 68 C19orf2 IGR: 4Kb before C19orf2(+) C19orf2 Promoter of C19orf2(+): 2Kb from tx start - 5.000000e-02 1.400000e-01 0 0 0 1 5 1 5.058668e-01 1.133064e+00 9.823011e-01 1.669912e+01 1 1.669912e+01 1 30429016 30431603 1 30429039 23 30431601 -2 9 9.816552e-01 0 2 62 0 27 1 -1 -30429017 -1 -30431604 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 231 4 0 57668540 4 1 57672533 deletion 3968 21 0 0 0 26_samples:0 57668206 57668545 340 73 57672513 57672839 327 66 SPINK2 IGR: 7Kb before SPINK2(-) SPINK2 IGR: 4Kb before SPINK2(-) - 6.000000e-02 6.000000e-02 0 5.000000e-02 1 0 2 0 1.638294e+00 1.041785e+00 7.935591e-01 1.666474e+01 1 1.666474e+01 1 57668545 57672513 1 57668540 -5 57672533 20 2 9.889601e-01 0 8 126 0 26 1 57668458 -87 57672312 -201 6 8.434120e-01 0 0 96 8 GAAAATTT 15 1 1.733333e+00 LUSC-66-2766 366 8 0 39196044 8 1 39198396 deletion 2367 17 0 0 0 26_samples:0 39195793 39196039 247 50 39198406 39198683 278 61 ADAM5P 5'-UTR of ADAM5P(+): 64Kb before coding start ADAM5P 5'-UTR of ADAM5P(+): 62Kb before coding start Deletion within transcript 1.000000e-01 2.900000e-01 1.000000e-01 5.000000e-02 3 0 3 1 -2.781293e-01 5.842664e-01 9.750390e-01 1.657566e+01 1 1.657566e+01 1 39196039 39198406 1 39196044 5 39198396 -10 10 9.315604e-01 0 0 73 0 16 1 39196244 205 39198325 -81 5 8.061246e-01 0 5 74 0 14 1 1.142857e+00 LUSC-66-2766 307 1 1 195786077 1 0 195792368 tandem_dup 6304 18 0 0 0 26_samples:0 195786070 195786324 255 52 195792026 195792374 349 72 KCNT2 IGR: 409Kb before KCNT2(-) KCNT2 IGR: 403Kb before KCNT2(-) - 0 2.000000e-02 4.000000e-02 2.000000e-02 0 2 1 0 -1.213301e-01 1.446662e+00 9.181790e-01 1.652722e+01 1 1.652722e+01 1 195786070 195792374 1 195786077 7 195792368 -6 17 9.910271e-01 1 0 68 0 24 1 -1 -195786071 -1 -195792375 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 167 7 1 89684304 7 0 89690202 tandem_dup 5892 25 0 0 0 26_samples:0 89684315 89684603 289 64 89689864 89690207 344 75 DPY19L2P4 IGR: 64Kb before DPY19L2P4(+) DPY19L2P4 IGR: 59Kb before DPY19L2P4(+) - 0 0 0 0 2 0 0 1 8.713535e-01 1.808726e+00 6.540494e-01 1.635124e+01 1 1.635124e+01 1 89684315 89690207 1 89684304 -11 89690202 -5 12 9.394618e-01 1 2 78 0 32 1 -1 -89684316 -1 -89690208 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 48 19 1 32725811 19 0 32732400 tandem_dup 6604 37 0 0 0 26_samples:0 32725805 32726130 326 76 32732103 32732409 307 62 ZNF507 IGR: 111Kb before ZNF507(+) ZNF507 IGR: 104Kb before ZNF507(+) - 0 0 0 0 1 0 2 1 2.084071e+00 7.569994e-01 4.397516e-01 1.627081e+01 1 1.627081e+01 1 32725805 32732409 1 32725811 6 32732400 -9 20 9.885552e-01 1 0 69 0 51 1 -1 -32725806 -1 -32732410 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 368 9 1 121150622 9 0 121345859 tandem_dup 195238 17 0 0 0 26_samples:0 121150621 121150894 274 55 121345528 121345859 332 71 TLR4 IGR: 684Kb before TLR4(+) DBC1 IGR: 583Kb before DBC1(-) - 0 0 0 0 1 0 2 1 1.138687e-01 1.368262e+00 9.524329e-01 1.619136e+01 1 1.619136e+01 1 121150621 121345859 1 121150622 1 121345859 0 10 9.968614e-01 1 1 61 0 16 1 -1 -121150622 -1 -121345860 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 130 6 1 15088893 6 0 15092438 tandem_dup 3545 27 0 0 0 26_samples:0 15088893 15089215 323 71 15092095 15092438 344 75 JARID2 IGR: 158Kb before JARID2(+) JARID2 IGR: 154Kb before JARID2(+) - 0 4.000000e-02 2.000000e-02 1.300000e-01 2 0 1 2 1.467863e+00 1.808726e+00 5.932888e-01 1.601880e+01 1 1.601880e+01 1 15088893 15092438 1 15088876 -17 15092409 -29 1 1 1 15 122 0 38 1 -1 -15088894 -1 -15092439 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2766 394 1 0 74685076 1 1 74686791 deletion 1719 16 0 0 0 26_samples:0 74684847 74685083 237 40 74686802 74687121 320 55 TNNI3K Intron of TNNI3K(+): 17Kb before exon 4 TNNI3K Intron of TNNI3K(+): 15Kb before exon 4 Deletion within intron 0 0 0 0 1 1 1 0 -1.062125e+00 1.138687e-01 1 16 1 16 1 74685083 74686802 1 74685076 -7 74686791 -11 10 9.973874e-01 0 2 69 0 13 1 -1 -74685084 -1 -74686803 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 395 1 0 76318683 1 1 76320461 deletion 1817 16 0 0 0 26_samples:0 76318373 76318642 270 63 76320459 76320701 243 45 MSH4 Intron of MSH4(+): 5Kb after exon 8 MSH4 Intron of MSH4(+): 6Kb after exon 8 Deletion within intron 3.000000e-02 0 0 0 0 1 2 1 7.410656e-01 -6.701273e-01 1 16 1 16 1 76318642 76320459 1 76318683 41 76320461 2 12 9.928345e-01 0 1 73 0 17 1 -1 -76318643 -1 -76320460 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 396 1 1 108349681 1 0 108359846 tandem_dup 10166 16 0 0 0 26_samples:0 108349685 108349995 311 63 108359600 108359851 252 36 VAV3 Intron of VAV3(-): 28Kb before exon 3 VAV3 Intron of VAV3(-): 38Kb before exon 3 Duplication within intron 0 0 0 0 0 0 1 0 7.410656e-01 -1.375724e+00 1 16 1 16 1 108349685 108359851 1 108349681 -4 108359846 -5 3 9.930410e-01 1 3 76 0 8 1 108349484 -201 108359819 -32 1 7.632660e-01 1 0 69 12 TCCCTGATATAA 8 1 1 LUSC-66-2766 398 1 0 209550843 1 0 209554434 inversion 3587 16 0 0 0 26_samples:0 209550548 209550843 296 55 209554167 209554430 264 53 LOC642587 IGR: 51Kb before LOC642587(+) LOC642587 IGR: 48Kb before LOC642587(+) - 0 0 0 0 1 0 0 1 1.138687e-01 -4.293047e-02 1 16 1 16 1 209550843 209554430 1 209550843 0 209554434 4 9 9.770628e-01 0 2 75 0 22 1 -1 -209550844 -1 -209554431 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 400 1 0 176110202 1 1 176162883 deletion 52678 16 0 0 0 26_samples:0 176109943 176110208 266 49 176162886 176163154 269 48 RFWD2 Intron of RFWD2(-): 5Kb before exon 7 RFWD2 Intron of RFWD2(-): 9Kb before exon 2 Deletion of 5 exons: out of frame 0 0 0 0 1 0 2 0 -3.565289e-01 -4.349285e-01 1 16 1 16 1 176110208 176162886 1 176110202 -6 176162883 -3 12 9.826954e-01 0 2 69 0 17 1 -1 -176110209 -1 -176162887 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 401 2 0 1944883 2 1 1946193 deletion 1302 16 0 0 0 26_samples:0 1944581 1944890 310 66 1946192 1946511 320 65 MYT1L Intron of MYT1L(-): 2Kb after exon 9 MYT1L Intron of MYT1L(-): 562bp after exon 9 Deletion within intron 0 0 0 0 0 0 2 0 9.762644e-01 8.978648e-01 1 16 1 16 1 1944890 1946192 1 1944883 -7 1946193 1 10 9.967883e-01 0 4 76 0 18 1 -1 -1944891 -1 -1946193 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 403 2 0 25716413 2 1 25718865 deletion 2456 16 0 0 0 26_samples:0 25716122 25716407 286 62 25718863 25719166 304 66 DTNB Intron of DTNB(-): 11Kb before exon 10 DTNB Intron of DTNB(-): 13Kb before exon 10 Deletion within intron 0 0 0 0 1 0 0 0 6.626660e-01 9.762644e-01 1 16 1 16 1 25716407 25718863 1 25716413 6 25718865 2 14 9.975198e-01 0 1 74 0 20 1 -1 -25716408 -1 -25718864 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 407 2 0 178094833 2 1 178110137 deletion 15364 16 0 0 0 26_samples:0 178094577 178094777 201 39 178110141 178110373 233 52 NFE2L2 IGR: 257bp before NFE2L2(-) NFE2L2 Intron of NFE2L2(-): 11Kb before exon 2 - 0 0 3.000000e-02 0 2 0 2 1 -1.140525e+00 -1.213301e-01 1 16 1 16 1 178094777 178110141 1 178094833 56 178110137 -4 10 9.686182e-01 0 2 74 0 18 1 -1 -178094778 -1 -178110142 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 408 2 0 237630497 2 1 237636270 deletion 5802 16 0 0 0 26_samples:0 237630218 237630487 270 59 237636289 237636552 264 50 CXCR7 IGR: 152Kb before CXCR7(+) CXCR7 IGR: 158Kb before CXCR7(+) - 0 0 1.100000e-01 3.000000e-02 1 1 1 0 4.274672e-01 -2.781293e-01 1 16 1 16 1 237630487 237636289 1 237630497 10 237636270 -19 7 9.944286e-01 0 0 64 0 11 1 -1 -237630488 -1 -237636290 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 409 3 0 86029173 3 1 86030642 deletion 1480 16 0 0 0 26_samples:0 86028908 86029170 263 61 86030650 86030909 260 56 CADM2 Intron of CADM2(+): 737bp after exon 8 CADM2 Intron of CADM2(+): 2Kb after exon 8 Deletion within intron 0 0 0 0 0 2 1 0 5.842664e-01 1.922684e-01 1 16 1 16 1 86029170 86030650 1 86029173 3 86030642 -8 20 9.957877e-01 0 2 65 0 27 1 -1 -86029171 -1 -86030651 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 411 3 1 179606802 3 0 179610791 tandem_dup 3972 16 0 0 0 26_samples:0 179606809 179607075 267 47 179610507 179610781 275 50 PEX5L Intron of PEX5L(-): 1Kb before exon 4 PEX5L Intron of PEX5L(-): 5Kb after exon 3 Duplication within intron 1.000000e-02 2.000000e-02 0 0 2 2 1 1 -5.133281e-01 -2.781293e-01 1 16 1 16 1 179606809 179610781 1 179606802 -7 179610791 10 10 9.327895e-01 1 2 68 0 31 1 -1 -179606810 -1 -179610782 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 412 3 1 196845091 3 0 196849936 tandem_dup 4849 16 0 0 0 26_samples:0 196845087 196845320 234 46 196849621 196849936 316 61 DLG1 Intron of DLG1(-): 1Kb after exon 13 DLG1 Intron of DLG1(-): 4Kb before exon 13 Duplication of 1 exon: out of frame 0 0 0 0 1 1 1 1 -5.917277e-01 5.842664e-01 1 16 1 16 1 196845087 196849936 1 196845091 4 196849936 0 9 9.933321e-01 1 1 81 0 35 1 196845095 8 196850142 206 3 8.086173e-01 1 7 76 0 11 1 3.181818e+00 LUSC-66-2766 415 4 1 20789262 4 0 20792796 tandem_dup 3499 16 0 0 0 26_samples:0 20789284 20789522 239 39 20792505 20792783 279 51 KCNIP4 Intron of KCNIP4(-): 29Kb before exon 3 KCNIP4 Intron of KCNIP4(-): 32Kb before exon 3 Duplication within intron 0 0 0 0 0 1 0 0 -1.140525e+00 -1.997297e-01 1 16 1 16 1 20789284 20792783 1 20789262 -22 20792796 13 10 9.352859e-01 1 0 78 0 18 1 -1 -20789285 -1 -20792784 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 416 4 0 94987633 4 1 94990794 deletion 3152 16 0 0 0 26_samples:0 94987359 94987638 280 50 94990790 94991086 297 54 SMARCAD1 IGR: 141Kb before SMARCAD1(+) SMARCAD1 IGR: 138Kb before SMARCAD1(+) - 0 0 0 0 0 1 0 0 -2.781293e-01 3.546914e-02 1 16 1 16 1 94987638 94990790 1 94987633 -5 94990794 4 12 9.992581e-01 0 1 70 0 18 1 94987519 -119 94990580 -210 3 8.402089e-01 0 9 83 0 6 1 3 LUSC-66-2766 418 5 0 65239677 5 1 65298416 deletion 58734 16 0 0 0 26_samples:0 65239407 65239687 281 50 65298421 65298698 278 52 ERBB2IP 5'-UTR of ERBB2IP(+): 49Kb before coding start ERBB2IP Intron of ERBB2IP(+): 8Kb after exon 4 Deletion within transcript 0 0 0 0 2 0 1 2 -2.781293e-01 -1.213301e-01 1 16 1 16 1 65239687 65298421 1 65239677 -10 65298416 -5 8 9.673035e-01 0 5 65 0 11 1 -1 -65239688 -1 -65298422 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 421 6 0 48596037 6 1 48598749 deletion 2704 16 0 0 0 26_samples:0 48595756 48596047 292 58 48598751 48599051 301 66 C6orf138 IGR: 750Kb before C6orf138(-) C6orf138 IGR: 753Kb before C6orf138(-) - 0 0 0 0 1 0 0 2 3.490676e-01 9.762644e-01 1 16 1 16 1 48596047 48598751 1 48596037 -10 48598749 -2 14 9.965211e-01 0 3 75 0 22 1 -1 -48596048 -1 -48598752 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 424 9 0 12917142 9 1 12919358 deletion 2226 16 0 0 0 26_samples:0 12916863 12917147 285 52 12919373 12919654 282 65 C9orf150 IGR: 142Kb before C9orf150(+) C9orf150 IGR: 144Kb before C9orf150(+) - 0 0 0 0 0 1 0 0 -1.213301e-01 8.978648e-01 1 16 1 16 1 12917147 12919373 1 12917142 -5 12919358 -15 10 9.960191e-01 0 1 71 0 11 1 -1 -12917148 -1 -12919374 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 426 10 0 75050668 10 1 75052887 deletion 2215 16 0 0 0 26_samples:0 75050411 75050674 264 59 75052889 75053172 284 63 TTC18 Intron of TTC18(-): 310bp after exon 20 TTC18 Intron of TTC18(-): 132bp after exon 17 Deletion of 3 exons: out of frame 0 0 0 0 0 2 2 1 4.274672e-01 7.410656e-01 1 16 1 16 1 75050674 75052889 1 75050668 -6 75052887 -2 13 9.633868e-01 0 0 68 6 ACTTTT 20 1 75050876 202 75053032 143 4 8.296890e-01 0 2 80 0 13 1 1.538462e+00 LUSC-66-2766 427 11 0 78220371 11 1 78221637 deletion 1300 16 0 0 0 26_samples:0 78220120 78220376 257 55 78221676 78221918 243 50 NARS2 Intron of NARS2(-): 16Kb before exon 7 NARS2 Intron of NARS2(-): 17Kb before exon 7 Deletion within intron 0 0 0 0 2 0 3 1 1.138687e-01 -2.781293e-01 1 16 1 16 1 78220376 78221676 1 78220371 -5 78221637 -39 11 9.833590e-01 0 3 68 0 16 1 78220418 42 78221475 -201 1 8.403737e-01 0 0 78 29 ATAGGTTCAATACAATCAGACACAACAGT 16 1 1 LUSC-66-2766 428 11 0 126958137 11 1 126959387 deletion 1251 16 0 0 0 26_samples:0 126957834 126958142 309 62 126959393 126959717 325 62 KIRREL3 IGR: 87Kb after KIRREL3(-) KIRREL3 IGR: 89Kb after KIRREL3(-) - 0 0 3.000000e-02 3.000000e-02 0 0 1 1 6.626660e-01 6.626660e-01 1 16 1 16 1 126958142 126959393 1 126958137 -5 126959387 -6 13 9.893776e-01 0 0 81 0 17 1 -1 -126958143 -1 -126959394 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 429 11 0 45821892 18 1 8896017 inter_chr NaN 16 0 0 0 26_samples:0 45821617 45821894 278 59 8896025 8896286 262 49 SLC35C1 IGR: 4Kb before SLC35C1(+) KIAA0802 IGR: 179Kb before KIAA0802(+) - 0 0 0 0 2 2 3 1 4.274672e-01 -3.565289e-01 1 16 1 16 1 45821894 8896025 1 45821892 -2 8896017 -8 8 9.921481e-01 0 2 71 0 16 1 -1 -45821895 -1 -8896026 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 433 13 0 37187021 13 1 37189629 deletion 2599 16 0 0 0 26_samples:0 37186737 37187028 292 57 37189627 37189916 290 59 C13orf36 IGR: 61Kb before C13orf36(+) C13orf36 IGR: 58Kb before C13orf36(+) - 0 0 2.000000e-02 4.000000e-02 1 1 0 1 2.706680e-01 4.274672e-01 1 16 1 16 1 37187028 37189627 1 37187021 -7 37189629 2 16 9.869361e-01 0 1 64 0 24 1 -1 -37187029 -1 -37189628 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 435 13 1 80100466 13 0 80110998 tandem_dup 10533 16 0 0 0 26_samples:0 80100470 80100755 286 58 80110702 80111003 302 60 NDFIP2 Intron of NDFIP2(+): 5Kb after exon 2 NDFIP2 Intron of NDFIP2(+): 3Kb before exon 4 Duplication of 1 exon: out of frame 0 0 0 3.000000e-02 1 1 2 2 3.490676e-01 5.058668e-01 1 16 1 16 1 80100470 80111003 1 80100466 -4 80110998 -5 11 9.892597e-01 1 3 78 0 26 1 -1 -80100471 -1 -80111004 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 436 14 1 65931100 14 0 65976666 tandem_dup 45564 16 0 0 0 26_samples:0 65931101 65931387 287 56 65976359 65976665 307 60 FUT8 5'-UTR of FUT8(+): 97Kb before coding start FUT8 5'-UTR of FUT8(+): 52Kb before coding start Duplication within transcript 0 0 0 2.000000e-02 2 1 2 2 1.922684e-01 5.058668e-01 1 16 1 16 1 65931101 65976665 1 65931100 -1 65976666 1 9 9.755021e-01 1 1 93 0 17 1 65930972 -129 65976869 204 1 8.181281e-01 1 3 79 0 14 1 1.214286e+00 LUSC-66-2766 442 19 0 15492040 19 1 15527704 deletion 35720 16 0 0 0 26_samples:0 15491780 15491995 216 33 15527715 15527932 218 40 AKAP8L Intron of AKAP8L(-): 572bp before exon 13 AKAP8L Intron of AKAP8L(-): 2Kb after exon 1 Deletion of 11 exons: out of frame 0 0 0 0 3 1 3 0 -1.610923e+00 -1.062125e+00 1 16 1 16 1 15491995 15527715 1 15492040 45 15527704 -11 9 9.627881e-01 0 2 72 0 14 1 -1 -15491996 -1 -15527716 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 393 1 1 10985223 1 0 11005662 tandem_dup 20442 16 0 0 0 26_samples:0 10985213 10985520 308 67 11005375 11005655 281 52 C1orf127 IGR: 21Kb before C1orf127(-) C1orf127 IGR: 875bp before C1orf127(-) - 4.000000e-02 7.000000e-02 0 0 1 0 4 1 1.054664e+00 -1.213301e-01 9.998367e-01 1.599739e+01 1 1.599739e+01 1 10985213 11005655 1 10985223 10 11005662 7 14 9.878540e-01 1 3 70 0 21 1 -1 -10985214 -1 -11005656 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 404 2 0 42971815 2 1 42975475 deletion 3668 16 0 0 0 26_samples:0 42971533 42971820 288 67 42975488 42975766 279 62 OXER1 IGR: 18Kb before OXER1(-) OXER1 IGR: 14Kb before OXER1(-) - 0 0 0 4.000000e-02 1 0 2 0 1.054664e+00 6.626660e-01 9.998367e-01 1.599739e+01 1 1.599739e+01 1 42971820 42975488 1 42971815 -5 42975475 -13 10 9.308470e-01 0 0 74 1 C 21 1 -1 -42971821 -1 -42975489 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 430 12 1 26792054 12 0 26794548 tandem_dup 2487 16 0 0 0 26_samples:0 26792052 26792317 266 43 26794227 26794539 313 67 ITPR2 Intron of ITPR2(-): 7Kb before exon 22 ITPR2 Intron of ITPR2(-): 10Kb before exon 22 Duplication within intron 0 0 0 0 0 1 1 1 -8.269265e-01 1.054664e+00 9.998367e-01 1.599739e+01 1 1.599739e+01 1 26792052 26794539 1 26792054 2 26794548 9 4 9.767757e-01 1 2 83 0 14 1 26791854 -198 26794411 -128 1 8.453535e-01 1 0 74 0 6 1 2.333333e+00 LUSC-66-2766 431 12 0 118927172 12 1 118930767 deletion 3599 16 0 0 0 26_samples:0 118926891 118927172 282 62 118930771 118931102 332 67 SUDS3 IGR: 113Kb before SUDS3(+) SUDS3 IGR: 116Kb before SUDS3(+) - 0 0 0 0 1 1 0 1 6.626660e-01 1.054664e+00 9.998367e-01 1.599739e+01 1 1.599739e+01 1 118927172 118930771 1 118927172 0 118930767 -4 10 9.356178e-01 0 0 71 1 T 13 1 -1 -118927173 -1 -118930772 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 441 18 0 37975484 22 1 19344462 inter_chr NaN 16 0 0 0 26_samples:0 37975183 37975481 299 55 19344464 19344759 296 67 KC6 IGR: 1Mb before KC6(-) HIRA Exon 19 of HIRA(-) - 0 0 0 0 3 0 3 1 1.138687e-01 1.054664e+00 9.998367e-01 1.599739e+01 1 1.599739e+01 1 37975481 19344464 1 37975484 3 19344462 -2 10 9.447178e-01 0 0 73 0 29 1 -1 -37975482 -1 -19344465 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 438 15 0 60565739 15 1 60570348 deletion 4601 16 0 0 0 26_samples:0 60565451 60565746 296 69 60570347 60570618 272 58 ANXA2 IGR: 74Kb before ANXA2(-) ANXA2 IGR: 69Kb before ANXA2(-) - 0 0 0 0 1 1 1 0 1.211463e+00 3.490676e-01 9.906326e-01 1.585012e+01 1 1.585012e+01 1 60565746 60570347 1 60565739 -7 60570348 1 15 9.958125e-01 0 5 67 0 22 1 -1 -60565747 -1 -60570348 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 132 10 1 131915497 10 0 131930148 tandem_dup 14651 27 0 0 0 26_samples:0 131915495 131915776 282 67 131929795 131930146 352 76 GLRX3 IGR: 19Kb before GLRX3(+) GLRX3 IGR: 5Kb before GLRX3(+) - 4.000000e-02 1.000000e-01 3.000000e-02 5.000000e-02 3 0 1 0 1.127000e+00 1.893941e+00 5.821102e-01 1.571698e+01 1 1.571698e+01 1 131915495 131930146 1 131915497 2 131930148 2 19 9.699382e-01 1 4 81 0 28 1 -1 -131915496 -1 -131930147 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 137 19 1 19040926 19 1 19049721 inversion 8797 27 0 0 0 26_samples:0 19040928 19041199 272 74 19049725 19050038 314 73 HOMER3 Intron of HOMER3(-): 485bp before exon 10 HOMER3 Intron of HOMER3(-): 32bp before exon 3 Antisense fusion 1.000000e-01 1.400000e-01 0 0 1 4 5 0 1.723510e+00 1.638294e+00 5.717379e-01 1.543692e+01 1 1.543692e+01 1 19040928 19049725 1 19040926 -2 19049721 -4 20 9.146459e-01 1 0 78 0 42 1 -1 -19040929 -1 -19049726 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 200 10 1 99157013 10 0 99199851 tandem_dup 42838 23 0 0 0 26_samples:0 99157013 99157319 307 63 99199479 99199851 373 74 RRP12 Intron of RRP12(-): 955bp before exon 3 EXOSC1 Intron of EXOSC1(-): 1Kb after exon 4 Protein fusion: out of frame (RRP12-EXOSC1) 5.000000e-02 3.000000e-02 4.000000e-02 7.000000e-02 6 1 3 1 7.861379e-01 1.723510e+00 6.691175e-01 1.538970e+01 1 1.538970e+01 1 99157013 99199851 1 99156804 -209 99200019 168 19 8.935018e-01 1 8 110 0 21 1 99156804 -209 99200019 168 20 8.874971e-01 1 8 110 0 14 0 1.500000e+00 LUSC-66-2766 228 2 1 26202572 2 0 26237044 tandem_dup 34477 21 0 0 0 26_samples:0 26202575 26202880 306 74 26236718 26237052 335 63 KIF3C Intron of KIF3C(-): 667bp after exon 1 RAB10 IGR: 20Kb before RAB10(+) - 0 0 5.000000e-02 2.000000e-01 2 1 2 0 1.723510e+00 7.861379e-01 7.253034e-01 1.523137e+01 1 1.523137e+01 1 26202575 26237052 1 26202572 -3 26237044 -8 10 9.852169e-01 1 2 81 0 21 1 -1 -26202576 -1 -26237053 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 357 3 1 181418144 3 0 181429047 tandem_dup 10873 17 0 0 0 26_samples:0 181418160 181418448 289 57 181428788 181429033 246 54 SOX2OT 5'-UTR of SOX2OT(+): 41Kb before coding start SOX2OT 5'-UTR of SOX2OT(+): 30Kb before coding start Duplication within transcript 0 0 0 0 6 0 4 1 2.706680e-01 3.546914e-02 8.888889e-01 1.511111e+01 1 1.511111e+01 1 181418160 181429033 1 181418144 -16 181429047 14 12 9.774929e-01 1 1 75 0 45 1 -1 -181418161 -1 -181429034 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 445 1 0 63017169 1 1 63022271 deletion 5152 15 0 0 0 26_samples:0 63016901 63017177 277 53 63022329 63022561 233 43 DOCK7 Intron of DOCK7(-): 1Kb after exon 22 DOCK7 Intron of DOCK7(-): 669bp before exon 21 Deletion of 2 exons: out of frame 0 5.000000e-02 0 0 1 0 1 1 -4.293047e-02 -8.269265e-01 1 15 1 15 1 63017177 63022329 1 63017169 -8 63022271 -58 13 9.636437e-01 0 3 75 0 12 1 -1 -63017178 -1 -63022330 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 448 1 0 241882454 1 1 241885238 deletion 2812 15 0 0 0 26_samples:0 241882188 241882444 257 56 241885256 241885527 272 53 WDR64 Intron of WDR64(+): 4Kb before exon 9 WDR64 Intron of WDR64(+): 1Kb before exon 9 Deletion within intron 0 0 2.000000e-02 0 0 2 0 2 1.922684e-01 -4.293047e-02 1 15 1 15 1 241882444 241885256 1 241882454 10 241885238 -18 7 9.799518e-01 0 0 61 1 A 21 1 -1 -241882445 -1 -241885257 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 449 2 0 16550709 2 1 16552762 deletion 2069 15 0 0 0 26_samples:0 16550488 16550705 218 42 16552774 16553055 282 61 FAM49A IGR: 180Kb before FAM49A(-) FAM49A IGR: 178Kb before FAM49A(-) - 0 0 0 0 0 0 0 0 -9.053261e-01 5.842664e-01 1 15 1 15 1 16550705 16552774 1 16550709 4 16552762 -12 13 9.804239e-01 0 0 73 0 20 1 -1 -16550706 -1 -16552775 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 450 2 1 206543076 2 0 206559773 tandem_dup 16689 15 0 0 0 26_samples:0 206543087 206543340 254 47 206559494 206559776 283 54 NRP2 IGR: 4Kb before NRP2(+) NRP2 Intron of NRP2(+): 2Kb before exon 2 - 0 0 0 0 2 0 1 1 -5.133281e-01 3.546914e-02 1 15 1 15 1 206543087 206559776 1 206543076 -11 206559773 -3 2 9.673525e-01 1 0 77 1 A 12 1 -1 -206543088 -1 -206559777 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 451 2 0 88327276 9 0 19388352 inter_chr NaN 15 0 0 0 26_samples:0 88327008 88327281 274 57 19388098 19388335 238 45 KRCC1 3'-UTR of KRCC1(-): 22bp after coding stop RPS6 IGR: 12Kb before RPS6(-) - 0 0 0 0 2 2 1 1 2.706680e-01 -6.701273e-01 1 15 1 15 1 88327281 19388335 1 88327276 -5 19388352 17 15 9.241648e-01 0 1 62 1 T 21 1 -1 -88327282 -1 -19388336 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 454 2 0 5573899 19 1 8171127 inter_chr NaN 15 0 0 0 26_samples:0 5573608 5573892 285 62 8171135 8171390 256 59 SOX11 IGR: 259Kb before SOX11(+) FBN3 Intron of FBN3(-): 18bp before exon 37 - 0 0 0 0 2 0 3 0 6.626660e-01 4.274672e-01 1 15 1 15 1 5573892 8171135 1 5573899 7 8171127 -8 14 9.901784e-01 0 4 70 0 23 1 -1 -5573893 -1 -8171136 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 456 3 1 143026407 3 0 143032177 tandem_dup 5736 15 0 0 0 26_samples:0 143026411 143026670 260 63 143031914 143032147 234 47 SLC9A9 Intron of SLC9A9(-): 39Kb before exon 15 SLC9A9 Intron of SLC9A9(-): 44Kb before exon 15 Duplication within intron 0 0 0 0 1 0 0 0 7.410656e-01 -5.133281e-01 1 15 1 15 1 143026411 143032147 1 143026407 -4 143032177 30 13 9.891590e-01 1 1 80 0 26 1 -1 -143026412 -1 -143032148 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 457 3 1 87352528 9 0 94321606 inter_chr NaN 15 0 0 0 26_samples:0 87352524 87352784 261 52 94321372 94321612 241 44 POU1F1 IGR: 44Kb before POU1F1(-) NFIL3 IGR: 150Kb before NFIL3(-) - 0 0 1.000000e-02 3.000000e-02 2 0 3 1 -1.213301e-01 -7.485269e-01 1 15 1 15 1 87352524 94321612 1 87352528 4 94321606 -6 5 9.940012e-01 1 0 67 0 9 1 -1 -87352525 -1 -94321613 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 458 4 0 36404195 4 1 36407162 deletion 3066 15 0 0 0 26_samples:0 36404047 36404192 146 25 36407258 36407493 236 48 DTHD1 IGR: 57Kb after DTHD1(+) DTHD1 IGR: 60Kb after DTHD1(+) - 0 3.000000e-02 0 0 1 2 0 1 -2.238119e+00 -4.349285e-01 1 15 1 15 1 36404192 36407258 1 36404195 3 36407162 -96 9 9.894143e-01 0 3 73 0 26 1 -1 -36404193 -1 -36407259 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 459 4 1 38232297 4 0 38243268 tandem_dup 10911 15 0 0 0 26_samples:0 38232336 38232523 188 45 38243020 38243247 228 41 PTTG2 IGR: 270Kb before PTTG2(+) PTTG2 IGR: 281Kb before PTTG2(+) - 0 0 2.000000e-02 0 1 1 2 2 -6.701273e-01 -9.837258e-01 1 15 1 15 1 38232336 38243247 1 38232297 -39 38243268 21 7 9.137647e-01 1 0 72 1 T 14 1 -1 -38232337 -1 -38243248 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 460 4 0 56554546 4 1 56558360 deletion 3820 15 0 0 0 26_samples:0 56554244 56554539 296 61 56558359 56558624 266 57 NMU IGR: 52Kb after NMU(-) NMU IGR: 56Kb after NMU(-) - 8.000000e-02 3.000000e-02 7.000000e-02 7.000000e-02 3 0 2 1 5.842664e-01 2.706680e-01 1 15 1 15 1 56554539 56558359 1 56554546 7 56558360 1 20 9.861806e-01 0 4 85 0 19 1 -1 -56554540 -1 -56558360 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 461 5 1 130181081 5 0 130207797 tandem_dup 26711 15 0 0 0 26_samples:0 130181081 130181360 280 55 130207570 130207792 223 41 HINT1 IGR: 314Kb before HINT1(-) HINT1 IGR: 287Kb before HINT1(-) - 0 0 0 0 2 1 2 0 1.138687e-01 -9.837258e-01 1 15 1 15 1 130181081 130207792 1 130181081 0 130207797 5 17 9.897924e-01 1 2 77 0 25 1 130180880 -201 130207880 88 1 7.979577e-01 1 2 73 15 GCTCTTAGAATTCAC 10 1 2.500000e+00 LUSC-66-2766 462 5 0 80505976 5 1 80509902 deletion 3935 15 0 0 0 26_samples:0 80505701 80505979 279 59 80509914 80510227 314 64 RASGRF2 Intron of RASGRF2(+): 2Kb after exon 22 RASGRF2 Intron of RASGRF2(+): 2Kb after exon 23 Deletion of 1 exon: in frame 0 0 0 0 0 1 0 1 4.274672e-01 8.194652e-01 1 15 1 15 1 80505979 80509914 1 80505976 -3 80509902 -12 5 9.963756e-01 0 1 75 0 13 1 -1 -80505980 -1 -80509915 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 463 6 0 20156861 6 1 20158019 deletion 1211 15 0 0 0 26_samples:0 20156601 20156850 250 50 20158061 20158308 248 57 MBOAT1 Intron of MBOAT1(-): 4Kb before exon 2 MBOAT1 Intron of MBOAT1(-): 5Kb before exon 2 Deletion within intron 0 0 2.000000e-02 6.000000e-02 1 1 1 1 -2.781293e-01 2.706680e-01 1 15 1 15 1 20156850 20158061 1 20156861 11 20158019 -42 20 9.914724e-01 0 1 79 0 32 1 -1 -20156851 -1 -20158062 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 464 6 0 118395369 6 1 118397460 deletion 2086 15 0 0 0 26_samples:0 118395097 118395365 269 52 118397451 118397710 260 51 SLC35F1 Intron of SLC35F1(+): 80Kb before exon 2 SLC35F1 Intron of SLC35F1(+): 78Kb before exon 2 Deletion within intron 0 0 0 4.000000e-02 0 0 0 1 -1.213301e-01 -1.997297e-01 1 15 1 15 1 118395365 118397451 1 118395369 4 118397460 9 7 9.223143e-01 0 3 75 0 9 1 118395204 -161 118397250 -201 1 8.175536e-01 0 2 79 0 8 1 1.125000e+00 LUSC-66-2766 468 7 1 105909430 7 0 105919219 tandem_dup 9773 15 0 0 0 26_samples:0 105909423 105909673 251 45 105918942 105919196 255 47 NAMPT Intron of NAMPT(-): 177bp after exon 5 NAMPT Intron of NAMPT(-): 2Kb before exon 2 Duplication of 4 exons: in frame 4.000000e-02 2.000000e-02 0 0 1 1 2 0 -6.701273e-01 -5.133281e-01 1 15 1 15 1 105909423 105919196 1 105909430 7 105919219 23 10 9.978498e-01 1 1 76 0 21 1 -1 -105909424 -1 -105919197 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 471 7 1 133793908 7 0 133809652 tandem_dup 15726 15 0 0 0 26_samples:0 133793922 133794171 250 64 133809346 133809648 303 59 LRGUK IGR: 18Kb before LRGUK(+) LRGUK Promoter of LRGUK(+): 2Kb from tx start - 0 0 2.000000e-02 0 1 1 3 0 8.194652e-01 4.274672e-01 1 15 1 15 1 133793922 133809648 1 133793908 -14 133809652 4 13 9.739668e-01 1 4 74 0 25 1 -1 -133793923 -1 -133809649 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 474 9 1 6325260 9 0 6328904 tandem_dup 3618 15 0 0 0 26_samples:0 6325262 6325540 279 40 6328665 6328880 216 33 TPD52L3 IGR: 3Kb before TPD52L3(+) TPD52L3 Exon 1 of TPD52L3(+) - 0 0 0 0 0 1 0 0 -1.062125e+00 -1.610923e+00 1 15 1 15 1 6325262 6328880 1 6325260 -2 6328904 24 12 9.947202e-01 1 2 73 0 23 1 -1 -6325263 -1 -6328881 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 478 10 1 88216514 20 1 41814348 inter_chr NaN 15 0 0 0 26_samples:0 88216515 88216777 263 62 41814356 41814658 303 65 WAPAL Intron of WAPAL(-): 2Kb after exon 12 PTPRT Intron of PTPRT(-): 4Kb after exon 1 Antisense fusion 0 0 0 6.000000e-02 2 1 2 1 6.626660e-01 8.978648e-01 1 15 1 15 1 88216515 41814356 1 88216514 -1 41814348 -8 12 9.751839e-01 1 3 69 0 18 1 -1 -88216516 -1 -41814357 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 479 11 0 112790483 11 1 112795802 deletion 5318 15 0 0 0 26_samples:0 112790182 112790488 307 61 112795806 112796090 285 55 NCAM1 IGR: 42Kb before NCAM1(+) NCAM1 IGR: 36Kb before NCAM1(+) - 0 0 6.000000e-02 4.000000e-02 1 0 0 0 5.842664e-01 1.138687e-01 1 15 1 15 1 112790488 112795806 1 112790483 -5 112795802 -4 8 9.371620e-01 0 0 78 1 T 15 1 -1 -112790489 -1 -112795807 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 486 18 1 38043885 18 1 38048667 inversion 4775 15 0 0 0 26_samples:0 38043885 38044185 301 60 38048660 38048937 278 63 KC6 IGR: 1Mb before KC6(-) KC6 IGR: 1Mb before KC6(-) - 0 0 0 0 2 1 2 0 5.058668e-01 7.410656e-01 1 15 1 15 1 38043885 38048660 1 38043885 0 38048667 7 10 9.815335e-01 1 1 74 0 22 1 38043680 -205 38048573 -87 1 7.718456e-01 1 7 81 0 6 1 3.666667e+00 LUSC-66-2766 488 19 0 53748390 19 1 53750843 deletion 2466 15 0 0 0 26_samples:0 53748102 53748375 274 66 53750841 53751112 272 64 ZNF677 Intron of ZNF677(-): 1Kb before exon 4 ZNF677 Intron of ZNF677(-): 4Kb before exon 4 Deletion within intron 0 0 0 0 1 1 0 1 9.762644e-01 8.194652e-01 1 15 1 15 1 53748375 53750841 1 53748390 15 53750843 2 13 9.974891e-01 0 4 59 0 20 1 -1 -53748376 -1 -53750842 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 490 20 1 30614951 20 1 30654949 inversion 40004 15 0 0 0 26_samples:0 30614957 30615222 266 58 30654961 30655216 256 53 C20orf160 Intron of C20orf160(+): 2Kb before exon 7 HCK Intron of HCK(+): 5Kb before exon 2 - 0 0 0 0 2 0 1 1 3.490676e-01 -4.293047e-02 1 15 1 15 1 30614957 30654961 1 30614951 -6 30654949 -12 11 9.396855e-01 1 0 67 1 T 24 1 -1 -30614958 -1 -30654962 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 492 22 0 16886050 22 0 16887705 inversion 1604 15 0 0 0 26_samples:0 16885856 16886040 185 28 16887415 16887644 230 37 CCT8L2 IGR: 186Kb before CCT8L2(-) CCT8L2 IGR: 184Kb before CCT8L2(-) - 8.000000e-02 2.200000e-01 9.000000e-02 1.500000e-01 2 1 2 1 -2.002921e+00 -1.297324e+00 1 15 1 15 1 16886040 16887644 1 16886050 10 16887705 61 20 9.873426e-01 0 5 86 0 46 1 16886055 15 16887663 19 1 8.172788e-01 0 1 75 0 17 1 2.705882e+00 LUSC-66-2766 469 7 1 113792511 7 0 113808875 tandem_dup 16342 15 0 0 0 26_samples:0 113792522 113792805 284 67 113808612 113808864 253 62 FOXP2 5'-UTR of FOXP2(+): 507Kb before coding start FOXP2 5'-UTR of FOXP2(+): 491Kb before coding start Duplication within transcript 0 0 5.000000e-02 1.300000e-01 2 1 1 1 1.054664e+00 6.626660e-01 9.998367e-01 1.499755e+01 1 1.499755e+01 1 113792522 113808864 1 113792511 -11 113808875 11 13 9.704306e-01 1 1 71 0 24 1 -1 -113792523 -1 -113808865 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 484 12 0 59026116 12 1 59027949 deletion 1828 15 0 0 0 26_samples:0 59025819 59026121 303 67 59027949 59028216 268 52 LRIG3 IGR: 240Kb before LRIG3(-) LRIG3 IGR: 238Kb before LRIG3(-) - 0 0 0 0 0 0 1 0 1.054664e+00 -1.213301e-01 9.998367e-01 1.499755e+01 1 1.499755e+01 1 59026121 59027949 1 59026116 -5 59027949 0 14 9.922703e-01 0 2 69 0 24 1 59026325 204 59027878 -71 4 8.269234e-01 0 4 81 0 7 1 3.428571e+00 LUSC-66-2766 491 21 0 33799290 21 1 33800651 deletion 1364 15 0 0 0 26_samples:0 33798996 33799287 292 67 33800651 33800929 279 67 C21orf63 Intron of C21orf63(+): 14Kb after exon 1 C21orf63 Intron of C21orf63(+): 15Kb after exon 1 Deletion within intron 0 0 3.000000e-02 5.000000e-02 2 2 0 1 1.054664e+00 1.054664e+00 9.996734e-01 1.499510e+01 1 1.499510e+01 1 33799287 33800651 1 33799290 3 33800651 0 14 9.785349e-01 0 2 71 0 21 1 -1 -33799288 -1 -33800652 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 480 11 1 1152811 19 0 58829335 inter_chr NaN 15 0 0 0 26_samples:0 1152813 1153055 243 55 58829023 58829321 299 68 MUC2 IGR: 48Kb after MUC2(+) ZSCAN22 IGR: 9Kb before ZSCAN22(+) - 0 0 0 0 1 0 2 1 1.138687e-01 1.133064e+00 9.976495e-01 1.496474e+01 1 1.496474e+01 1 1152813 58829321 1 1152811 -2 58829335 14 10 9.735836e-01 1 5 66 0 16 1 -1 -1152814 -1 -58829322 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 259 5 1 46314460 5 0 46319434 tandem_dup 4980 20 0 0 0 26_samples:0 46314457 46314780 324 66 46319146 46319437 292 59 HCN1 IGR: 1Mb before HCN1(-) HCN1 IGR: 1Mb before HCN1(-) - 3.300000e-01 3.900000e-01 0 2.000000e-02 0 3 4 0 1.041785e+00 4.452753e-01 7.423652e-01 1.484730e+01 1 1.484730e+01 1 46314457 46319437 1 46314460 3 46319434 -3 20 9.840853e-01 1 2 73 0 38 1 -1 -46314458 -1 -46319438 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 260 5 1 80959887 5 0 80964163 tandem_dup 4241 20 0 0 0 26_samples:0 80959880 80960125 246 65 80963852 80964121 270 68 SSBP2 Intron of SSBP2(-): 14Kb before exon 2 SSBP2 Intron of SSBP2(-): 18Kb before exon 2 Duplication within intron 2.000000e-02 7.000000e-02 9.000000e-02 1.300000e-01 5 1 3 7 9.565691e-01 1.212216e+00 7.416107e-01 1.483221e+01 1 1.483221e+01 1 80959880 80964121 1 80959887 7 80964163 42 15 9.968548e-01 1 5 72 0 30 1 -1 -80959881 -1 -80964122 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 419 5 1 148915344 5 0 148960238 tandem_dup 44876 16 0 0 0 26_samples:0 148915352 148915672 321 72 148959934 148960228 295 57 CSNK1A1 Intron of CSNK1A1(-): 11Kb before exon 3 ARHGEF37 Promoter of ARHGEF37(+): 907bp from tx start Antisense fusion 7.000000e-02 5.000000e-02 0 0 4 1 3 0 1.446662e+00 2.706680e-01 9.181790e-01 1.469086e+01 1 1.469086e+01 1 148915352 148960228 1 148915344 -8 148960238 10 9 9.739512e-01 1 0 65 1 T 17 1 -1 -148915353 -1 -148960229 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 432 12 0 29046173 12 1 29047889 deletion 1712 16 0 0 0 26_samples:0 29045893 29046178 286 72 29047890 29048166 277 64 FAR2 IGR: 330Kb before FAR2(+) FAR2 IGR: 329Kb before FAR2(+) - 0 0 0 0 1 1 1 0 1.446662e+00 8.194652e-01 9.181790e-01 1.469086e+01 1 1.469086e+01 1 29046178 29047890 1 29046173 -5 29047889 -1 16 9.993650e-01 0 0 77 0 24 1 29046322 144 29047688 -202 2 7.691907e-01 0 1 79 0 7 1 3.428571e+00 LUSC-66-2766 440 17 0 58647905 17 1 58651041 deletion 3136 16 0 0 0 26_samples:0 58647633 58647903 271 62 58651039 58651349 311 72 PPM1D IGR: 30Kb before PPM1D(+) PPM1D IGR: 27Kb before PPM1D(+) - 1.700000e-01 1.700000e-01 2.000000e-02 0 2 2 2 1 6.626660e-01 1.446662e+00 9.181790e-01 1.469086e+01 1 1.469086e+01 1 58647903 58651039 1 58647905 2 58651041 2 12 9.360078e-01 0 2 72 0 17 1 -1 -58647904 -1 -58651040 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 472 8 0 2617517 8 1 2618574 deletion 1055 15 0 0 0 26_samples:0 2617216 2617518 303 67 2618573 2618862 290 70 CSMD1 IGR: 175Kb before CSMD1(-) CSMD1 IGR: 174Kb before CSMD1(-) - 0 0 0 0 1 2 1 0 1.054664e+00 1.289863e+00 9.760652e-01 1.464098e+01 1 1.464098e+01 1 2617518 2618573 1 2617517 -1 2618574 1 20 9.690988e-01 0 1 68 0 29 1 -1 -2617519 -1 -2618574 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 282 2 0 101244507 2 1 101248667 deletion 4154 19 0 0 0 26_samples:0 101244242 101244517 276 61 101248671 101248995 325 75 PDCL3 IGR: 51Kb after PDCL3(+) PDCL3 IGR: 55Kb after PDCL3(+) - 0 0 0 0 1 0 1 0 5.842664e-01 1.681861e+00 7.592896e-01 1.442650e+01 1 1.442650e+01 1 101244517 101248671 1 101244507 -10 101248667 -4 11 1 0 2 70 0 23 1 -1 -101244518 -1 -101248672 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 482 12 1 66328265 12 0 66340658 tandem_dup 12377 15 0 0 0 26_samples:0 66328277 66328596 320 71 66340385 66340654 270 57 HMGA2 Intron of HMGA2(+): 17Kb before exon 4 HMGA2 Intron of HMGA2(+): 5Kb before exon 4 Duplication within intron 0 0 0 0 1 1 2 0 1.368262e+00 2.706680e-01 9.524329e-01 1.428649e+01 1 1.428649e+01 1 66328277 66340654 1 66328265 -12 66340658 4 10 9.220362e-01 1 0 75 2 TG 18 1 -1 -66328278 -1 -66340655 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 197 3 0 10225670 11 1 3944459 inter_chr NaN 23 0 0 0 26_samples:0 10225404 10225651 248 74 3944455 3944779 325 72 IRAK2 Intron of IRAK2(+): 6Kb after exon 2 STIM1 Intron of STIM1(+): 44Kb before exon 2 Protein fusion: in frame (IRAK2-STIM1) 4.000000e-02 1.300000e-01 0 5.000000e-02 3 1 3 2 1.723510e+00 1.553079e+00 6.203498e-01 1.426805e+01 1 1.426805e+01 1 10225651 3944455 1 10225670 19 3944459 4 9 9.785749e-01 0 0 76 0 29 1 10225822 171 3944254 -201 1 8.113255e-01 0 0 75 1 G 3 1 9.666667e+00 LUSC-66-2766 413 3 1 189621913 3 0 189644478 tandem_dup 22554 16 0 0 0 26_samples:0 189621911 189622179 269 64 189644182 189644465 284 61 TP63 IGR: 7Kb after TP63(+) LEPREL1 IGR: 30Kb before LEPREL1(-) - 0 0 0 0 6 2 4 1 8.194652e-01 5.842664e-01 8.888889e-01 1.422222e+01 1 1.422222e+01 1 189621911 189644465 1 189621913 2 189644478 13 17 9.929154e-01 1 3 69 0 85 1 -1 -189621912 -1 -189644466 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 23 3 1 189637671 3 0 189678290 tandem_dup 40613 45 0 0 0 26_samples:0 189637667 189637993 327 59 189677990 189678280 291 55 LEPREL1 IGR: 37Kb before LEPREL1(-) LEPREL1 Intron of LEPREL1(-): 2Kb before exon 15 - 0 0 0 0 10 1 3 1 4.726269e-01 9.346359e-02 3.140359e-01 1.413162e+01 1 1.413162e+01 1 189637667 189678280 1 189637671 4 189678290 10 20 9.419930e-01 1 1 74 15 AAAATGTCTAAAATG 104 1 -1 -189637668 -1 -189678281 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 495 1 0 24459747 1 1 24465599 deletion 5862 14 0 0 0 26_samples:0 24459431 24459744 314 66 24465606 24465850 245 54 IL22RA1 Intron of IL22RA1(-): 957bp after exon 4 IL22RA1 Intron of IL22RA1(-): 402bp before exon 2 Deletion of 3 exons: out of frame 0 0 0 0 0 0 0 2 9.329128e-01 4.938826e-02 1 14 1 14 1 24459744 24465606 1 24459747 3 24465599 -7 16 9.594242e-01 0 0 78 0 26 1 -1 -24459745 -1 -24465607 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 498 1 1 193167186 1 0 193174368 tandem_dup 7143 14 0 0 0 26_samples:0 193167199 193167490 292 54 193174072 193174342 271 64 CDC73 Intron of CDC73(+): 6Kb before exon 11 CDC73 Intron of CDC73(+): 1Kb after exon 11 Duplication of 1 exon: out of frame 0 0 0 0 1 2 0 0 4.938826e-02 7.856587e-01 1 14 1 14 1 193167199 193174342 1 193167186 -13 193174368 26 8 9.385139e-01 1 0 72 0 6 1 -1 -193167200 -1 -193174343 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 499 1 1 230938132 1 1 230943501 inversion 5366 14 0 0 0 26_samples:0 230938146 230938409 264 59 230943512 230943783 272 50 CAPN9 IGR: 397bp after CAPN9(+) CAPN9 IGR: 6Kb after CAPN9(+) - 6.000000e-02 0 0 0 2 0 2 0 4.175235e-01 -2.451199e-01 1 14 1 14 1 230938146 230943512 1 230938132 -14 230943501 -11 9 9.941511e-01 1 2 75 0 24 1 -1 -230938147 -1 -230943513 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 501 2 0 160397170 2 0 160403530 inversion 6363 14 0 0 0 26_samples:0 160396903 160397170 268 62 160403260 160403533 274 52 BAZ2B 5'-UTR of BAZ2B(-): 62Kb before coding start BAZ2B 5'-UTR of BAZ2B(-): 68Kb before coding start - 0 0 0 0 0 0 0 1 6.384046e-01 -9.786583e-02 1 14 1 14 1 160397170 160403533 1 160397170 0 160403530 -3 11 9.689418e-01 0 2 65 0 18 1 -1 -160397171 -1 -160403534 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 502 2 1 165800113 2 0 165843561 tandem_dup 43445 14 0 0 0 26_samples:0 165800115 165800370 256 61 165843290 165843560 271 62 SLC38A11 Intron of SLC38A11(-): 2Kb after exon 3 SLC38A11 IGR: 32Kb after SLC38A11(-) - 0 0 0 2.000000e-02 2 0 1 1 5.647776e-01 6.384046e-01 1 14 1 14 1 165800115 165843560 1 165800113 -2 165843561 1 16 9.194788e-01 1 0 82 0 30 1 165800007 -108 165843762 202 1 8.101566e-01 1 1 81 0 13 1 2.307692e+00 LUSC-66-2766 503 2 0 165808425 2 0 165815007 inversion 6605 14 0 0 0 26_samples:0 165808149 165808407 259 66 165814742 165815012 271 50 SLC38A11 Intron of SLC38A11(-): 810bp after exon 2 SLC38A11 Promoter of SLC38A11(-): 3Kb from tx start - 0 0 0 0 0 0 1 0 9.329128e-01 -2.451199e-01 1 14 1 14 1 165808407 165815012 1 165808425 18 165815007 -5 12 9.965882e-01 0 2 66 0 22 1 -1 -165808408 -1 -165815013 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 505 2 0 102792113 2 0 102799058 inversion 6944 14 0 0 0 26_samples:0 102791831 102792103 273 57 102798795 102799047 253 50 IL1R1 Exon 10 of IL1R1(+) IL1RL2 IGR: 4Kb before IL1RL2(+) - 0 0 0 0 1 1 0 0 2.702694e-01 -2.451199e-01 1 14 1 14 1 102792103 102799047 1 102792113 10 102799058 11 8 9.904120e-01 0 5 71 0 26 1 -1 -102792104 -1 -102799048 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 506 3 0 154977979 3 1 154981860 deletion 3935 14 0 0 0 26_samples:0 154977729 154977973 245 49 154981908 154982159 252 44 MME IGR: 180Kb before MME(+) MME IGR: 184Kb before MME(+) - 0 0 0 0 2 1 1 0 -3.187470e-01 -6.868822e-01 1 14 1 14 1 154977973 154981908 1 154977979 6 154981860 -48 7 8.863628e-01 0 0 74 0 21 1 -1 -154977974 -1 -154981909 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 508 4 0 29110831 4 1 35374802 long_range 6263989 14 0 0 0 26_samples:0 29110550 29110816 267 58 35374805 35375076 272 55 PCDH7 IGR: 2Mb before PCDH7(+) ARAP2 IGR: 693Kb before ARAP2(-) - 0 0 0 0 1 0 2 1 3.438964e-01 1.230153e-01 1 14 1 14 1 29110816 35374805 1 29110831 15 35374802 -3 10 9.948314e-01 0 3 87 0 15 1 -1 -29110817 -1 -35374806 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 511 5 0 133443033 5 1 133445049 deletion 2048 14 0 0 0 26_samples:0 133442770 133443003 234 49 133445051 133445366 316 60 TCF7 IGR: 7Kb before TCF7(+) TCF7 IGR: 5Kb before TCF7(+) - 0 0 6.000000e-02 1.100000e-01 1 1 2 1 -3.187470e-01 4.911505e-01 1 14 1 14 1 133443003 133445051 1 133443033 30 133445049 -2 4 9.404089e-01 0 1 81 0 14 1 -1 -133443004 -1 -133445052 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 513 6 0 34622525 6 1 34630181 deletion 7661 14 0 0 0 26_samples:0 34622327 34622533 207 33 34630194 34630461 268 59 C6orf106 Exon 2 of C6orf106(-) C6orf106 Intron of C6orf106(-): 8Kb before exon 2 Deletion within transcript: mid-exon 0 0 0 0 0 1 1 3 -1.496780e+00 4.175235e-01 1 14 1 14 1 34622533 34630194 1 34622525 -8 34630181 -13 10 9.849937e-01 0 2 71 0 19 1 -1 -34622534 -1 -34630195 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 515 6 0 93228041 6 1 93229630 deletion 1597 14 0 0 0 26_samples:0 93227757 93228036 280 57 93229633 93229914 282 55 EPHA7 IGR: 722Kb before EPHA7(-) EPHA7 IGR: 720Kb before EPHA7(-) - 0 0 0 0 0 1 1 0 2.702694e-01 1.230153e-01 1 14 1 14 1 93228036 93229633 1 93228041 5 93229630 -3 14 9.673731e-01 0 1 73 0 19 1 -1 -93228037 -1 -93229634 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 517 6 1 128834742 8 1 29063349 inter_chr NaN 14 0 0 0 26_samples:0 128834777 128835003 227 50 29063355 29063554 200 26 PTPRK Intron of PTPRK(-): 7Kb after exon 1 KIF13B Intron of KIF13B(-): 10Kb before exon 3 Antisense fusion 0 0 3.000000e-02 0 3 1 2 1 -2.451199e-01 -2.012169e+00 1 14 1 14 1 128834777 29063355 1 128834742 -35 29063349 -6 7 9.784870e-01 1 1 62 0 13 1 -1 -128834778 -1 -29063356 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 518 7 1 69886383 7 0 69893165 tandem_dup 6775 14 0 0 0 26_samples:0 69886391 69886624 234 48 69892893 69893166 274 54 AUTS2 Intron of AUTS2(+): 14Kb before exon 5 AUTS2 Intron of AUTS2(+): 8Kb before exon 5 Duplication within intron 0 0 0 0 1 1 2 2 -3.923740e-01 4.938826e-02 1 14 1 14 1 69886391 69893166 1 69886383 -8 69893165 -1 10 9.611486e-01 1 1 80 0 23 1 -1 -69886392 -1 -69893167 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 523 8 0 3614211 8 1 3682024 deletion 67825 14 0 0 0 26_samples:0 3613917 3614200 284 57 3682025 3682296 272 51 CSMD1 Intron of CSMD1(-): 3Kb before exon 6 CSMD1 Intron of CSMD1(-): 70Kb before exon 6 Deletion within intron 0 0 0 0 1 1 2 1 2.702694e-01 -1.714929e-01 1 14 1 14 1 3614200 3682025 1 3614211 11 3682024 -1 8 9.698624e-01 0 2 76 0 15 1 -1 -3614201 -1 -3682026 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 526 10 0 53329447 10 1 53524561 deletion 195145 14 0 0 0 26_samples:0 53329163 53329411 249 53 53524556 53524819 264 60 PRKG1 Intron of PRKG1(+): 102Kb after exon 3 PRKG1 Intron of PRKG1(+): 40Kb before exon 4 Deletion within intron 0 0 0 0 1 1 1 0 -2.423878e-02 4.911505e-01 1 14 1 14 1 53329411 53524556 1 53329447 36 53524561 5 9 9.871439e-01 0 2 74 0 12 1 53329335 -76 53524353 -203 2 9.008126e-01 0 2 71 0 11 1 1.090909e+00 LUSC-66-2766 528 11 0 27856981 11 1 27860472 deletion 3550 14 0 0 0 26_samples:0 27856706 27856937 232 45 27860487 27860763 277 54 BDNF IGR: 180Kb before BDNF(-) KIF18A IGR: 182Kb before KIF18A(-) - 0 8.000000e-02 0 0 1 0 1 0 -6.132551e-01 4.938826e-02 1 14 1 14 1 27856937 27860487 1 27856981 44 27860472 -15 8 9.730766e-01 0 3 74 0 11 1 27857141 204 27860508 21 2 8.136053e-01 0 3 77 0 16 1 6.875000e-01 LUSC-66-2766 529 12 1 52388948 12 0 52411095 tandem_dup 22142 14 0 0 0 26_samples:0 52388960 52389211 252 63 52410817 52411102 286 60 ACVR1B 3'-UTR of ACVR1B(+): 1Kb after coding stop GRASP IGR: 1Kb after GRASP(+) - 0 0 0 0 2 0 2 1 7.120317e-01 4.911505e-01 1 14 1 14 1 52388960 52411102 1 52388948 -12 52411095 -7 12 9.983486e-01 1 2 73 0 22 1 52388754 -206 52411239 137 4 7.935987e-01 1 5 79 0 11 1 2 LUSC-66-2766 530 12 1 6494488 12 0 6498269 tandem_dup 3758 14 0 0 0 26_samples:0 6494501 6494783 283 52 6497979 6498259 281 58 LTBR Exon 4 of LTBR(+) LTBR Intron of LTBR(+): 268bp after exon 8 Duplication within transcript: mid-exon 0 0 0 0 0 0 1 1 -9.786583e-02 3.438964e-01 1 14 1 14 1 6494501 6498259 1 6494488 -13 6498269 10 8 9.805387e-01 1 1 73 0 24 1 -1 -6494502 -1 -6498260 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 531 13 0 68416482 13 1 68418493 deletion 2007 14 0 0 0 26_samples:0 68416235 68416483 249 52 68418490 68418763 274 63 PCDH9 IGR: 2Mb before PCDH9(-) PCDH9 IGR: 2Mb before PCDH9(-) - 0 0 0 0 1 1 1 1 -9.786583e-02 7.120317e-01 1 14 1 14 1 68416483 68418490 1 68416482 -1 68418493 3 5 9.628819e-01 0 0 73 12 ATAAATGTGTTA 18 1 -1 -68416484 -1 -68418491 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 532 13 1 91947388 13 0 91956455 tandem_dup 9145 14 0 0 0 26_samples:0 91947386 91947592 207 38 91956302 91956531 230 43 MIR17HG IGR: 53Kb before MIR17HG(+) MIR17HG IGR: 44Kb before MIR17HG(+) - 0 0 2.000000e-02 6.000000e-02 2 0 4 0 -1.128644e+00 -7.605092e-01 1 14 1 14 1 91947386 91956531 1 91947388 2 91956455 -76 2 8.620398e-01 1 0 71 1 T 23 1 -1 -91947387 -1 -91956532 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 534 16 0 63993531 16 1 63995547 deletion 2023 14 0 0 0 26_samples:0 63993251 63993520 270 53 63995543 63995858 316 57 CDH11 IGR: 987Kb before CDH11(-) CDH11 IGR: 985Kb before CDH11(-) - 0 0 0 0 1 1 0 0 -2.423878e-02 2.702694e-01 1 14 1 14 1 63993520 63995543 1 63993531 11 63995547 4 9 9.925631e-01 0 9 82 0 25 1 -1 -63993521 -1 -63995544 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 535 16 0 72104838 16 1 72105906 deletion 1088 14 0 0 0 26_samples:0 72104513 72104826 314 63 72105914 72106139 226 54 HPR Intron of HPR(+): 3Kb before exon 2 HPR Intron of HPR(+): 2Kb before exon 2 Deletion within intron 0 0 5.000000e-02 1.100000e-01 1 0 0 1 7.120317e-01 4.938826e-02 1 14 1 14 1 72104826 72105914 1 72104838 12 72105906 -8 10 9.838813e-01 0 3 63 0 19 1 -1 -72104827 -1 -72105915 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 538 18 0 3728587 18 1 3730706 deletion 2138 14 0 0 0 26_samples:0 3728333 3728584 252 48 3730722 3730995 274 52 DLGAP1 Intron of DLGAP1(-): 551bp after exon 4 DLGAP1 Intron of DLGAP1(-): 1Kb before exon 4 Deletion of 1 exon: out of frame 0 0 0 0 0 0 0 0 -3.923740e-01 -9.786583e-02 1 14 1 14 1 3728584 3730722 1 3728587 3 3730706 -16 7 9.790417e-01 0 3 79 1 G 11 1 -1 -3728585 -1 -3730723 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 539 18 0 3748445 18 0 3752916 inversion 4406 14 0 0 0 26_samples:0 3748242 3748456 215 40 3752616 3752862 247 49 DLGAP1 Intron of DLGAP1(-): 6Kb before exon 3 DLGAP1 Intron of DLGAP1(-): 10Kb before exon 3 - 0 0 0 2.000000e-02 0 1 1 2 -9.813904e-01 -3.187470e-01 1 14 1 14 1 3748456 3752862 1 3748445 -11 3752916 54 13 9.779139e-01 0 1 68 0 24 1 3748659 203 3752714 -148 4 8.004977e-01 0 2 77 0 22 1 1.090909e+00 LUSC-66-2766 540 18 0 36097798 22 1 18917139 inter_chr NaN 14 0 0 0 26_samples:0 36097523 36097773 251 54 18917142 18917397 256 58 LOC647946 IGR: 689Kb before LOC647946(-) PRODH Intron of PRODH(-): 1Kb after exon 2 - 1.000000e-02 0 0 0 3 1 2 0 4.938826e-02 3.438964e-01 1 14 1 14 1 36097773 18917142 1 36097798 25 18917139 -3 10 9.935604e-01 0 1 73 0 30 1 -1 -36097774 -1 -18917143 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 543 20 0 14785183 20 1 14834705 deletion 49522 14 0 0 0 26_samples:0 14784903 14785176 274 58 14834698 14834952 255 58 MACROD2 Intron of MACROD2(+): 120Kb after exon 5 MACROD2 Intron of MACROD2(+): 169Kb after exon 5 Deletion within intron 0 0 0 0 1 0 2 0 3.438964e-01 3.438964e-01 1 14 1 14 1 14785176 14834698 1 14785183 7 14834705 7 11 9.980783e-01 0 2 63 0 14 1 -1 -14785177 -1 -14834699 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 544 22 1 29475723 22 0 29499782 tandem_dup 24062 14 0 0 0 26_samples:0 29475722 29476007 286 60 29499519 29499784 266 42 KREMEN1 Intron of KREMEN1(+): 7Kb after exon 1 KREMEN1 Intron of KREMEN1(+): 5Kb after exon 3 Duplication of 2 exons: in frame 0 0 0 0 2 1 2 1 4.911505e-01 -8.341363e-01 1 14 1 14 1 29475722 29499784 1 29475723 1 29499782 -2 18 9.865232e-01 1 0 74 1 T 25 1 -1 -29475723 -1 -29499785 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 545 22 0 37508614 22 0 37513876 inversion 5239 14 0 0 0 26_samples:0 37508377 37508619 243 52 37513576 37513858 283 61 IL2RB IGR: 13Kb before IL2RB(-) IL2RB IGR: 8Kb before IL2RB(-) - 0 0 0 0 0 1 0 1 -9.786583e-02 5.647776e-01 1 14 1 14 1 37508619 37513858 1 37508614 -5 37513876 18 10 9.547326e-01 0 4 88 0 23 1 -1 -37508620 -1 -37513859 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 504 2 1 141515998 2 1 141521609 inversion 5618 14 0 0 0 26_samples:0 141515994 141516299 306 60 141521612 141521879 268 67 LRP1B Intron of LRP1B(-): 11Kb after exon 35 LRP1B Intron of LRP1B(-): 5Kb after exon 35 Antisense fusion 0 0 0 0 1 1 0 0 4.911505e-01 1.006540e+00 9.999997e-01 1.400000e+01 1 1.400000e+01 1 141515994 141521612 1 141515998 4 141521609 -3 7 9.946678e-01 1 4 71 0 9 1 -1 -141515995 -1 -141521613 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 514 6 0 66659114 6 1 66669564 deletion 10454 14 0 0 0 26_samples:0 66658842 66659120 279 60 66669574 66669881 308 68 MCART3P IGR: 161Kb before MCART3P(+) MCART3P IGR: 172Kb before MCART3P(+) - 0 0 0 0 2 0 1 0 4.911505e-01 1.080167e+00 9.994851e-01 1.399279e+01 1 1.399279e+01 1 66659120 66669574 1 66659114 -6 66669564 -10 10 9.794496e-01 0 3 78 0 15 1 -1 -66659121 -1 -66669575 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 537 17 1 79684818 17 0 79695857 tandem_dup 10980 14 0 0 0 26_samples:0 79684833 79685074 242 48 79695575 79695813 239 68 SLC25A10 Exon 9 of SLC25A10(+) SLC25A10 IGR: 8Kb after SLC25A10(+) - 0 0 0 1.400000e-01 4 0 2 1 -3.923740e-01 1.080167e+00 9.994851e-01 1.399279e+01 1 1.399279e+01 1 79684833 79695813 1 79684818 -15 79695857 44 4 9.734014e-01 1 3 75 0 13 1 -1 -79684834 -1 -79695814 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 542 20 0 14781111 20 1 15111204 deletion 330079 14 0 0 0 26_samples:0 14780804 14781122 319 56 15111201 15111504 304 68 MACROD2 Intron of MACROD2(+): 116Kb after exon 5 MACROD2 Intron of MACROD2(+): 99Kb before exon 6 Deletion within intron 0 0 0 0 2 1 1 2 1.966424e-01 1.080167e+00 9.994851e-01 1.399279e+01 1 1.399279e+01 1 14781122 15111201 1 14781111 -11 15111204 3 14 9.938575e-01 0 2 72 0 19 1 -1 -14781123 -1 -15111202 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 546 22 0 20280257 22 1 20283277 deletion 3059 14 0 0 0 26_samples:0 20279992 20280214 223 54 20283273 20283565 293 68 DGCR6L IGR: 22Kb before DGCR6L(-) DGCR6L IGR: 19Kb before DGCR6L(-) - 1.000000e-02 4.000000e-02 0 0 1 1 1 1 4.938826e-02 1.080167e+00 9.994851e-01 1.399279e+01 1 1.399279e+01 1 20280214 20283273 1 20280257 43 20283277 4 6 9.633511e-01 0 0 62 0 35 1 -1 -20280215 -1 -20283274 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 417 5 1 39688541 5 0 39696784 tandem_dup 8213 16 0 0 0 26_samples:0 39688563 39688870 308 73 39696506 39696776 271 61 DAB2 IGR: 317Kb before DAB2(-) DAB2 IGR: 325Kb before DAB2(-) - 2.000000e-02 0 0 0 1 1 2 0 1.525062e+00 5.842664e-01 8.735500e-01 1.397680e+01 1 1.397680e+01 1 39688563 39696776 1 39688541 -22 39696784 8 10 9.734452e-01 1 1 54 0 28 1 -1 -39688564 -1 -39696777 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 190 10 0 105954811 10 1 105957201 deletion 2383 24 0 0 0 26_samples:0 105954518 105954817 300 67 105957200 105957515 316 76 C10orf79 Intron of C10orf79(-): 1Kb before exon 11 C10orf79 Intron of C10orf79(-): 480bp after exon 9 Deletion of 1 exon: in frame 0 0 0 0 2 1 1 1 1.127000e+00 1.893941e+00 5.821102e-01 1.397064e+01 1 1.397064e+01 1 105954817 105957200 1 105954811 -6 105957201 1 20 9.127557e-01 0 0 74 0 27 1 -1 -105954818 -1 -105957201 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 387 21 0 9852598 21 1 9858966 deletion 6393 17 0 0 0 26_samples:0 9852307 9852572 266 43 9858965 9859230 266 57 LOC100132288 IGR: 55Kb before LOC100132288(-) LOC100132288 IGR: 48Kb before LOC100132288(-) - 5.000000e-02 8.000000e-02 3.200000e-01 3.400000e-01 2 1 2 3 -8.269265e-01 2.706680e-01 8.209098e-01 1.395547e+01 1 1.395547e+01 1 9852572 9858965 1 9852598 26 9858966 1 10 9.978702e-01 0 1 78 0 19 1 -1 -9852573 -1 -9858966 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 519 7 0 93343188 7 0 93345540 inversion 2345 14 0 0 0 26_samples:0 93342938 93343193 256 61 93345208 93345538 331 69 TFPI2 IGR: 173Kb before TFPI2(-) TFPI2 IGR: 170Kb before TFPI2(-) - 0 0 0 0 1 1 2 1 5.647776e-01 1.153794e+00 9.963756e-01 1.394926e+01 1 1.394926e+01 1 93343193 93345538 1 93343188 -5 93345540 2 12 9.897342e-01 0 1 65 0 29 1 -1 -93343194 -1 -93345539 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 525 10 1 23476496 10 0 23489419 tandem_dup 12926 14 0 0 0 26_samples:0 23476499 23476844 346 69 23489168 23489425 258 56 PTF1A IGR: 5Kb before PTF1A(+) PTF1A IGR: 6Kb after PTF1A(+) - 4.000000e-02 5.000000e-02 0 0 2 1 2 0 1.153794e+00 1.966424e-01 9.963756e-01 1.394926e+01 1 1.394926e+01 1 23476499 23489425 1 23476496 -3 23489419 -6 10 9.637345e-01 1 2 69 0 17 1 23476291 -208 23489270 -155 4 8.681862e-01 1 7 74 0 17 1 1 LUSC-66-2766 364 6 0 162705198 6 1 162789153 deletion 83966 17 0 0 0 26_samples:0 162704874 162705188 315 60 162789154 162789426 273 74 PARK2 Intron of PARK2(-): 21Kb before exon 3 PARK2 Intron of PARK2(-): 75Kb after exon 2 Deletion within intron 0 0 0 0 3 1 2 1 5.058668e-01 1.603461e+00 8.198335e-01 1.393717e+01 1 1.393717e+01 1 162705188 162789154 1 162705198 10 162789153 -1 5 9.570461e-01 0 3 63 0 11 1 162705394 206 162789016 -138 6 8.429718e-01 0 5 75 0 18 1 6.111111e-01 LUSC-66-2766 173 17 1 57920356 17 0 57947366 tandem_dup 27014 25 0 0 0 26_samples:0 57920354 57920647 294 69 57947071 57947368 298 64 MIR21 IGR: 2Kb before MIR21(+) TUBD1 Intron of TUBD1(-): 3Kb before exon 7 - 2.000000e-02 1.200000e-01 0 0 8 1 3 1 1.297432e+00 8.713535e-01 5.556445e-01 1.389111e+01 1 1.389111e+01 1 57920354 57947368 1 57920356 2 57947366 -2 17 9.767179e-01 1 1 64 0 37 1 -1 -57920355 -1 -57947369 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 512 6 0 13932485 6 1 13934165 deletion 1690 14 0 0 0 26_samples:0 13932187 13932478 292 70 13934168 13934467 300 65 RNF182 5'-UTR of RNF182(+): 45Kb before coding start RNF182 5'-UTR of RNF182(+): 43Kb before coding start Deletion within transcript 0 0 5.000000e-02 1.000000e-01 1 0 1 1 1.227421e+00 8.592858e-01 9.883745e-01 1.383724e+01 1 1.383724e+01 1 13932478 13934168 1 13932485 7 13934165 -3 8 9.966684e-01 0 3 64 0 20 1 -1 -13932479 -1 -13934169 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 475 10 1 4658086 10 0 33523253 long_range 28865176 15 0 0 0 26_samples:0 4658082 4658390 309 72 33522955 33523258 304 59 LOC100216001 IGR: 34Kb before LOC100216001(-) NRP1 Intron of NRP1(-): 8Kb before exon 7 - 0 0 0 0 2 1 2 0 1.446662e+00 4.274672e-01 9.181790e-01 1.377269e+01 1 1.377269e+01 1 4658082 33523258 1 4658086 4 33523253 -5 12 9.919224e-01 1 1 68 0 19 1 -1 -4658083 -1 -33523259 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 487 18 1 37979970 22 0 19346280 inter_chr NaN 15 0 0 0 26_samples:0 37979966 37980261 296 72 19346004 19346277 274 62 KC6 IGR: 1Mb before KC6(-) HIRA Intron of HIRA(-): 582bp after exon 18 - 0 0 0 0 3 1 4 0 1.446662e+00 6.626660e-01 9.181790e-01 1.377269e+01 1 1.377269e+01 1 37979966 19346277 1 37979970 4 19346280 3 3 9.856753e-01 1 5 65 0 31 1 -1 -37979967 -1 -19346278 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 322 5 0 17307058 5 1 17310253 deletion 3207 18 0 0 0 26_samples:0 17306808 17307050 243 64 17310257 17310576 320 75 BASP1 IGR: 30Kb after BASP1(+) BASP1 IGR: 33Kb after BASP1(+) - 0 0 0 0 1 0 1 1 8.194652e-01 1.681861e+00 7.592896e-01 1.366721e+01 1 1.366721e+01 1 17307050 17310257 1 17307058 8 17310253 -4 7 9.690386e-01 0 3 67 0 21 1 -1 -17307051 -1 -17310258 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 156 19 0 10620650 19 0 10624846 inversion 4205 26 0 0 0 26_samples:0 10620333 10620645 313 77 10624574 10624850 277 65 S1PR5 IGR: 3Kb before S1PR5(-) S1PR5 Exon 2 of S1PR5(-) - 1.000000e-02 0 0 0 1 0 0 0 1.979157e+00 9.565691e-01 5.157923e-01 1.341060e+01 1 1.341060e+01 1 10620645 10624850 1 10620650 5 10624846 -4 2 8.537675e-01 0 1 78 21 ACATGCTCTTCACATGGCTAG 14 1 -1 -10620646 -1 -10624851 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 246 19 1 58178557 19 1 58830927 inversion 652372 21 0 0 0 26_samples:0 58178554 58178865 312 75 58830926 58831190 265 69 ZSCAN4 Promoter of ZSCAN4(+): 2Kb from tx start ZSCAN22 IGR: 7Kb before ZSCAN22(+) - 0 0 0 0 1 1 2 0 1.808726e+00 1.297432e+00 6.372810e-01 1.338290e+01 1 1.338290e+01 1 58178554 58830926 1 58178557 3 58830927 1 20 9.824352e-01 1 3 74 0 34 1 58178724 170 58830721 -205 1 7.690060e-01 1 4 82 0 3 1 1.133333e+01 LUSC-66-2766 452 2 0 162424093 16 1 46559538 inter_chr NaN 15 0 0 0 26_samples:0 162423809 162424097 289 66 46559546 46559834 289 69 SLC4A10 IGR: 57Kb before SLC4A10(+) ANKRD26P1 3'-UTR of ANKRD26P1(-): 43Kb after coding stop - 5.000000e-02 8.000000e-02 0 0 6 4 3 0 9.762644e-01 1.211463e+00 8.805623e-01 1.320844e+01 1 1.320844e+01 1 162424097 46559546 1 162424093 -4 46559538 -8 12 9.976910e-01 0 3 79 0 18 1 -1 -162424098 -1 -46559547 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 107 17 0 42029699 17 1 42032278 deletion 2581 29 0 0 0 26_samples:0 42029432 42029695 264 58 42032276 42032631 356 78 PYY IGR: 414bp before PYY(-) PYY 5'-UTR of PYY(-): 1Kb before coding start - 0 0 0 0 0 1 1 0 3.600596e-01 2.064373e+00 4.533470e-01 1.314706e+01 1 1.314706e+01 1 42029695 42032276 1 42029699 4 42032278 2 17 8.884760e-01 0 2 71 0 16 1 -1 -42029696 -1 -42032277 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 257 4 0 84543718 12 1 122304388 inter_chr NaN 20 0 0 0 26_samples:0 84543414 84543711 298 75 122304387 122304707 321 64 AGPAT9 IGR: 17Kb after AGPAT9(+) HPD 5'-UTR of HPD(-): 9Kb before coding start - 0 2.000000e-02 0 0 2 1 2 0 1.808726e+00 8.713535e-01 6.540494e-01 1.308099e+01 1 1.308099e+01 1 84543711 122304387 1 84543718 7 122304388 1 20 9.633523e-01 0 1 69 0 29 1 -1 -84543712 -1 -122304388 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 549 1 1 113844416 1 0 113860700 tandem_dup 16259 13 0 0 0 26_samples:0 113844424 113844701 278 65 113860439 113860683 245 56 MAGI3 IGR: 89Kb before MAGI3(+) MAGI3 IGR: 73Kb before MAGI3(+) - 0 0 5.000000e-02 1.100000e-01 2 1 2 1 8.592858e-01 1.966424e-01 1 13 1 13 1 113844424 113860683 1 113844416 -8 113860700 17 16 9.985433e-01 1 3 69 0 20 1 -1 -113844425 -1 -113860684 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 550 1 1 155278675 1 0 155283646 tandem_dup 4976 13 0 0 0 26_samples:0 155278673 155278934 262 64 155283358 155283649 292 64 FDPS 5'-UTR of FDPS(+): 908bp before coding start FDPS Intron of FDPS(+): 1Kb after exon 4 Duplication within transcript 0 0 6.000000e-02 3.000000e-02 0 0 0 1 7.856587e-01 7.856587e-01 1 13 1 13 1 155278673 155283649 1 155278675 2 155283646 -3 9 9.659699e-01 1 1 77 0 16 1 -1 -155278674 -1 -155283650 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 552 2 0 37385439 2 1 37388457 deletion 3049 13 0 0 0 26_samples:0 37385148 37385421 274 63 37388470 37388696 227 56 EIF2AK2 Promoter of EIF2AK2(-): 1Kb from tx start SULT6B1 IGR: 6Kb before SULT6B1(-) - 5.000000e-02 1.100000e-01 0 0 1 1 1 1 7.120317e-01 1.966424e-01 1 13 1 13 1 37385421 37388470 1 37385439 18 37388457 -13 9 9.576698e-01 0 1 58 0 17 1 37385244 -177 37388244 -226 7 8.457667e-01 0 26 132 0 37 1 4.594595e-01 LUSC-66-2766 554 2 0 54544676 2 1 54547216 deletion 2532 13 0 0 0 26_samples:0 54544402 54544678 277 62 54547210 54547484 275 57 C2orf73 IGR: 13Kb before C2orf73(+) C2orf73 IGR: 11Kb before C2orf73(+) - 0 3.000000e-02 0 0 1 0 1 0 6.384046e-01 2.702694e-01 1 13 1 13 1 54544678 54547210 1 54544676 -2 54547216 6 9 9.961651e-01 0 3 73 0 37 1 -1 -54544679 -1 -54547211 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 555 2 0 141812899 2 1 142019790 deletion 206908 13 0 0 0 26_samples:0 141812683 141812894 212 53 142019802 142020082 281 62 LRP1B Intron of LRP1B(-): 66bp before exon 10 LRP1B Intron of LRP1B(-): 8Kb before exon 4 Deletion of 6 exons: in frame 0 0 0 2.000000e-02 1 0 2 2 -2.423878e-02 6.384046e-01 1 13 1 13 1 141812894 142019802 1 141812899 5 142019790 -12 19 9.813111e-01 0 3 73 0 28 1 -1 -141812895 -1 -142019803 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 557 2 1 226277519 2 0 226283082 tandem_dup 5550 13 0 0 0 26_samples:0 226277527 226277803 277 59 226282805 226283077 273 64 KIAA1486 Intron of KIAA1486(+): 4Kb after exon 2 KIAA1486 Intron of KIAA1486(+): 9Kb after exon 2 Duplication within intron 0 0 0 0 0 1 1 0 4.175235e-01 7.856587e-01 1 13 1 13 1 226277527 226283077 1 226277519 -8 226283082 5 17 9.828778e-01 1 2 69 0 26 1 -1 -226277528 -1 -226283078 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 559 3 0 172584344 3 1 172588666 deletion 4337 13 0 0 0 26_samples:0 172584072 172584324 253 51 172588661 172588917 257 44 SPATA16 IGR: 23Kb before SPATA16(-) SPATA16 IGR: 18Kb before SPATA16(-) - 0 0 0 0 2 1 0 0 -1.714929e-01 -6.868822e-01 1 13 1 13 1 172584324 172588661 1 172584344 20 172588666 5 13 9.670966e-01 0 2 72 0 27 1 -1 -172584325 -1 -172588662 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 560 3 0 176087500 3 1 176092608 deletion 5108 13 0 0 0 26_samples:0 176087251 176087500 250 47 176092608 176092844 237 40 TBL1XR1 IGR: 651Kb before TBL1XR1(-) TBL1XR1 IGR: 646Kb before TBL1XR1(-) - 0 0 0 0 2 1 3 1 -4.660010e-01 -9.813904e-01 1 13 1 13 1 176087500 176092608 1 176087504 4 176092578 -30 13 9.992894e-01 0 2 80 0 23 1 176087640 140 176092408 -200 8 8.421786e-01 0 0 82 0 15 -1 1.533333e+00 LUSC-66-2766 562 3 0 187751848 3 1 187757997 deletion 6175 13 0 0 0 26_samples:0 187751589 187751849 261 57 187758024 187758255 232 59 LPP IGR: 120Kb before LPP(+) LPP IGR: 114Kb before LPP(+) - 0 0 0 0 1 1 0 2 2.702694e-01 4.175235e-01 1 13 1 13 1 187751849 187758024 1 187751848 -1 187757997 -27 7 9.414339e-01 0 0 70 0 17 1 -1 -187751850 -1 -187758025 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 568 5 0 42884647 5 1 42888151 deletion 3505 13 0 0 0 26_samples:0 42884373 42884647 275 53 42888152 42888417 266 50 SEPP1 IGR: 85Kb before SEPP1(-) SEPP1 IGR: 88Kb before SEPP1(-) - 0 0 0 0 0 0 3 0 -2.423878e-02 -2.451199e-01 1 13 1 13 1 42884647 42888152 1 42884647 0 42888151 -1 7 9.987746e-01 0 3 74 0 14 1 -1 -42884648 -1 -42888153 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 569 5 0 137446435 5 1 137449983 deletion 3589 13 0 0 0 26_samples:0 137446196 137446441 246 48 137450030 137450275 246 41 NME5 IGR: 4Kb before NME5(-) NME5 IGR: 832bp before NME5(-) - 0 0 0 0 0 0 1 1 -3.923740e-01 -9.077633e-01 1 13 1 13 1 137446441 137450030 1 137446435 -6 137449983 -47 14 9.761258e-01 0 1 68 0 25 1 -1 -137446442 -1 -137450031 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 570 5 0 149987491 5 0 149990038 inversion 2539 13 0 0 0 26_samples:0 149987205 149987496 292 53 149989781 149990035 255 52 SYNPO 5'-UTR of SYNPO(+): 10Kb before coding start SYNPO 5'-UTR of SYNPO(+): 8Kb before coding start Antisense fusion 0 0 0 0 1 0 0 1 -2.423878e-02 -9.786583e-02 1 13 1 13 1 149987496 149990035 1 149987491 -5 149990038 3 5 9.581071e-01 0 1 67 19 CCTTATAAGTCCCTTATAA 22 1 -1 -149987497 -1 -149990036 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 571 5 0 3414572 6 1 4407224 inter_chr NaN 13 0 0 0 26_samples:0 3414302 3414566 265 61 4407222 4407546 325 66 IRX1 IGR: 182Kb before IRX1(+) PECI IGR: 291Kb before PECI(-) - 0 0 2.000000e-02 5.000000e-02 2 0 1 2 5.647776e-01 9.329128e-01 1 13 1 13 1 3414566 4407222 1 3414572 6 4407224 2 8 9.647829e-01 0 0 71 0 25 1 -1 -3414567 -1 -4407223 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 572 6 1 31816328 6 1 31819426 inversion 3070 13 0 0 0 26_samples:0 31816357 31816571 215 43 31819427 31819719 293 56 NEU1 IGR: 10Kb before NEU1(-) NEU1 IGR: 7Kb before NEU1(-) - 0 6.000000e-02 0 0 2 1 1 0 -7.605092e-01 1.966424e-01 1 13 1 13 1 31816357 31819427 1 31816328 -29 31819426 -1 5 9.785068e-01 1 2 73 0 17 1 -1 -31816358 -1 -31819428 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 573 6 0 110896470 6 1 110898436 deletion 1964 13 0 0 0 26_samples:0 110896164 110896466 303 60 110898430 110898642 213 38 CDK19 IGR: 35Kb before CDK19(-) CDK19 IGR: 33Kb before CDK19(-) - 0 0 0 2.000000e-02 0 0 1 1 4.911505e-01 -1.128644e+00 1 13 1 13 1 110896466 110898430 1 110896470 4 110898436 6 6 9.921452e-01 0 2 80 0 12 1 -1 -110896467 -1 -110898431 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 575 6 1 68212584 23 1 142040241 inter_chr NaN 13 0 0 0 26_samples:0 68212581 68212889 309 59 142040244 142040514 271 52 BAI3 IGR: 1Mb before BAI3(+) SPANXN4 IGR: 73Kb before SPANXN4(+) - 0 0 0 0 2 1 1 0 4.175235e-01 -9.786583e-02 1 13 1 13 1 68212581 142040244 1 68212584 3 142040241 -3 16 9.962441e-01 1 2 74 0 21 1 -1 -68212582 -1 -142040245 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 578 7 0 140573424 7 1 140575752 deletion 2363 13 0 0 0 26_samples:0 140573175 140573412 238 42 140575775 140576024 250 62 BRAF Intron of BRAF(-): 23Kb before exon 2 BRAF Intron of BRAF(-): 26Kb before exon 2 Deletion within intron 4.000000e-02 3.000000e-02 0 0 2 0 2 0 -8.341363e-01 6.384046e-01 1 13 1 13 1 140573412 140575775 1 140573424 12 140575752 -23 10 9.604102e-01 0 1 77 1 A 14 1 -1 -140573413 -1 -140575776 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 579 7 1 132903032 18 0 38958058 inter_chr NaN 13 0 0 0 26_samples:0 132903037 132903284 248 53 38957752 38958051 300 62 EXOC4 IGR: 35Kb before EXOC4(+) KC6 IGR: 102Kb before KC6(-) - 2.000000e-02 5.000000e-02 0 0 4 1 2 1 -2.423878e-02 6.384046e-01 1 13 1 13 1 132903037 38958051 1 132903032 -5 38958058 7 16 9.833225e-01 1 1 73 0 24 1 -1 -132903038 -1 -38958052 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 581 8 0 116412720 8 1 116414353 deletion 1673 13 0 0 0 26_samples:0 116412514 116412727 214 41 116414400 116414651 252 57 TRPS1 IGR: 8Kb before TRPS1(-) TRPS1 IGR: 6Kb before TRPS1(-) - 0 0 0 0 1 0 2 0 -9.077633e-01 2.702694e-01 1 13 1 13 1 116412727 116414400 1 116412720 -7 116414353 -47 14 9.966426e-01 0 0 70 0 20 1 -1 -116412728 -1 -116414401 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 583 9 0 97273673 9 1 97276890 deletion 3275 13 0 0 0 26_samples:0 97273379 97273618 240 62 97276893 97277135 243 44 FBP2 IGR: 47Kb before FBP2(-) FBP2 IGR: 44Kb before FBP2(-) - 0 0 2.000000e-02 4.000000e-02 0 1 0 0 6.384046e-01 -6.868822e-01 1 13 1 13 1 97273618 97276893 1 97273673 55 97276890 -3 15 8.766340e-01 0 0 75 2 GC 31 1 -1 -97273619 -1 -97276894 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 584 9 1 130911138 9 0 130920827 tandem_dup 9680 13 0 0 0 26_samples:0 130911150 130911440 291 58 130920567 130920830 264 58 LCN2 Promoter of LCN2(+): 582bp from tx start C9orf16 Promoter of C9orf16(+): 2Kb from tx start Transcript fusion (C9orf16-LCN2) 0 0 1.100000e-01 1.100000e-01 3 2 2 1 3.438964e-01 3.438964e-01 1 13 1 13 1 130911150 130920830 1 130911138 -12 130920827 -3 14 9.874471e-01 1 1 74 0 33 1 -1 -130911151 -1 -130920831 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 585 9 0 12919070 20 1 21390440 inter_chr NaN 13 0 0 0 26_samples:0 12918812 12919034 223 52 21390437 21390677 241 63 C9orf150 IGR: 144Kb before C9orf150(+) NKX2-4 IGR: 14Kb before NKX2-4(-) - 0 0 3.000000e-02 9.000000e-02 1 0 2 0 -9.786583e-02 7.120317e-01 1 13 1 13 1 12919034 21390437 1 12919070 36 21390440 3 6 9.318002e-01 0 0 64 16 CAGAACCCTGGAACTT 13 1 -1 -12919035 -1 -21390438 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 586 10 0 60869945 10 1 60871214 deletion 1296 13 0 0 0 26_samples:0 60869668 60869938 271 62 60871234 60871511 278 63 PHYHIPL IGR: 66Kb before PHYHIPL(+) PHYHIPL IGR: 65Kb before PHYHIPL(+) - 0 0 0 0 1 2 0 1 6.384046e-01 7.120317e-01 1 13 1 13 1 60869938 60871234 1 60869945 7 60871214 -20 8 9.949487e-01 0 2 69 0 17 1 -1 -60869939 -1 -60871235 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 587 10 1 78838349 10 0 78849687 tandem_dup 11344 13 0 0 0 26_samples:0 78838347 78838634 288 63 78849466 78849691 226 54 KCNMA1 Intron of KCNMA1(-): 892bp after exon 13 KCNMA1 Intron of KCNMA1(-): 467bp after exon 10 Duplication of 3 exons: out of frame 0 0 0 0 1 0 3 0 7.120317e-01 4.938826e-02 1 13 1 13 1 78838347 78849691 1 78838349 2 78849687 -4 3 9.294868e-01 1 0 76 39 CTTAACATGTTAAGACATTACATGTAATGTCATGTTAAG 32 1 -1 -78838348 -1 -78849692 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 588 11 0 37958494 11 1 37960363 deletion 1864 13 0 0 0 26_samples:0 37958208 37958495 288 55 37960359 37960635 277 65 RAG2 IGR: 1Mb before RAG2(-) RAG2 IGR: 1Mb before RAG2(-) - 2.000000e-02 4.000000e-02 0 0 2 0 0 1 1.230153e-01 8.592858e-01 1 13 1 13 1 37958495 37960359 1 37958494 -1 37960363 4 11 9.891233e-01 0 0 71 0 18 1 -1 -37958496 -1 -37960360 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 589 11 0 89110703 11 1 133114822 long_range 44004139 13 0 0 0 26_samples:0 89110449 89110693 245 48 133114832 133115086 255 51 NOX4 Intron of NOX4(-): 4Kb before exon 12 OPCML Intron of OPCML(-): 287Kb after exon 1 Protein fusion: out of frame (OPCML-NOX4) 2.000000e-02 0 0 0 3 1 1 1 -3.923740e-01 -1.714929e-01 1 13 1 13 1 89110693 133114832 1 89110703 10 133114822 -10 10 9.967371e-01 0 3 62 0 19 1 -1 -89110694 -1 -133114833 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 590 11 1 39199796 11 1 39203652 inversion 3744 13 0 0 0 26_samples:0 39199904 39200075 172 35 39203648 39203851 204 41 LRRC4C IGR: 936Kb before LRRC4C(-) LRRC4C IGR: 932Kb before LRRC4C(-) - 0 0 0 0 1 0 1 0 -1.349526e+00 -9.077633e-01 1 13 1 13 1 39199904 39203648 1 39199796 -108 39203652 4 9 1 1 3 66 0 13 1 -1 -39199905 -1 -39203649 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 591 11 0 39231855 20 1 62657805 inter_chr NaN 13 0 0 0 26_samples:0 39231592 39231855 264 58 62657805 62658042 238 44 LRRC4C IGR: 904Kb before LRRC4C(-) PRPF6 Intron of PRPF6(+): 394bp after exon 15 - 0 0 0 9.000000e-02 2 0 2 1 3.438964e-01 -6.868822e-01 1 13 1 13 1 39231855 62657805 1 39231873 18 62657791 -14 1 1 0 6 70 0 15 1 -1 -39231856 -1 -62657806 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2766 592 12 1 27239604 12 0 27249589 tandem_dup 9955 13 0 0 0 26_samples:0 27239636 27239883 248 59 27249334 27249591 258 53 C12orf71 IGR: 6Kb before C12orf71(-) C12orf71 IGR: 16Kb before C12orf71(-) - 0 0 2.000000e-02 0 1 1 2 0 4.175235e-01 -2.423878e-02 1 13 1 13 1 27239636 27249591 1 27239604 -32 27249589 -2 11 9.971200e-01 1 1 66 0 21 1 -1 -27239637 -1 -27249592 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 596 12 1 21537864 20 1 1397848 inter_chr NaN 13 0 0 0 26_samples:0 21537869 21538120 252 53 1397876 1398086 211 42 SLCO1A2 5'-UTR of SLCO1A2(-): 50Kb before coding start NSFL1C IGR: 25Kb before NSFL1C(-) - 1.000000e-02 8.000000e-02 0 0 3 1 2 0 -2.423878e-02 -8.341363e-01 1 13 1 13 1 21537869 1397876 1 21537864 -5 1397848 -28 20 9.598561e-01 1 2 88 0 43 1 -1 -21537870 -1 -1397877 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 603 18 1 41393920 18 0 41396371 tandem_dup 2440 13 0 0 0 26_samples:0 41393933 41394217 285 61 41396111 41396373 263 60 SYT4 IGR: 546Kb before SYT4(-) SYT4 IGR: 549Kb before SYT4(-) - 0 0 0 0 0 0 1 1 5.647776e-01 4.911505e-01 1 13 1 13 1 41393933 41396373 1 41393920 -13 41396371 -2 7 9.938621e-01 1 1 63 0 14 1 41394069 136 41396579 206 7 8.262910e-01 1 5 67 0 11 1 1.272727e+00 LUSC-66-2766 604 19 1 10614970 19 0 10655916 tandem_dup 40886 13 0 0 0 26_samples:0 10614993 10615232 240 50 10655645 10655879 235 55 KEAP1 Promoter of KEAP1(-): 939bp from tx start ATG4D Intron of ATG4D(+): 73bp after exon 3 Antisense fusion 0 9.000000e-02 0 0 3 0 2 0 -2.451199e-01 1.230153e-01 1 13 1 13 1 10614993 10655879 1 10614970 -23 10655916 37 8 8.518197e-01 1 3 67 6 AATTCT 25 1 -1 -10614994 -1 -10655880 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 606 21 0 41633961 21 1 41635954 deletion 2004 13 0 0 0 26_samples:0 41633655 41633954 300 65 41635958 41636178 221 48 DSCAM Intron of DSCAM(-): 14Kb after exon 11 DSCAM Intron of DSCAM(-): 12Kb after exon 11 Deletion within intron 0 0 0 0 1 0 1 1 8.592858e-01 -3.923740e-01 1 13 1 13 1 41633954 41635958 1 41633961 7 41635954 -4 15 9.679351e-01 0 0 61 0 18 1 41634069 115 41635757 -201 5 8.774656e-01 0 0 86 1 G 10 1 1.800000e+00 LUSC-66-2766 610 23 0 96452488 23 1 96463478 deletion 11007 13 0 0 0 26_samples:0 96452203 96452466 264 48 96463473 96463747 275 57 DIAPH2 Intron of DIAPH2(+): 50Kb before exon 23 DIAPH2 Intron of DIAPH2(+): 39Kb before exon 23 Deletion within intron 0 0 0 0 1 0 1 0 -3.923740e-01 2.702694e-01 1 13 1 13 1 96452466 96463473 1 96452488 22 96463478 5 16 9.961321e-01 0 4 72 0 18 1 96452343 -123 96463267 -206 3 9.048199e-01 0 5 87 0 5 1 3.600000e+00 LUSC-66-2766 434 13 0 39641898 13 0 39647867 inversion 5977 16 0 0 0 26_samples:0 39641599 39641886 288 69 39647529 39647863 335 74 NHLRC3 IGR: 29Kb before NHLRC3(+) NHLRC3 IGR: 35Kb before NHLRC3(+) - 5.000000e-02 0 0 0 1 0 2 1 1.211463e+00 1.603461e+00 8.121539e-01 1.299446e+01 1 1.299446e+01 1 39641886 39647863 1 39641898 12 39647867 4 14 9.616782e-01 0 2 75 0 32 1 -1 -39641887 -1 -39647864 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 561 3 1 183967394 3 0 183978648 tandem_dup 11255 13 0 0 0 26_samples:0 183967392 183967651 260 69 183978372 183978647 276 62 ECE2 Promoter of ECE2(+): 53bp from tx start CAMK2N2 Intron of CAMK2N2(-): 258bp after exon 1 - 0 0 0 0 2 0 2 1 1.153794e+00 6.384046e-01 9.963756e-01 1.295288e+01 1 1.295288e+01 1 183967392 183978647 1 183967394 2 183978648 1 4 9.501084e-01 1 3 82 0 18 1 183967461 69 183978851 204 1 7.616578e-01 1 3 83 0 6 1 3 LUSC-66-2766 565 4 0 93612443 4 0 93617534 inversion 5096 13 0 0 0 26_samples:0 93612121 93612443 323 69 93617271 93617539 269 63 GRID2 Intron of GRID2(+): 101Kb after exon 2 GRID2 Intron of GRID2(+): 106Kb after exon 2 Antisense fusion 0 0 0 0 0 0 1 0 1.153794e+00 7.120317e-01 9.963756e-01 1.295288e+01 1 1.295288e+01 1 93612443 93617539 1 93612443 0 93617534 -5 12 9.027309e-01 0 2 71 21 AATTATAAAGATACATACATA 24 1 -1 -93612444 -1 -93617540 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 444 1 0 44960755 1 0 44969677 inversion 8862 15 0 0 0 26_samples:0 44960465 44960786 322 73 44969364 44969648 285 66 RNF220 Intron of RNF220(+): 82Kb after exon 2 RNF220 Intron of RNF220(+): 91Kb after exon 2 Antisense fusion 0 5.000000e-02 0 4.000000e-02 5 1 1 1 1.525062e+00 9.762644e-01 8.601108e-01 1.290166e+01 1 1.290166e+01 1 44960786 44969648 1 44960755 -31 44969677 29 5 9.969621e-01 0 9 118 0 20 1 -1 -44960787 -1 -44969649 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 521 8 0 110702448 8 1 110704019 deletion 1577 14 0 0 0 26_samples:0 110702199 110702447 249 63 110704024 110704338 315 73 SYBU 5'-UTR of SYBU(-): 46Kb before coding start SYBU Promoter of SYBU(-): 4bp from tx start Deletion within transcript 0 0 0 0 2 0 0 1 7.120317e-01 1.448302e+00 9.173492e-01 1.284289e+01 1 1.284289e+01 1 110702447 110704024 1 110702448 1 110704019 -5 18 9.630007e-01 0 0 72 0 21 1 -1 -110702448 -1 -110704025 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 541 18 0 36311089 22 0 22028465 inter_chr NaN 14 0 0 0 26_samples:0 36310740 36311026 287 73 22028256 22028462 207 56 LOC647946 IGR: 476Kb before LOC647946(-) PPIL2 Intron of PPIL2(+): 891bp before exon 6 - 1.000000e-02 3.000000e-02 0 0 4 0 4 0 1.448302e+00 1.966424e-01 9.173492e-01 1.284289e+01 1 1.284289e+01 1 36311026 22028462 1 36311089 63 22028465 3 11 9.375556e-01 0 0 77 0 43 1 -1 -36311027 -1 -22028463 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 551 1 1 16662350 1 0 16672239 tandem_dup 9889 13 0 0 0 26_samples:0 16662350 16662548 199 30 16671952 16672239 288 64 FBXO42 5'-UTR of FBXO42(-): 20Kb before coding start FBXO42 5'-UTR of FBXO42(-): 30Kb before coding start Duplication within transcript 1.000000e-01 0 1.800000e-01 1.800000e-01 5 0 2 0 -1.717661e+00 7.856587e-01 9.846154e-01 1.280000e+01 1 1.280000e+01 1 16662350 16672239 1 16662145 -205 16672137 -102 16 8.203620e-01 1 10 128 0 48 1 16662145 -205 16672137 -102 5 7.983122e-01 1 10 128 0 26 0 1.846154e+00 LUSC-66-2766 602 16 0 72582952 16 1 72585283 deletion 2353 13 0 0 0 26_samples:0 72582685 72582942 258 44 72585295 72585497 203 35 ZFHX3 IGR: 234Kb before ZFHX3(-) ZFHX3 IGR: 231Kb before ZFHX3(-) - 1.100000e-01 1.500000e-01 0 0 5 4 2 0 -6.868822e-01 -1.349526e+00 9.846154e-01 1.280000e+01 1 1.280000e+01 1 72582942 72585295 1 72582952 10 72585283 -12 14 9.949889e-01 0 2 76 0 20 1 -1 -72582943 -1 -72585296 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 553 2 0 53347824 2 1 53349809 deletion 1980 13 0 0 0 26_samples:0 53347544 53347823 280 69 53349803 53350093 291 61 ASB3 IGR: 549Kb before ASB3(-) ASB3 IGR: 547Kb before ASB3(-) - 0 0 1.000000e-02 0 5 1 4 1 1.153794e+00 5.647776e-01 9.810467e-01 1.275361e+01 1 1.275361e+01 1 53347823 53349803 1 53347824 1 53349809 6 10 9.876247e-01 0 1 71 1 C 14 1 -1 -53347824 -1 -53349804 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 305 1 1 94409497 1 1 94470994 inversion 61500 18 0 0 0 26_samples:0 94409496 94409741 246 52 94470996 94471327 332 76 ABCA4 IGR: 49Kb before ABCA4(-) ABCA4 Intron of ABCA4(-): 1bp after exon 44 - 4.000000e-02 0 0 0 4 1 2 1 -1.213301e-01 1.760261e+00 6.947206e-01 1.250497e+01 1 1.250497e+01 1 94409496 94470996 1 94409497 1 94470994 -2 10 9.210189e-01 1 0 68 0 14 1 -1 -94409497 -1 -94470997 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 564 3 1 190337235 3 0 190339965 tandem_dup 2736 13 0 0 0 26_samples:0 190337232 190337520 289 72 190339721 190339968 248 53 IL1RAP Intron of IL1RAP(+): 832bp before exon 5 IL1RAP Intron of IL1RAP(+): 1Kb before exon 6 Duplication of 1 exon: out of frame 1.000000e-02 3.000000e-02 0 0 3 0 1 0 1.374675e+00 -2.423878e-02 9.500308e-01 1.235040e+01 1 1.235040e+01 1 190337232 190339968 1 190337235 3 190339965 -3 15 9.822546e-01 1 2 69 0 43 1 -1 -190337233 -1 -190339969 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 576 7 0 63897628 7 1 63899486 deletion 1877 13 0 0 0 26_samples:0 63897335 63897617 283 59 63899494 63899755 262 72 LOC649395 IGR: 4Kb before LOC649395(+) LOC649395 IGR: 5Kb before LOC649395(+) - 0 0 0 0 3 2 1 0 4.175235e-01 1.374675e+00 9.500308e-01 1.235040e+01 1 1.235040e+01 1 63897617 63899494 1 63897628 11 63899486 -8 6 8.344624e-01 0 0 69 0 10 1 -1 -63897618 -1 -63899495 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 611 23 0 146134447 23 1 146136279 deletion 1827 13 0 0 0 26_samples:0 146134141 146134452 312 72 146136279 146136590 312 66 MIR506 IGR: 178Kb before MIR506(-) MIR506 IGR: 176Kb before MIR506(-) - 0 0 0 0 0 1 0 0 1.374675e+00 9.329128e-01 9.500308e-01 1.235040e+01 1 1.235040e+01 1 146134452 146136279 1 146134447 -5 146136279 0 11 9.548130e-01 0 2 73 0 17 1 -1 -146134453 -1 -146136280 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 443 1 1 43500821 1 0 43527154 tandem_dup 26305 15 0 0 0 26_samples:0 43500842 43501138 297 74 43526877 43527147 271 65 SLC2A1 IGR: 110Kb before SLC2A1(-) FAM183A IGR: 86Kb before FAM183A(+) - 2.000000e-02 0 4.000000e-02 0 2 0 2 1 1.603461e+00 8.978648e-01 8.198335e-01 1.229750e+01 1 1.229750e+01 1 43500842 43527147 1 43500821 -21 43527154 7 7 9.744040e-01 1 1 75 0 25 1 -1 -43500843 -1 -43527148 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 510 4 1 88874190 4 0 88875844 tandem_dup 1631 14 0 0 0 26_samples:0 88874216 88874485 270 74 88875598 88875847 250 60 SPP1 IGR: 23Kb before SPP1(+) SPP1 IGR: 21Kb before SPP1(+) - 0 1.000000e-01 0 8.000000e-02 1 0 4 0 1.521929e+00 4.911505e-01 8.755197e-01 1.225728e+01 1 1.225728e+01 1 88874216 88875847 1 88874190 -26 88875844 -3 6 9.931185e-01 1 4 71 0 26 1 -1 -88874217 -1 -88875848 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 612 1 1 41358471 1 0 41361198 tandem_dup 2705 12 0 0 0 26_samples:0 41358473 41358722 250 65 41360924 41361178 255 55 CITED4 IGR: 32Kb before CITED4(-) CITED4 IGR: 34Kb before CITED4(-) - 5.000000e-02 1.000000e-01 0 0 1 3 3 0 8.592858e-01 1.230153e-01 1 12 1 12 1 41358473 41361178 1 41358471 -2 41361198 20 8 9.870372e-01 1 1 74 0 17 1 41358296 -177 41361381 203 2 7.714046e-01 1 2 70 0 7 1 2.428571e+00 LUSC-66-2766 613 1 0 191201769 1 1 191204115 deletion 2348 12 0 0 0 26_samples:0 191201508 191201775 268 62 191204123 191204359 237 51 RGS18 IGR: 926Kb before RGS18(+) RGS18 IGR: 923Kb before RGS18(+) - 0 0 0 0 0 1 0 1 6.384046e-01 -1.714929e-01 1 12 1 12 1 191201775 191204123 1 191201769 -6 191204115 -8 9 9.976105e-01 0 3 80 0 11 1 -1 -191201776 -1 -191204124 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 614 1 0 193780971 1 1 193782971 deletion 2041 12 0 0 0 26_samples:0 193780706 193780940 235 45 193782981 193783224 244 54 B3GALT2 IGR: 633Kb before B3GALT2(-) B3GALT2 IGR: 635Kb before B3GALT2(-) - 0 0 0 0 1 1 2 0 -6.132551e-01 4.938826e-02 1 12 1 12 1 193780940 193782981 1 193780971 31 193782971 -10 11 9.906399e-01 0 4 74 0 16 1 -1 -193780941 -1 -193782982 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 616 1 1 202019859 1 0 202035910 tandem_dup 16010 12 0 0 0 26_samples:0 202019851 202020167 317 63 202035609 202035861 253 58 ELF3 IGR: 40Kb before ELF3(+) GPR37L1 IGR: 56Kb before GPR37L1(+) - 6.000000e-02 2.000000e-01 0 0 2 3 4 1 7.120317e-01 3.438964e-01 1 12 1 12 1 202019851 202035861 1 202019859 8 202035910 49 10 9.459698e-01 1 2 77 0 18 1 -1 -202019852 -1 -202035862 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 617 1 0 200032233 1 1 200035017 deletion 2799 12 0 0 0 26_samples:0 200031993 200032220 228 55 200035019 200035273 255 62 NR5A2 Intron of NR5A2(+): 14Kb after exon 4 NR5A2 Intron of NR5A2(+): 17Kb after exon 4 Deletion within intron 0 1.000000e-01 0 0 0 0 0 2 1.230153e-01 6.384046e-01 1 12 1 12 1 200032220 200035019 1 200032233 13 200035017 -2 8 9.910066e-01 0 1 76 0 11 1 -1 -200032221 -1 -200035020 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 618 1 0 75638459 1 1 75641836 deletion 3411 12 0 0 0 26_samples:0 75638185 75638449 265 53 75641860 75642129 270 51 SLC44A5 IGR: 29Kb before SLC44A5(-) SLC44A5 IGR: 26Kb before SLC44A5(-) - 0 0 1.300000e-01 1.400000e-01 2 0 3 3 -2.423878e-02 -1.714929e-01 1 12 1 12 1 75638449 75641860 1 75638459 10 75641836 -24 15 9.566673e-01 0 0 65 1 A 20 1 -1 -75638450 -1 -75641861 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 619 1 0 163521612 1 1 163523984 deletion 2367 12 0 0 0 26_samples:0 163521345 163521621 277 61 163523988 163524240 253 61 NUF2 IGR: 230Kb before NUF2(+) NUF2 IGR: 232Kb before NUF2(+) - 0 0 0 0 0 2 1 1 5.647776e-01 5.647776e-01 1 12 1 12 1 163521621 163523988 1 163521612 -9 163523984 -4 9 9.837428e-01 0 5 71 0 17 1 -1 -163521622 -1 -163523989 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 623 2 0 139935483 2 1 139936321 deletion 841 12 0 0 0 26_samples:0 139935203 139935484 282 54 139936325 139936593 269 55 LOC647012 IGR: 281Kb before LOC647012(+) LOC647012 IGR: 281Kb before LOC647012(+) - 0 0 0 0 0 0 0 0 4.938826e-02 1.230153e-01 1 12 1 12 1 139935484 139936325 1 139935483 -1 139936321 -4 17 9.982123e-01 0 3 71 0 25 1 139935596 112 139936118 -207 1 7.841705e-01 0 8 88 0 7 1 3.571429e+00 LUSC-66-2766 625 2 1 160396039 2 1 160398754 inversion 2682 12 0 0 0 26_samples:0 160396080 160396315 236 52 160398762 160399011 250 49 BAZ2B 5'-UTR of BAZ2B(-): 61Kb before coding start BAZ2B 5'-UTR of BAZ2B(-): 64Kb before coding start Antisense fusion 0 0 0 0 1 1 2 2 -9.786583e-02 -3.187470e-01 1 12 1 12 1 160396080 160398762 1 160396039 -41 160398754 -8 11 9.635038e-01 1 4 74 0 20 1 -1 -160396081 -1 -160398763 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 626 2 0 173485488 2 0 173490900 inversion 5433 12 0 0 0 26_samples:0 173485215 173485444 230 45 173490648 173490877 230 42 PDK1 IGR: 22Kb after PDK1(+) PDK1 IGR: 27Kb after PDK1(+) - 0 0 0 0 0 1 1 1 -6.132551e-01 -8.341363e-01 1 12 1 12 1 173485444 173490877 1 173485488 44 173490900 23 10 9.127868e-01 0 0 76 0 23 1 -1 -173485445 -1 -173490878 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 627 2 0 211386933 2 1 211389723 deletion 2777 12 0 0 0 26_samples:0 211386645 211386941 297 66 211389718 211389987 270 53 CPS1 Intron of CPS1(+): 35Kb before exon 2 CPS1 Intron of CPS1(+): 32Kb before exon 2 Deletion within intron 0 0 0 0 0 1 1 1 9.329128e-01 -2.423878e-02 1 12 1 12 1 211386941 211389718 1 211386933 -8 211389723 5 17 9.887046e-01 0 3 70 0 28 1 211387146 205 211389616 -102 2 7.647519e-01 0 5 87 0 10 1 2.800000e+00 LUSC-66-2766 632 2 1 32328164 23 1 108703076 inter_chr NaN 12 0 0 0 26_samples:0 32328161 32328448 288 52 108703094 108703305 212 39 SPAST Intron of SPAST(+): 4Kb after exon 4 GUCY2F Intron of GUCY2F(-): 5Kb after exon 3 Protein fusion: out of frame (GUCY2F-SPAST) 5.000000e-02 7.000000e-02 0 0 2 3 2 0 -9.786583e-02 -1.055017e+00 1 12 1 12 1 32328161 108703094 1 32328164 3 108703076 -18 3 8.494375e-01 1 1 69 0 7 1 32327957 -204 108703150 56 1 7.709712e-01 1 3 85 0 7 1 1 LUSC-66-2766 634 3 0 172349563 4 0 45040643 inter_chr NaN 12 0 0 0 26_samples:0 172349346 172349559 214 44 45040344 45040632 289 53 NCEH1 3'-UTR of NCEH1(-): 2Kb after coding stop GNPDA2 IGR: 336Kb before GNPDA2(-) - 0 0 2.000000e-02 3.000000e-02 2 0 2 1 -6.868822e-01 -2.423878e-02 1 12 1 12 1 172349559 45040632 1 172349563 4 45040643 11 8 9.104496e-01 0 2 75 1 T 22 1 -1 -172349560 -1 -45040633 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 635 3 1 191775310 4 0 45033757 inter_chr NaN 12 0 0 0 26_samples:0 191775317 191775562 246 55 45033510 45033760 251 45 FGF12 IGR: 84Kb before FGF12(-) GNPDA2 IGR: 330Kb before GNPDA2(-) - 0 0 0 2.000000e-02 2 1 3 1 1.230153e-01 -6.132551e-01 1 12 1 12 1 191775317 45033760 1 191775310 -7 45033757 -3 6 9.949991e-01 1 0 71 0 12 1 -1 -191775318 -1 -45033761 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 636 4 1 93612719 4 0 93616844 tandem_dup 4083 12 0 0 0 26_samples:0 93612731 93612946 216 43 93616562 93616814 253 51 GRID2 Intron of GRID2(+): 101Kb after exon 2 GRID2 Intron of GRID2(+): 105Kb after exon 2 Duplication within intron 0 0 0 0 0 0 2 0 -7.605092e-01 -1.714929e-01 1 12 1 12 1 93612731 93616814 1 93612719 -12 93616844 30 12 9.117745e-01 1 1 77 0 14 1 -1 -93612732 -1 -93616815 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 637 4 0 123287545 4 1 123291306 deletion 3784 12 0 0 0 26_samples:0 123287250 123287522 273 62 123291306 123291554 249 53 KIAA1109 IGR: 4Kb after KIAA1109(+) KIAA1109 IGR: 7Kb after KIAA1109(+) - 2.000000e-02 6.000000e-02 4.000000e-02 8.000000e-02 2 1 2 4 6.384046e-01 -2.423878e-02 1 12 1 12 1 123287522 123291306 1 123287545 23 123291306 0 13 9.911663e-01 0 1 79 0 18 1 -1 -123287523 -1 -123291307 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 642 5 0 67342820 5 1 67346819 deletion 4033 12 0 0 0 26_samples:0 67342549 67342797 249 48 67346830 67347128 299 60 PIK3R1 IGR: 180Kb before PIK3R1(+) PIK3R1 IGR: 176Kb before PIK3R1(+) - 0 0 0 0 0 0 1 1 -3.923740e-01 4.911505e-01 1 12 1 12 1 67342797 67346830 1 67342820 23 67346819 -11 8 9.982796e-01 0 2 76 0 10 1 -1 -67342798 -1 -67346831 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 644 5 0 134865147 5 1 134866951 deletion 1807 12 0 0 0 26_samples:0 134864878 134865152 275 53 134866959 134867200 242 58 NEUROG1 IGR: 5Kb before NEUROG1(-) NEUROG1 IGR: 3Kb before NEUROG1(-) - 0 0 3.000000e-02 5.000000e-02 0 0 0 1 -2.423878e-02 3.438964e-01 1 12 1 12 1 134865152 134866959 1 134865147 -5 134866951 -8 4 9.939108e-01 0 4 56 0 16 1 -1 -134865153 -1 -134866960 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 645 6 0 18295429 6 1 18298477 deletion 3048 12 0 0 0 26_samples:0 18295220 18295429 210 50 18298477 18298689 213 41 DEK IGR: 31Kb after DEK(-) DEK IGR: 34Kb after DEK(-) - 0 0 0 0 0 0 0 0 -2.451199e-01 -9.077633e-01 1 12 1 12 1 18295429 18298477 1 18295564 135 18298474 -3 12 8.359401e-01 0 2 76 1 A 12 1 18295564 135 18298474 -3 9 8.107503e-01 0 2 76 1 A 9 -1 1.333333e+00 LUSC-66-2766 647 6 0 160375783 6 1 160380071 deletion 4354 12 0 0 0 26_samples:0 160375556 160375753 198 43 160380107 160380301 195 35 IGF2R IGR: 14Kb before IGF2R(+) IGF2R IGR: 10Kb before IGF2R(+) - 0 0 0 0 0 0 0 0 -7.605092e-01 -1.349526e+00 1 12 1 12 1 160375753 160380107 1 160375783 30 160380071 -36 12 9.649434e-01 0 0 70 0 19 1 -1 -160375754 -1 -160380108 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 648 6 1 84054792 6 0 84068256 tandem_dup 13441 12 0 0 0 26_samples:0 84054811 84055092 282 48 84067989 84068252 264 57 ME1 Intron of ME1(-): 1Kb after exon 5 ME1 Intron of ME1(-): 6Kb before exon 4 Duplication of 2 exons: out of frame 0 0 2.000000e-02 4.000000e-02 2 1 2 0 -3.923740e-01 2.702694e-01 1 12 1 12 1 84054811 84068252 1 84054792 -19 84068256 4 7 9.956444e-01 1 4 70 0 16 1 -1 -84054812 -1 -84068253 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 653 8 1 32169926 8 0 32179332 tandem_dup 9401 12 0 0 0 26_samples:0 32169937 32170185 249 47 32179042 32179338 297 62 NRG1 Intron of NRG1(+): 283Kb before exon 2 NRG1 Intron of NRG1(+): 274Kb before exon 2 Duplication within intron 0 1.000000e-01 0 0 0 1 1 2 -4.660010e-01 6.384046e-01 1 12 1 12 1 32169937 32179338 1 32169926 -11 32179332 -6 7 9.641371e-01 1 1 64 0 12 1 32169736 -201 32179378 40 1 8.030822e-01 1 0 64 41 TGAGACAGAGGAGTCTCACTGTCTCCCAGACTGGAGTGCAA 18 1 6.666667e-01 LUSC-66-2766 654 9 1 23044048 9 0 23048378 tandem_dup 4306 12 0 0 0 26_samples:0 23044070 23044310 241 53 23048141 23048376 236 49 DMRTA1 IGR: 597Kb before DMRTA1(+) DMRTA1 IGR: 602Kb before DMRTA1(+) - 0 0 0 0 0 0 0 1 -2.423878e-02 -3.187470e-01 1 12 1 12 1 23044070 23048376 1 23044048 -22 23048378 2 13 9.905969e-01 1 2 65 0 16 1 -1 -23044071 -1 -23048377 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 656 9 0 115558140 23 1 50478224 inter_chr NaN 12 0 0 0 26_samples:0 115557976 115558140 165 27 50478224 50478447 224 34 SNX30 Intron of SNX30(+): 9Kb before exon 2 SHROOM4 Intron of SHROOM4(-): 39Kb before exon 2 Antisense fusion 0 0 0 0 2 0 2 1 -1.938542e+00 -1.423153e+00 1 12 1 12 1 115558140 50478224 1 -1 -115558141 -1 -50478225 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -115558141 -1 -50478225 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2766 657 10 1 4587128 10 0 7210214 long_range 2623084 12 0 0 0 26_samples:0 4587134 4587411 278 50 7210001 7210218 218 32 LOC100216001 IGR: 105Kb before LOC100216001(-) SFMBT2 Intron of SFMBT2(-): 3Kb after exon 20 - 3.000000e-02 0 0 0 1 2 2 1 -2.451199e-01 -1.570407e+00 1 12 1 12 1 4587134 7210218 1 4587128 -6 7210214 -4 5 9.747866e-01 1 0 74 0 11 1 -1 -4587135 -1 -7210219 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 661 11 1 62118897 11 0 62139206 tandem_dup 20272 12 0 0 0 26_samples:0 62118927 62119229 303 64 62138975 62139199 225 52 ASRGL1 Intron of ASRGL1(+): 5Kb before exon 3 ASRGL1 Intron of ASRGL1(+): 15Kb after exon 4 Duplication of 2 exons: out of frame 7.000000e-02 1.300000e-01 6.000000e-02 1.100000e-01 2 2 3 1 7.856587e-01 -9.786583e-02 1 12 1 12 1 62118927 62139199 1 62118897 -30 62139206 7 3 1 1 6 121 0 50 1 62118925 -2 62139402 203 1 7.596172e-01 1 7 88 0 10 1 5 LUSC-66-2766 664 12 0 13408217 12 0 59256842 long_range 45848651 12 0 0 0 26_samples:0 13407942 13408175 234 37 59256639 59256826 188 38 EMP1 IGR: 59Kb before EMP1(+) LRIG3 IGR: 9Kb before LRIG3(-) - 0 0 0 0 1 0 2 0 -1.202271e+00 -1.128644e+00 1 12 1 12 1 13408175 59256826 1 13408217 42 59256842 16 4 9.421258e-01 0 1 70 0 8 1 -1 -13408176 -1 -59256827 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 665 13 0 51205032 13 1 51217762 deletion 12743 12 0 0 0 26_samples:0 51204772 51205026 255 51 51217769 51218081 313 59 DLEU7 IGR: 82Kb before DLEU7(-) DLEU7 IGR: 69Kb before DLEU7(-) - 0 0 0 2.000000e-02 1 0 1 0 -1.714929e-01 4.175235e-01 1 12 1 12 1 51205026 51217769 1 51205032 6 51217762 -7 20 9.912945e-01 0 4 74 0 30 1 -1 -51205027 -1 -51217770 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 666 13 1 93707117 13 0 93714595 tandem_dup 7461 12 0 0 0 26_samples:0 93707134 93707360 227 46 93714356 93714595 240 38 GPC6 IGR: 172Kb before GPC6(+) GPC6 IGR: 164Kb before GPC6(+) - 0 0 0 0 1 2 2 1 -5.396281e-01 -1.128644e+00 1 12 1 12 1 93707134 93714595 1 93707117 -17 93714595 0 11 9.777092e-01 1 1 79 0 25 1 93706944 -190 93714797 202 3 8.538496e-01 1 1 78 0 5 1 5 LUSC-66-2766 667 13 0 108526541 13 1 108726173 deletion 199671 12 0 0 0 26_samples:0 108526335 108526548 214 47 108726219 108726479 261 57 FAM155A IGR: 7Kb after FAM155A(-) LIG4 IGR: 134Kb before LIG4(-) - 0 0 0 0 2 0 1 0 -4.660010e-01 2.702694e-01 1 12 1 12 1 108526548 108726219 1 108526541 -7 108726173 -46 11 9.714020e-01 0 3 74 0 28 1 -1 -108526549 -1 -108726220 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 670 16 1 81648227 16 0 81659121 tandem_dup 10874 12 0 0 0 26_samples:0 81648248 81648512 265 54 81658880 81659122 243 60 CMIP Intron of CMIP(+): 6Kb before exon 3 CMIP Intron of CMIP(+): 5Kb after exon 3 Duplication of 1 exon: in frame 0 0 0 0 3 0 1 0 4.938826e-02 4.911505e-01 1 12 1 12 1 81648248 81659122 1 81648227 -21 81659121 -1 4 9.048106e-01 1 2 81 0 9 1 -1 -81648249 -1 -81659123 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 671 16 1 49688423 20 0 60665872 inter_chr NaN 12 0 0 0 26_samples:0 49688499 49688720 222 61 60665689 60665876 188 44 ZNF423 Intron of ZNF423(-): 16Kb before exon 5 LSM14B IGR: 32Kb before LSM14B(+) - 0 0 4.000000e-02 9.000000e-02 2 1 1 2 5.647776e-01 -6.868822e-01 1 12 1 12 1 49688499 60665876 1 49688423 -76 60665872 -4 15 9.555800e-01 1 2 65 0 21 1 -1 -49688500 -1 -60665877 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 672 17 1 57949313 17 0 57952259 tandem_dup 2844 12 0 0 0 26_samples:0 57949407 57949564 158 26 57952037 57952251 215 39 TUBD1 Intron of TUBD1(-): 2Kb after exon 6 TUBD1 Intron of TUBD1(-): 187bp before exon 6 Duplication of 1 exon: in frame 0 1.000000e-01 0 0 3 1 1 1 -2.012169e+00 -1.055017e+00 1 12 1 12 1 57949407 57952251 1 57949313 -94 57952259 8 7 9.551289e-01 1 2 68 0 12 1 57949206 -201 57952449 198 1 9.039114e-01 1 0 80 32 GAGACAGGGTTTTGCTCTGTTGCCCAGGCTGG 19 1 6.315789e-01 LUSC-66-2766 673 17 1 62970489 17 0 62996093 tandem_dup 25599 12 0 0 0 26_samples:0 62970485 62970770 286 57 62995805 62996084 280 47 AMZ2P1 3'-UTR of AMZ2P1(-): 1Kb after coding stop GNA13 IGR: 9Kb before GNA13(-) - 0 4.000000e-02 4.000000e-02 1.000000e-01 2 0 4 1 2.702694e-01 -4.660010e-01 1 12 1 12 1 62970485 62996084 1 62970489 4 62996093 9 11 9.881515e-01 1 2 65 0 22 1 62970381 -104 62996287 203 3 8.055650e-01 1 4 123 0 29 1 7.586207e-01 LUSC-66-2766 675 18 1 38311808 22 0 19487622 inter_chr NaN 12 0 0 0 26_samples:0 38311804 38312094 291 61 19487364 19487617 254 49 KC6 IGR: 748Kb before KC6(-) CDC45 Intron of CDC45(+): 943bp after exon 9 - 0 0 0 0 2 1 2 1 5.647776e-01 -3.187470e-01 1 12 1 12 1 38311804 19487617 1 38311808 4 19487622 5 10 9.836677e-01 1 0 67 1 C 40 1 -1 -38311805 -1 -19487618 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 678 20 0 2331936 20 1 2333823 deletion 1908 12 0 0 0 26_samples:0 2331689 2331925 237 50 2333833 2334088 256 55 TGM6 IGR: 30Kb before TGM6(+) TGM6 IGR: 28Kb before TGM6(+) - 0 0 0 0 0 0 1 1 -2.451199e-01 1.230153e-01 1 12 1 12 1 2331925 2333833 1 2331936 11 2333823 -10 12 8.568842e-01 0 0 63 0 15 1 2331810 -115 2333630 -203 4 8.302871e-01 0 2 80 0 12 1 1.250000e+00 LUSC-66-2766 679 22 0 19784343 22 0 21126252 long_range 1341944 12 0 0 0 26_samples:0 19784051 19784312 262 61 21125965 21126256 292 65 GNB1L Intron of GNB1L(-): 5Kb after exon 7 PI4KA Intron of PI4KA(-): 6Kb before exon 20 - 0 0 1.000000e-02 4.000000e-02 4 0 2 0 5.647776e-01 8.592858e-01 1 12 1 12 1 19784312 21126256 1 19784343 31 21126252 -4 13 9.872124e-01 0 2 58 0 53 1 -1 -19784313 -1 -21126257 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 646 6 1 125423462 6 0 125454693 tandem_dup 31222 12 0 0 0 26_samples:0 125423473 125423744 272 67 125454427 125454695 269 55 TPD52L1 IGR: 51Kb before TPD52L1(+) TPD52L1 IGR: 20Kb before TPD52L1(+) - 0 0 0 0 3 0 2 1 1.006540e+00 1.230153e-01 9.999997e-01 1.200000e+01 1 1.200000e+01 1 125423473 125454695 1 125423462 -11 125454693 -2 14 9.164496e-01 1 0 62 1 G 24 1 -1 -125423474 -1 -125454696 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 676 19 0 10420290 19 1 10426620 deletion 6378 12 0 0 0 26_samples:0 10420025 10420290 266 68 10426668 10426918 251 66 ZGLP1 Promoter of ZGLP1(-): 57bp from tx start FDX1L Exon 1 of FDX1L(-) Protein fusion: mid-exon (FDX1L-ZGLP1) 0 0 0 0 1 0 0 1 1.080167e+00 9.329128e-01 9.994851e-01 1.199382e+01 1 1.199382e+01 1 10420290 10426668 1 10420290 0 10426620 -48 4 9.572808e-01 0 2 80 0 12 1 -1 -10420291 -1 -10426669 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 655 9 0 38386782 9 1 38391371 deletion 4611 12 0 0 0 26_samples:0 38386487 38386783 297 68 38391394 38391649 256 67 ALDH1B1 IGR: 6Kb before ALDH1B1(+) ALDH1B1 Promoter of ALDH1B1(+): 1Kb from tx start - 0 0 0 0 1 0 0 0 1.080167e+00 1.006540e+00 9.994848e-01 1.199382e+01 1 1.199382e+01 1 38386783 38391394 1 38386782 -1 38391371 -23 8 9.885807e-01 0 2 74 0 22 1 -1 -38386784 -1 -38391395 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 652 8 1 57088127 8 0 57101658 tandem_dup 13513 12 0 0 0 26_samples:0 57088137 57088430 294 63 57101367 57101650 284 69 PLAG1 5'-UTR of PLAG1(-): 7Kb before coding start PLAG1 5'-UTR of PLAG1(-): 21Kb before coding start Duplication within transcript 0 0 0 0 1 2 1 0 7.120317e-01 1.153794e+00 9.963756e-01 1.195651e+01 1 1.195651e+01 1 57088137 57101650 1 57088127 -10 57101658 8 15 9.758926e-01 1 1 78 0 22 1 -1 -57088138 -1 -57101651 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 298 17 1 73888451 17 0 73927213 tandem_dup 38757 19 0 0 0 26_samples:0 73888460 73888743 284 77 73926937 73927217 281 61 TRIM65 Exon 3 of TRIM65(-) FBF1 Intron of FBF1(-): 93bp after exon 5 Protein fusion: mid-exon (TRIM65-FBF1) 0 0 6.000000e-02 2.500000e-01 3 0 3 1 1.838660e+00 5.842664e-01 6.289814e-01 1.195065e+01 1 1.195065e+01 1 73888460 73927217 1 73888451 -9 73927213 -4 14 9.665293e-01 1 2 73 0 20 1 -1 -73888461 -1 -73927218 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 651 7 0 132919780 18 1 38953014 inter_chr NaN 12 0 0 0 26_samples:0 132919458 132919781 324 70 38953021 38953276 256 51 EXOC4 IGR: 18Kb before EXOC4(+) KC6 IGR: 107Kb before KC6(-) - 4.000000e-02 0 0 0 3 2 2 1 1.227421e+00 -1.714929e-01 9.883745e-01 1.186049e+01 1 1.186049e+01 1 132919781 38953021 1 132919780 -1 38953014 -7 12 9.959733e-01 0 1 76 0 22 1 132919982 201 38953089 68 4 8.432924e-01 0 0 77 1 C 11 1 2 LUSC-66-2766 660 10 0 89357348 10 1 89724431 deletion 367085 12 0 0 0 26_samples:0 89357077 89357340 264 64 89724425 89724692 268 70 PAPSS2 IGR: 62Kb before PAPSS2(+) PTEN Intron of PTEN(+): 619bp before exon 9 - 0 0 2.000000e-02 3.000000e-02 1 1 3 1 7.856587e-01 1.227421e+00 9.883745e-01 1.186049e+01 1 1.186049e+01 1 89357340 89724425 1 89357348 8 89724431 6 20 9.973154e-01 0 3 78 0 36 1 -1 -89357341 -1 -89724426 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 677 20 1 35088826 20 0 35095811 tandem_dup 6936 12 0 0 0 26_samples:0 35088832 35089127 296 70 35095546 35095768 223 51 DLGAP4 Intron of DLGAP4(+): 13Kb after exon 6 DLGAP4 Intron of DLGAP4(+): 5Kb after exon 1 Duplication of 5 exons: in frame 0 0 0 0 0 1 2 0 1.227421e+00 -1.714929e-01 9.883745e-01 1.186049e+01 1 1.186049e+01 1 35088832 35095768 1 35088826 -6 35095811 43 6 9.894741e-01 1 4 68 0 23 1 -1 -35088833 -1 -35095769 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 643 5 0 67836646 5 1 67839368 deletion 2742 12 0 0 0 26_samples:0 67836348 67836639 292 61 67839381 67839655 275 65 PIK3R1 IGR: 250Kb before PIK3R1(+) PIK3R1 IGR: 253Kb before PIK3R1(+) - 0 0 1.100000e-01 9.000000e-02 5 0 1 2 5.647776e-01 8.592858e-01 9.846154e-01 1.181538e+01 1 1.181538e+01 1 67836639 67839381 1 67836646 7 67839368 -13 8 9.767259e-01 0 1 67 0 11 1 -1 -67836640 -1 -67839382 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 658 10 1 5174030 10 1 7359515 long_range 2185487 12 0 0 0 26_samples:0 5174024 5174325 302 62 7359511 7359794 284 65 AKR1CL1 IGR: 23Kb before AKR1CL1(-) SFMBT2 Intron of SFMBT2(-): 32Kb before exon 5 - 0 0 0 8.000000e-02 5 1 3 2 6.384046e-01 8.592858e-01 9.846154e-01 1.181538e+01 1 1.181538e+01 1 5174024 7359511 1 5174030 6 7359515 4 5 9.831658e-01 1 3 71 0 13 1 -1 -5174025 -1 -7359512 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 238 10 0 2862031 10 1 28210964 long_range 25348941 21 0 0 0 26_samples:0 2861714 2862032 319 61 28210973 28211259 287 62 PFKP IGR: 248Kb before PFKP(+) ARMC4 Intron of ARMC4(-): 13Kb after exon 16 - 0 0 0 3.000000e-02 8 1 4 2 6.157066e-01 7.009222e-01 5.586861e-01 1.173241e+01 1 1.173241e+01 1 2862032 28210973 1 2862031 -1 28210964 -9 16 9.592836e-01 0 2 75 0 25 1 -1 -2862033 -1 -28210974 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 274 13 1 39124360 13 0 39138530 tandem_dup 14168 20 0 0 0 26_samples:0 39124366 39124680 315 76 39138250 39138534 285 61 FREM2 IGR: 137Kb before FREM2(+) FREM2 IGR: 123Kb before FREM2(+) - 0 4.000000e-02 0 0 3 3 1 1 1.893941e+00 6.157066e-01 5.833026e-01 1.166605e+01 1 1.166605e+01 1 39124366 39138534 1 39124360 -6 39138530 -4 9 9.525617e-01 1 0 73 0 23 1 -1 -39124367 -1 -39138535 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 607 22 0 18573550 22 1 19328596 deletion 755105 13 0 0 0 26_samples:0 18573319 18573552 234 56 19328657 19328850 194 45 PEX26 IGR: 1Kb after PEX26(+) HIRA Intron of HIRA(-): 10Kb before exon 25 - 0 0 1.000000e-02 2.000000e-02 3 0 6 1 1.966424e-01 -6.132551e-01 8.888889e-01 1.155556e+01 1 1.155556e+01 1 18573552 19328657 1 18573550 -2 19328596 -61 5 9.925202e-01 0 5 67 0 30 1 -1 -18573553 -1 -19328658 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 497 1 1 116836407 1 0 116880451 tandem_dup 44033 14 0 0 0 26_samples:0 116836408 116836696 289 75 116880182 116880441 260 70 ATP1A1 IGR: 79Kb before ATP1A1(+) ATP1A1 IGR: 35Kb before ATP1A1(+) - 0 0 0 0 2 1 2 0 1.595556e+00 1.227421e+00 8.160048e-01 1.142407e+01 1 1.142407e+01 1 116836408 116880441 1 116836407 -1 116880451 10 16 9.898917e-01 1 1 69 0 25 1 -1 -116836409 -1 -116880442 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 622 2 0 133879716 2 1 133950788 deletion 71107 12 0 0 0 26_samples:0 133879464 133879701 238 55 133950808 133951077 270 72 NCKAP5 Intron of NCKAP5(-): 8Kb after exon 6 NCKAP5 Intron of NCKAP5(-): 20Kb after exon 5 Deletion of 1 exon: out of frame 0 0 0 0 1 0 1 1 1.230153e-01 1.374675e+00 9.500308e-01 1.140037e+01 1 1.140037e+01 1 133879701 133950808 1 133879716 15 133950788 -20 16 9.901463e-01 0 3 66 0 29 1 -1 -133879702 -1 -133950809 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 582 8 0 131386607 8 1 131469653 deletion 83065 13 0 0 0 26_samples:0 131386316 131386583 268 58 131469648 131469937 290 74 ASAP1 Intron of ASAP1(-): 16Kb before exon 2 ASAP1 IGR: 55Kb after ASAP1(-) - 0 0 0 0 3 0 1 0 3.438964e-01 1.521929e+00 8.755197e-01 1.138176e+01 1 1.138176e+01 1 131386583 131469648 1 131386607 24 131469653 5 13 9.737454e-01 0 4 68 0 19 1 131386626 43 131469446 -202 3 7.823323e-01 0 1 65 0 13 1 1.461538e+00 LUSC-66-2766 397 1 1 154374918 1 0 182274468 long_range 27899550 16 0 0 0 26_samples:0 154374918 154375095 178 37 182274313 182274468 156 22 IL6R Promoter of IL6R(+): 3Kb from tx start GLUL IGR: 76Kb before GLUL(-) - 0 0 0 0 7 0 2 4 -1.297324e+00 -2.473318e+00 7.032967e-01 1.125275e+01 1 1.125275e+01 1 154374918 182274468 1 -1 -154374919 -1 -182274469 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -154374919 -1 -182274469 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2766 214 6 0 169106825 6 1 169108409 deletion 1573 22 0 0 0 26_samples:0 169106522 169106830 309 68 169108403 169108736 334 77 SMOC2 IGR: 38Kb after SMOC2(+) SMOC2 IGR: 40Kb after SMOC2(+) - 0 0 0 0 1 0 0 0 1.212216e+00 1.979157e+00 5.109094e-01 1.124001e+01 1 1.124001e+01 1 169106830 169108403 1 169106825 -5 169108409 6 17 9.923911e-01 0 3 73 0 24 1 169106952 122 169108198 -205 1 7.679716e-01 0 4 72 46 GTGTCAGATTCCAACCCTTTCATATCCCCCAGGGCCACAATTTTAG 31 1 7.741935e-01 LUSC-66-2766 467 7 0 8615325 7 1 8616546 deletion 1221 15 0 0 0 26_samples:0 8615047 8615332 286 70 8616553 8616869 317 75 NXPH1 Intron of NXPH1(+): 140Kb after exon 2 NXPH1 Intron of NXPH1(+): 141Kb after exon 2 Deletion within intron 0 0 0 0 1 1 0 1 1.289863e+00 1.681861e+00 7.412372e-01 1.111856e+01 1 1.111856e+01 1 8615332 8616553 1 8615325 -7 8616546 -7 11 9.847663e-01 0 4 75 0 16 1 -1 -8615333 -1 -8616554 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 425 10 0 44595377 10 1 44596558 deletion 1190 16 0 0 0 26_samples:0 44595059 44595382 324 76 44596572 44596831 260 62 CXCL12 IGR: 270Kb before CXCL12(-) CXCL12 IGR: 269Kb before CXCL12(-) - 0 0 0 0 0 0 0 1 1.760261e+00 6.626660e-01 6.947206e-01 1.111553e+01 1 1.111553e+01 1 44595382 44596572 1 44595377 -5 44596558 -14 14 9.932412e-01 0 0 78 0 21 1 -1 -44595383 -1 -44596573 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 580 8 0 21680519 8 1 21682777 deletion 2311 13 0 0 0 26_samples:0 21680272 21680520 249 52 21682831 21683086 256 51 GFRA2 IGR: 34Kb after GFRA2(-) GFRA2 IGR: 36Kb after GFRA2(-) - 0 0 3.000000e-01 1.600000e-01 6 0 1 1 -9.786583e-02 -1.714929e-01 8.547009e-01 1.111111e+01 1 1.111111e+01 1 21680520 21682831 1 21680519 -1 21682777 -54 6 9.398198e-01 0 8 88 0 19 1 -1 -21680521 -1 -21682832 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 682 1 1 50913692 1 0 50917129 tandem_dup 3424 11 0 0 0 26_samples:0 50913705 50913987 283 49 50916927 50917129 203 32 FAF1 Intron of FAF1(-): 7Kb before exon 19 FAF1 Intron of FAF1(-): 10Kb before exon 19 Duplication within intron 0 0 0 0 0 0 1 0 -2.857865e-01 -1.460439e+00 1 11 1 11 1 50913705 50917129 1 50913692 -13 50917129 0 9 9.797683e-01 1 1 76 1 C 17 1 -1 -50913706 -1 -50917130 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 684 1 0 210423813 1 1 210430345 deletion 6551 11 0 0 0 26_samples:0 210423555 210423789 235 47 210430340 210430623 284 62 SERTAD4 IGR: 7Kb after SERTAD4(+) SERTAD4 IGR: 24Kb before SERTAD4(+) - 0 0 0 0 0 2 0 0 -4.239808e-01 6.124769e-01 1 11 1 11 1 210423789 210430340 1 210423813 24 210430345 5 9 9.930361e-01 0 5 66 0 16 1 -1 -210423790 -1 -210430341 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 685 1 0 210931584 1 1 210933216 deletion 1653 11 0 0 0 26_samples:0 210931349 210931592 244 48 210933245 210933524 280 53 KCNH1 Intron of KCNH1(-): 17Kb after exon 10 KCNH1 Intron of KCNH1(-): 15Kb after exon 10 Deletion within intron 0 0 0 3.000000e-02 2 1 0 1 -3.548837e-01 -9.397737e-03 1 11 1 11 1 210931592 210933245 1 210931584 -8 210933216 -29 11 9.797532e-01 0 3 78 0 22 1 -1 -210931593 -1 -210933246 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 686 1 0 230943494 1 0 230945161 inversion 1675 11 0 0 0 26_samples:0 230943240 230943485 246 47 230944926 230945160 235 52 CAPN9 IGR: 6Kb after CAPN9(+) CAPN9 IGR: 7Kb after CAPN9(+) - 0 0 0 0 1 0 1 1 -4.239808e-01 -7.849492e-02 1 11 1 11 1 230943485 230945160 1 230943494 9 230945161 1 9 9.929209e-01 0 1 77 0 19 1 -1 -230943486 -1 -230945161 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 687 1 0 235317075 1 1 235320341 deletion 3288 11 0 0 0 26_samples:0 235316855 235317073 219 48 235320361 235320579 219 47 RBM34 Intron of RBM34(-): 993bp before exon 5 RBM34 Intron of RBM34(-): 2Kb before exon 4 Deletion of 1 exon: out of frame 5.000000e-02 4.000000e-02 0 0 1 1 1 0 -3.548837e-01 -4.239808e-01 1 11 1 11 1 235317073 235320361 1 235317075 2 235320341 -20 13 9.881026e-01 0 3 74 0 19 1 -1 -235317074 -1 -235320362 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 690 2 1 33724711 2 1 105197644 long_range 71472950 11 0 0 0 26_samples:0 33724706 33724975 270 53 105197656 105197899 244 41 RASGRP3 5'-UTR of RASGRP3(+): 15Kb before coding start LOC150568 IGR: 147Kb before LOC150568(+) - 0 0 0 0 1 1 2 1 -9.397737e-03 -8.385639e-01 1 11 1 11 1 33724706 105197656 1 33724711 5 105197644 -12 10 9.747772e-01 1 1 69 2 AG 27 1 33724650 -56 105197455 -201 2 7.705497e-01 1 0 81 1 A 8 1 3.375000e+00 LUSC-66-2766 692 2 0 127770490 2 1 127772338 deletion 1896 11 0 0 0 26_samples:0 127770217 127770475 259 53 127772371 127772634 264 51 BIN1 IGR: 35Kb before BIN1(-) BIN1 IGR: 33Kb before BIN1(-) - 0 0 0 0 0 1 0 1 -9.397737e-03 -1.475921e-01 1 11 1 11 1 127770475 127772371 1 127770490 15 127772338 -33 12 9.838689e-01 0 3 73 0 17 1 -1 -127770476 -1 -127772372 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 693 2 1 135326312 2 0 135333107 tandem_dup 6783 11 0 0 0 26_samples:0 135326326 135326620 295 60 135332877 135333109 233 49 TMEM163 Intron of TMEM163(-): 17Kb before exon 3 TMEM163 Intron of TMEM163(-): 23Kb before exon 3 Duplication within intron 0 0 0 0 1 2 0 1 4.742826e-01 -2.857865e-01 1 11 1 11 1 135326326 135333109 1 135326312 -14 135333107 -2 9 9.902402e-01 1 1 66 0 21 1 -1 -135326327 -1 -135333110 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 694 2 1 165584467 2 0 165599964 tandem_dup 15484 11 0 0 0 26_samples:0 165584477 165584723 247 63 165599700 165599961 262 59 COBLL1 Intron of COBLL1(-): 2bp after exon 4 COBLL1 Intron of COBLL1(-): 236bp after exon 2 Duplication of 2 exons: out of frame 0 0 0 0 2 0 3 1 6.815741e-01 4.051854e-01 1 11 1 11 1 165584477 165599961 1 165584467 -10 165599964 3 11 9.892048e-01 1 2 75 0 17 1 -1 -165584478 -1 -165599962 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 696 3 1 69250602 3 0 69260452 tandem_dup 9845 11 0 0 0 26_samples:0 69250605 69250889 285 62 69260181 69260450 270 58 FRMD4B Intron of FRMD4B(-): 3Kb before exon 12 FRMD4B Intron of FRMD4B(-): 5Kb after exon 11 Duplication within intron 0 0 3.000000e-02 0 1 0 0 1 6.124769e-01 3.360882e-01 1 11 1 11 1 69250605 69260450 1 69250602 -3 69260452 2 11 9.736938e-01 1 1 66 0 23 1 -1 -69250606 -1 -69260451 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 697 3 0 148780644 3 0 163985893 long_range 15205260 11 0 0 0 26_samples:0 148780356 148780644 289 59 163985602 163985904 303 66 HLTF Intron of HLTF(-): 574bp after exon 10 SI IGR: 711Kb before SI(-) - 0 0 0 3.000000e-02 2 1 3 0 4.051854e-01 8.888657e-01 1 11 1 11 1 148780644 163985904 1 148780644 0 163985893 -11 10 9.952992e-01 0 0 59 0 24 1 148780845 201 163985928 24 4 7.936259e-01 0 0 90 1 C 11 1 2.181818e+00 LUSC-66-2766 700 3 1 189644932 3 0 189680884 tandem_dup 35930 11 0 0 0 26_samples:0 189644924 189645169 246 46 189680603 189680854 252 53 LEPREL1 IGR: 30Kb before LEPREL1(-) LEPREL1 Intron of LEPREL1(-): 893bp after exon 14 - 0 0 0 0 4 1 3 1 -4.930780e-01 -9.397737e-03 1 11 1 11 1 189644924 189680854 1 189644932 8 189680884 30 13 9.877921e-01 1 5 78 0 61 1 -1 -189644925 -1 -189680855 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 703 4 0 36936828 4 1 36940972 deletion 4162 11 0 0 0 26_samples:0 36936592 36936807 216 34 36940969 36941202 234 37 KIAA1239 IGR: 310Kb before KIAA1239(+) KIAA1239 IGR: 306Kb before KIAA1239(+) - 0 0 0 3.000000e-02 0 1 0 2 -1.322244e+00 -1.114953e+00 1 11 1 11 1 36936807 36940969 1 36936828 21 36940972 3 13 9.809890e-01 0 1 77 0 18 1 36936824 17 36940767 -202 3 8.583258e-01 0 2 78 0 18 1 1 LUSC-66-2766 704 4 0 176852894 4 1 176855798 deletion 2957 11 0 0 0 26_samples:0 176852665 176852892 228 55 176855849 176856151 303 66 GPM6A Intron of GPM6A(-): 71Kb after exon 1 GPM6A Intron of GPM6A(-): 68Kb after exon 1 Deletion within intron 0 1.000000e-01 0 0 0 1 0 1 1.287966e-01 8.888657e-01 1 11 1 11 1 176852892 176855849 1 176852894 2 176855798 -51 10 9.663769e-01 0 4 63 0 14 1 -1 -176852893 -1 -176855850 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 705 5 0 39068161 5 1 39077222 deletion 9061 11 0 0 0 26_samples:0 39067905 39068161 257 54 39077222 39077404 183 29 RICTOR Intron of RICTOR(-): 6Kb after exon 2 RICTOR Promoter of RICTOR(-): 3Kb from tx start Deletion within transcript 0 0 0 0 1 0 2 1 5.969945e-02 -1.667730e+00 1 11 1 11 1 39068161 39077222 1 39068364 203 39077059 -163 1 8.768105e-01 0 2 62 6 AATAGC 14 1 39068364 203 39077059 -163 3 8.224341e-01 0 2 62 6 AATAGC 11 0 1.272727e+00 LUSC-66-2766 710 7 0 89352888 7 1 89354122 deletion 1254 11 0 0 0 26_samples:0 89352645 89352876 232 38 89354130 89354394 265 48 DPY19L2P4 IGR: 396Kb before DPY19L2P4(+) DPY19L2P4 IGR: 395Kb before DPY19L2P4(+) - 0 0 0 0 0 0 0 1 -1.045855e+00 -3.548837e-01 1 11 1 11 1 89352876 89354130 1 89352888 12 89354122 -8 6 9.646129e-01 0 0 73 8 ATAAGTAA 19 1 -1 -89352877 -1 -89354131 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 711 8 1 33913721 8 0 33921960 tandem_dup 8184 11 0 0 0 26_samples:0 33913747 33913927 181 29 33921679 33921931 253 50 DUSP26 IGR: 465Kb before DUSP26(-) DUSP26 IGR: 473Kb before DUSP26(-) - 9.000000e-02 1.400000e-01 0 0 1 3 3 2 -1.667730e+00 -2.166893e-01 1 11 1 11 1 33913747 33921931 1 33913721 -26 33921960 29 8 9.720525e-01 1 1 69 0 20 1 -1 -33913748 -1 -33921932 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 714 9 1 115556925 23 0 50478222 inter_chr NaN 11 0 0 0 26_samples:0 115556925 115557183 259 59 50478027 50478222 196 39 SNX30 Intron of SNX30(+): 10Kb before exon 2 SHROOM4 Intron of SHROOM4(-): 39Kb before exon 2 - 0 0 0 0 2 1 4 0 4.051854e-01 -9.767583e-01 1 11 1 11 1 115556925 50478222 1 115556912 -13 50478423 201 1 7.927590e-01 1 1 62 26 GGTATGATACCAAAAGCATGAGTAGC 8 1 -1 -115556926 -1 -50478223 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2766 716 10 1 76888097 17 0 35131674 inter_chr NaN 11 0 0 0 26_samples:0 76888106 76888336 231 58 35131408 35131649 242 61 SAMD8 5'-UTR of SAMD8(+): 22Kb before coding start LHX1 IGR: 163Kb before LHX1(+) - 0 5.000000e-02 0 0 2 1 1 1 3.360882e-01 5.433797e-01 1 11 1 11 1 76888106 35131649 1 76888097 -9 35131674 25 12 9.292383e-01 1 0 77 1 T 23 1 -1 -76888107 -1 -35131650 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 718 11 1 3912742 11 0 3939749 tandem_dup 26949 11 0 0 0 26_samples:0 3912780 3912985 206 45 3939505 3939729 225 48 STIM1 Intron of STIM1(+): 35Kb after exon 1 STIM1 Intron of STIM1(+): 49Kb before exon 2 Duplication within intron 0 2.000000e-02 3.000000e-02 0 2 0 1 0 -5.621752e-01 -3.548837e-01 1 11 1 11 1 3912780 3939729 1 3912742 -38 3939749 20 9 8.354263e-01 1 0 69 0 19 1 -1 -3912781 -1 -3939730 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 719 11 0 13323382 11 1 13326801 deletion 3414 11 0 0 0 26_samples:0 13323129 13323388 260 57 13326802 13327098 297 60 ARNTL 5'-UTR of ARNTL(+): 52Kb before coding start ARNTL 5'-UTR of ARNTL(+): 49Kb before coding start Deletion within transcript 0 0 0 0 2 0 1 1 2.669910e-01 4.742826e-01 1 11 1 11 1 13323388 13326802 1 13323382 -6 13326801 -1 8 9.916722e-01 0 1 70 0 21 1 -1 -13323389 -1 -13326803 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 720 11 1 36981765 11 0 36986098 tandem_dup 4247 11 0 0 0 26_samples:0 36981764 36981979 216 46 36985793 36986011 219 49 RAG2 IGR: 365Kb before RAG2(-) RAG2 IGR: 370Kb before RAG2(-) - 0 0 0 6.000000e-02 2 1 2 0 -4.930780e-01 -2.857865e-01 1 11 1 11 1 36981764 36986011 1 36981765 1 36986098 87 9 9.593790e-01 1 3 78 0 20 1 -1 -36981765 -1 -36986012 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 721 11 1 88492671 11 0 88497586 tandem_dup 4896 11 0 0 0 26_samples:0 88492691 88492942 252 49 88497333 88497587 255 60 GRM5 Intron of GRM5(-): 90Kb after exon 2 GRM5 Intron of GRM5(-): 85Kb after exon 2 Duplication within intron 0 2.000000e-02 0 0 1 2 1 0 -2.857865e-01 4.742826e-01 1 11 1 11 1 88492691 88497587 1 88492671 -20 88497586 -1 14 9.911759e-01 1 1 81 0 24 1 -1 -88492692 -1 -88497588 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 724 12 0 10658146 12 1 10662276 deletion 4180 11 0 0 0 26_samples:0 10657892 10658097 206 40 10662277 10662502 226 44 KLRC1 IGR: 59Kb before KLRC1(-) KLRC1 IGR: 55Kb after KLRC1(-) - 0 0 0 0 0 0 1 0 -9.076611e-01 -6.312724e-01 1 11 1 11 1 10658097 10662277 1 10658146 49 10662276 -1 7 9.962257e-01 0 1 71 0 14 1 -1 -10658098 -1 -10662278 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 725 12 1 24279497 12 0 24282845 tandem_dup 3334 11 0 0 0 26_samples:0 24279501 24279740 240 54 24282538 24282835 298 59 SOX5 5'-UTR of SOX5(-): 231Kb before coding start SOX5 5'-UTR of SOX5(-): 234Kb before coding start Duplication within transcript 0 0 0 0 0 1 2 2 5.969945e-02 4.051854e-01 1 11 1 11 1 24279501 24282835 1 24279497 -4 24282845 10 10 9.815884e-01 1 2 73 0 16 1 -1 -24279502 -1 -24282836 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 727 13 1 102042128 13 0 102045248 tandem_dup 3094 11 0 0 0 26_samples:0 102042124 102042357 234 44 102044946 102045218 273 58 NALCN Intron of NALCN(-): 5Kb after exon 3 NALCN Intron of NALCN(-): 2Kb after exon 3 Duplication within intron 3.000000e-02 1.200000e-01 0 0 2 1 1 0 -6.312724e-01 3.360882e-01 1 11 1 11 1 102042124 102045218 1 102042128 4 102045248 30 5 9.572363e-01 1 4 74 1 T 22 1 102042082 -42 102045427 209 3 8.054481e-01 1 8 82 0 16 1 1.375000e+00 LUSC-66-2766 729 13 0 104277203 18 0 37340475 inter_chr NaN 11 0 0 0 26_samples:0 104277037 104277207 171 21 37340222 37340426 205 32 SLC10A2 IGR: 581Kb before SLC10A2(-) LOC647946 IGR: 8Kb after LOC647946(-) - 0 0 0 0 2 0 2 0 -2.220508e+00 -1.460439e+00 1 11 1 11 1 104277207 37340426 1 104277203 -4 37340475 49 11 9.932290e-01 0 2 80 0 34 1 -1 -104277208 -1 -37340427 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 732 15 1 90689190 15 0 90700397 tandem_dup 11148 11 0 0 0 26_samples:0 90689249 90689452 204 51 90700174 90700397 224 45 SEMA4B IGR: 39Kb before SEMA4B(+) SEMA4B IGR: 28Kb before SEMA4B(+) - 0 0 8.000000e-02 9.000000e-02 3 0 4 1 -1.475921e-01 -5.621752e-01 1 11 1 11 1 90689249 90700397 1 90689190 -59 90700397 0 13 9.835396e-01 1 1 88 0 27 1 90689273 24 90700321 -76 1 8.094870e-01 1 0 108 0 16 1 1.687500e+00 LUSC-66-2766 735 18 0 37270836 22 0 19334921 inter_chr NaN 11 0 0 0 26_samples:0 37270594 37270828 235 45 19334647 19334888 242 46 LOC647946 3'-UTR of LOC647946(-): 61Kb after coding stop HIRA Intron of HIRA(-): 4Kb after exon 24 - 0 0 0 0 2 0 2 0 -5.621752e-01 -4.930780e-01 1 11 1 11 1 37270828 19334888 1 37270836 8 19334921 33 9 9.550801e-01 0 1 73 0 33 1 -1 -37270829 -1 -19334889 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 736 18 0 39956661 22 0 19484739 inter_chr NaN 11 0 0 0 26_samples:0 39956396 39956658 263 60 19484443 19484738 296 67 RIT2 IGR: 367Kb before RIT2(-) CDC45 Intron of CDC45(+): 171bp before exon 8 - 0 0 0 0 2 1 3 0 4.742826e-01 9.579628e-01 1 11 1 11 1 39956658 19484738 1 39956661 3 19484739 1 9 9.521962e-01 0 0 74 11 ACAATTTCACC 30 1 -1 -39956659 -1 -19484739 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 737 19 0 3726413 19 1 7940679 long_range 4214305 11 0 0 0 26_samples:0 3726123 3726387 265 63 7940692 7940968 277 62 TJP3 Promoter of TJP3(+): 2Kb from tx start LOC388499 IGR: 3Kb before LOC388499(-) - 7.000000e-02 1.200000e-01 4.000000e-02 1.300000e-01 1 1 4 1 6.815741e-01 6.124769e-01 1 11 1 11 1 3726387 7940692 1 3726413 26 7940679 -13 9 9.588521e-01 0 3 114 0 21 1 -1 -3726388 -1 -7940693 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 738 19 1 13387745 19 0 13398566 tandem_dup 10821 11 0 0 0 26_samples:0 13387745 13388057 313 62 13398279 13398566 288 55 CACNA1A Intron of CACNA1A(-): 138bp after exon 23 CACNA1A Intron of CACNA1A(-): 786bp before exon 20 Duplication of 4 exons: out of frame 2.000000e-02 1.200000e-01 2.000000e-02 1.000000e-01 3 2 4 1 6.124769e-01 1.287966e-01 1 11 1 11 1 13387745 13398566 1 13387674 -71 13398773 207 19 8.328976e-01 1 9 114 0 50 1 13387674 -71 13398773 207 6 8.786904e-01 1 9 114 0 33 0 1.515152e+00 LUSC-66-2766 740 19 0 50455991 19 1 50458666 deletion 2692 11 0 0 0 26_samples:0 50455745 50455988 244 53 50458680 50458923 244 46 SIGLEC11 Intron of SIGLEC11(-): 337bp before exon 9 SIGLEC11 Intron of SIGLEC11(-): 3Kb after exon 8 Deletion within intron 5.000000e-02 3.000000e-02 8.000000e-02 4.000000e-02 0 0 0 1 -9.397737e-03 -4.930780e-01 1 11 1 11 1 50455988 50458680 1 50455991 3 50458666 -14 6 9.912161e-01 0 0 60 0 13 1 -1 -50455989 -1 -50458681 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 741 19 1 58713809 19 0 58723368 tandem_dup 9532 11 0 0 0 26_samples:0 58713807 58714057 251 66 58723078 58723339 262 60 ZNF274 Intron of ZNF274(+): 4Kb before exon 4 ZNF274 Intron of ZNF274(+): 188bp before exon 7 Duplication of 3 exons: in frame 0 0 0 0 1 0 0 0 8.888657e-01 4.742826e-01 1 11 1 11 1 58713807 58723339 1 58713809 2 58723368 29 10 9.532570e-01 1 2 65 0 23 1 58713606 -201 58723387 48 1 8.283519e-01 1 1 64 47 GTTATATTTTGGACTGGTATACCTGGCTAATCAGCATTCACTGGCAA 29 1 7.931034e-01 LUSC-66-2766 748 23 0 923280 23 1 939548 deletion 16268 11 0 0 0 26_samples:0 923038 923280 243 57 939548 939816 269 67 SHOX IGR: 338Kb before SHOX(+) SHOX IGR: 354Kb before SHOX(+) - 1.300000e-01 1.000000e-01 1.200000e-01 8.000000e-02 3 0 4 2 2.669910e-01 9.579628e-01 1 11 1 11 1 923280 939548 1 923280 0 939548 0 5 9.249266e-01 0 0 77 1 A 14 1 -1 -923281 -1 -939549 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 717 10 0 6802420 18 1 32153785 inter_chr NaN 11 0 0 0 26_samples:0 6802111 6802409 299 68 32153810 32154034 225 44 PRKCQ IGR: 333Kb before PRKCQ(-) DTNA 5'-UTR of DTNA(+): 182Kb before coding start - 0 0 0 0 1 1 1 0 1.027060e+00 -6.312724e-01 9.999802e-01 1.099978e+01 1 1.099978e+01 1 6802409 32153810 1 6802420 11 32153785 -25 7 9.558791e-01 0 1 72 0 12 1 -1 -6802410 -1 -32153811 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 743 22 0 18221536 22 1 18224869 deletion 3369 11 0 0 0 26_samples:0 18221248 18221501 254 56 18224870 18225119 250 68 BID Intron of BID(-): 506bp before exon 5 BID Intron of BID(-): 2Kb after exon 3 Deletion of 1 exon: out of frame 0 0 0 0 0 1 0 0 1.978938e-01 1.027060e+00 9.999802e-01 1.099978e+01 1 1.099978e+01 1 18221501 18224870 1 18221536 35 18224869 -1 8 9.507314e-01 0 0 70 1 A 8 1 -1 -18221502 -1 -18224871 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 713 9 1 127319349 9 0 127342128 tandem_dup 22718 11 0 0 0 26_samples:0 127319348 127319631 284 62 127341789 127342066 278 69 NR6A1 Intron of NR6A1(-): 2Kb before exon 3 NR6A1 Intron of NR6A1(-): 25Kb before exon 3 Duplication within intron 4.000000e-02 5.000000e-02 0 6.000000e-02 4 1 2 1 6.124769e-01 1.096157e+00 9.991117e-01 1.099023e+01 1 1.099023e+01 1 127319348 127342066 1 127319349 1 127342128 62 11 9.480886e-01 1 0 73 1 T 21 1 -1 -127319349 -1 -127342067 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 750 23 1 142716485 23 0 142720232 tandem_dup 3736 11 0 0 0 26_samples:0 142716500 142716778 279 69 142719976 142720236 261 65 SLITRK4 Exon 2 of SLITRK4(-) SLITRK4 5'-UTR of SLITRK4(-): 1Kb before coding start Duplication within transcript: mid-exon 0 0 0 0 0 0 1 0 1.096157e+00 8.197685e-01 9.991117e-01 1.099023e+01 1 1.099023e+01 1 142716500 142720236 1 142716485 -15 142720232 -4 7 8.906938e-01 1 0 73 2 CT 18 1 -1 -142716501 -1 -142720237 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 744 22 1 18951581 22 1 22028245 long_range 3076637 11 0 0 0 26_samples:0 18951613 18951827 215 38 22028250 22028461 212 41 DGCR5 IGR: 6Kb before DGCR5(+) PPIL2 Intron of PPIL2(+): 1Kb before exon 6 - 2.600000e-01 8.000000e-02 0 0 2 0 4 0 -1.045855e+00 -8.385639e-01 9.984026e-01 1.098243e+01 1 1.098243e+01 1 18951613 22028250 1 18951581 -32 22028245 -5 7 9.637535e-01 1 8 78 0 30 1 -1 -18951614 -1 -22028251 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 536 17 1 62843351 17 1 64145638 long_range 1302287 14 0 0 0 26_samples:0 62843354 62843619 266 66 64145641 64145932 292 69 LRRC37A3 IGR: 7Kb before LRRC37A3(-) CCDC46 Intron of CCDC46(-): 17Kb before exon 5 - 2.400000e-01 3.800000e-01 0 0 1 0 2 1 9.329128e-01 1.153794e+00 7.843007e-01 1.098021e+01 1 1.098021e+01 1 62843354 64145641 1 62843351 -3 64145638 -3 6 9.301376e-01 1 1 70 0 14 1 -1 -62843355 -1 -64145642 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 712 9 1 5578147 9 1 5594162 inversion 16037 11 0 0 0 26_samples:0 5578156 5578389 234 50 5594193 5594460 268 70 PDCD1LG2 IGR: 7Kb after PDCD1LG2(+) KIAA1432 IGR: 35Kb before KIAA1432(+) - 0 0 0 0 1 0 2 1 -2.166893e-01 1.165254e+00 9.955073e-01 1.095058e+01 1 1.095058e+01 1 5578156 5594193 1 5578147 -9 5594162 -31 13 9.604307e-01 1 0 83 8 GTTTGGTG 19 1 -1 -5578157 -1 -5594194 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 702 3 1 189615971 6 0 128875178 inter_chr NaN 11 0 0 0 26_samples:0 189615967 189616225 259 62 128874899 128875190 292 56 TP63 IGR: 899bp after TP63(+) PTPRK IGR: 33Kb after PTPRK(-) - 0 0 0 0 5 0 3 0 6.124769e-01 1.978938e-01 9.846154e-01 1.083077e+01 1 1.083077e+01 1 189615967 128875190 1 189615971 4 128875178 -12 15 9.972218e-01 1 1 69 0 31 1 -1 -189615968 -1 -128875191 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 477 10 1 62136370 10 0 62140629 tandem_dup 4261 15 0 0 0 26_samples:0 62136369 62136675 307 74 62140334 62140630 297 73 ANK3 Intron of ANK3(-): 13Kb after exon 1 ANK3 Intron of ANK3(-): 9Kb after exon 1 Duplication within intron 0 0 0 0 1 2 3 0 1.603461e+00 1.525062e+00 7.161656e-01 1.074248e+01 1 1.074248e+01 1 62136369 62140630 1 62136370 1 62140629 -1 10 9.732738e-01 1 2 84 0 22 1 62136217 -152 62140831 201 1 7.890783e-01 1 0 62 46 CTCTTTCACGGACGCTGCCTAGATTGGGGGATAAATTGGTTGGTAA 31 1 7.096774e-01 LUSC-66-2766 489 19 0 58900262 19 1 58903705 deletion 3545 15 0 0 0 26_samples:0 58900041 58900250 210 44 58903795 58903971 177 30 RPS5 Intron of RPS5(+): 638bp after exon 2 RPS5 Intron of RPS5(+): 548bp before exon 3 Deletion within intron 6.000000e-02 8.000000e-02 2.000000e-02 7.000000e-02 3 1 7 0 -7.485269e-01 -1.846121e+00 7.032967e-01 1.054945e+01 1 1.054945e+01 1 58900250 58903795 1 58900262 12 58903705 -90 5 8.947118e-01 0 0 84 12 AAAGTGCTGGAT 41 1 -1 -58900251 -1 -58903796 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 202 18 1 36681989 18 0 37986313 long_range 1304332 23 0 0 0 26_samples:0 36681985 36682262 278 53 37985989 37986317 329 78 LOC647946 IGR: 105Kb before LOC647946(-) KC6 IGR: 1Mb before KC6(-) - 0 0 0 0 2 0 4 0 -6.601857e-02 2.064373e+00 4.533470e-01 1.042698e+01 1 1.042698e+01 1 36681985 37986317 1 36681989 4 37986313 -4 13 9.608869e-01 1 2 84 0 33 1 -1 -36681986 -1 -37986318 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 674 18 0 38048652 18 0 38051592 inversion 2951 12 0 0 0 26_samples:0 38048353 38048645 293 67 38051298 38051596 299 74 KC6 IGR: 1Mb before KC6(-) KC6 IGR: 1Mb before KC6(-) - 0 0 1.000000e-02 0 5 0 1 0 1.006540e+00 1.521929e+00 8.620499e-01 1.034460e+01 1 1.034460e+01 1 38048645 38051596 1 38048652 7 38051592 -4 15 9.848265e-01 0 2 67 0 26 1 38048825 180 38051799 203 2 8.898798e-01 0 3 75 0 8 1 3.250000e+00 LUSC-66-2766 122 19 1 48826702 19 0 48846452 tandem_dup 19755 28 0 0 0 26_samples:0 48826703 48826988 286 79 48846142 48846458 317 71 EMP3 Promoter of EMP3(+): 2Kb from tx start TMEM143 Intron of TMEM143(-): 120bp after exon 5 - 9.000000e-02 7.000000e-02 0 0 3 1 2 1 2.149588e+00 1.467863e+00 3.600690e-01 1.008193e+01 1 1.008193e+01 1 48826703 48846458 1 48826702 -1 48846452 -6 14 9.937267e-01 1 3 79 0 30 1 -1 -48826704 -1 -48846459 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 599 15 0 63707359 15 0 63715756 inversion 8378 13 0 0 0 26_samples:0 63707071 63707362 292 76 63715463 63715740 278 62 CA12 IGR: 33Kb after CA12(-) CA12 IGR: 42Kb after CA12(-) - 0 0 0 0 2 0 0 1 1.669183e+00 6.384046e-01 7.694294e-01 1.000258e+01 1 1.000258e+01 1 63707362 63715740 1 63707359 -3 63715756 16 7 9.461827e-01 0 1 62 0 16 1 -1 -63707363 -1 -63715741 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 752 1 0 37263920 1 1 37269905 deletion 6018 10 0 0 0 26_samples:0 37263696 37263887 192 45 37269905 37270170 266 51 GRIK3 3'-UTR of GRIK3(-): 4Kb after coding stop GRIK3 Intron of GRIK3(-): 683bp after exon 15 - 0 0 0 0 0 2 0 0 -5.621752e-01 -1.475921e-01 1 10 1 10 1 37263887 37269905 1 37263920 33 37269905 0 10 9.883902e-01 0 0 79 0 14 1 -1 -37263888 -1 -37269906 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 756 2 1 148777389 2 0 148786485 tandem_dup 9077 10 0 0 0 26_samples:0 148777397 148777612 216 49 148786177 148786474 298 67 ORC4L 5'-UTR of ORC4L(-): 44Kb before coding start MBD5 5'-UTR of MBD5(+): 430Kb before coding start Antisense fusion 0 0 0 0 2 1 0 1 -2.857865e-01 9.579628e-01 1 10 1 10 1 148777397 148786474 1 148777389 -8 148786485 11 3 8.888802e-01 1 0 74 0 14 1 -1 -148777398 -1 -148786475 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 757 2 1 165692209 2 0 165694929 tandem_dup 2714 10 0 0 0 26_samples:0 165692209 165692473 265 51 165694697 165694923 227 50 COBLL1 Intron of COBLL1(-): 5Kb after exon 1 COBLL1 Intron of COBLL1(-): 3Kb after exon 1 Duplication within intron 0 0 0 0 1 0 2 0 -1.475921e-01 -2.166893e-01 1 10 1 10 1 165692209 165694923 1 165692209 0 165694929 6 5 9.306360e-01 1 3 76 0 18 1 -1 -165692210 -1 -165694924 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 758 2 1 165815016 2 0 165846742 tandem_dup 31693 10 0 0 0 26_samples:0 165815013 165815274 262 57 165846512 165846706 195 51 SLC38A11 Promoter of SLC38A11(-): 3Kb from tx start SLC38A11 IGR: 35Kb after SLC38A11(-) - 0 0 1.700000e-01 2.100000e-01 2 0 4 2 2.669910e-01 -1.475921e-01 1 10 1 10 1 165815013 165846706 1 165815016 3 165846742 36 5 9.405902e-01 1 0 68 7 TAAAAGG 17 1 -1 -165815014 -1 -165846707 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 759 2 1 193638590 2 0 193641965 tandem_dup 3348 10 0 0 0 26_samples:0 193638616 193638838 223 62 193641705 193641964 260 61 PCGEM1 5'-UTR of PCGEM1(+): 3Kb before coding start PCGEM1 IGR: 343bp after PCGEM1(+) - 0 0 3.000000e-02 3.000000e-02 1 0 2 1 6.124769e-01 5.433797e-01 1 10 1 10 1 193638616 193641964 1 193638590 -26 193641965 1 13 9.816695e-01 1 2 69 0 20 1 193638412 -204 193641844 -120 3 7.917504e-01 1 3 74 0 7 1 2.857143e+00 LUSC-66-2766 763 3 0 4717967 3 1 4818606 deletion 100689 10 0 0 0 26_samples:0 4717686 4717938 253 50 4818627 4818846 220 38 ITPR1 Intron of ITPR1(+): 360bp before exon 23 ITPR1 Intron of ITPR1(+): 321bp before exon 44 Deletion of 21 exons: out of frame 0 8.000000e-02 0 0 1 2 2 0 -2.166893e-01 -1.045855e+00 1 10 1 10 1 4717938 4818627 1 4717967 29 4818606 -21 5 9.634765e-01 0 2 79 0 16 1 -1 -4717939 -1 -4818628 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 764 3 1 115825118 3 0 115830994 tandem_dup 5855 10 0 0 0 26_samples:0 115825113 115825350 238 43 115830669 115830968 300 60 LSAMP Intron of LSAMP(-): 20Kb before exon 2 LSAMP Intron of LSAMP(-): 26Kb before exon 2 Duplication within intron 9.000000e-02 1.800000e-01 0 0 1 2 2 0 -7.003696e-01 4.742826e-01 1 10 1 10 1 115825113 115830968 1 115825118 5 115830994 26 7 9.985741e-01 1 4 80 0 19 1 -1 -115825114 -1 -115830969 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 767 3 0 163779640 3 1 163782117 deletion 2480 10 0 0 0 26_samples:0 163779339 163779635 297 61 163782115 163782367 253 50 SI IGR: 917Kb before SI(-) SI IGR: 915Kb before SI(-) - 1.000000e-02 2.000000e-02 0 7.000000e-02 3 2 1 1 5.433797e-01 -2.166893e-01 1 10 1 10 1 163779635 163782115 1 163779640 5 163782117 2 9 9.840646e-01 0 2 79 0 26 1 -1 -163779636 -1 -163782116 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 768 3 0 167971744 3 1 167975399 deletion 3648 10 0 0 0 26_samples:0 167971459 167971746 288 67 167975394 167975648 255 58 NCRNA00259 5'-UTR of NCRNA00259(+): 577Kb before coding start NCRNA00259 5'-UTR of NCRNA00259(+): 573Kb before coding start Deletion within transcript 0 0 0 0 2 2 1 1 9.579628e-01 3.360882e-01 1 10 1 10 1 167971746 167975394 1 167971744 -2 167975399 5 12 9.965538e-01 0 2 80 0 26 1 -1 -167971747 -1 -167975395 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 770 3 0 172074487 3 0 172082405 inversion 7838 10 0 0 0 26_samples:0 172074224 172074488 265 53 172082112 172082326 215 52 FNDC3B Intron of FNDC3B(+): 4Kb after exon 22 FNDC3B Intron of FNDC3B(+): 2Kb after exon 23 Antisense fusion 0 0 0 0 2 0 2 0 -9.397737e-03 -7.849492e-02 1 10 1 10 1 172074488 172082326 1 172074487 -1 172082405 79 6 9.985485e-01 0 3 73 0 47 1 -1 -172074489 -1 -172082327 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 772 3 1 197607573 3 1 197610266 inversion 2690 10 0 0 0 26_samples:0 197607577 197607842 266 64 197610267 197610532 266 64 IQCG IGR: 8Kb before IQCG(-) IQCG IGR: 6Kb before IQCG(-) - 0 0 0 0 1 0 0 2 7.506713e-01 7.506713e-01 1 10 1 10 1 197607577 197610267 1 197607573 -4 197610266 -1 11 9.843750e-01 1 0 68 1 A 15 1 -1 -197607578 -1 -197610268 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 774 3 1 88257878 3 0 96478630 long_range 8220706 10 0 0 0 26_samples:0 88257898 88258117 220 60 96478390 96478604 215 43 C3orf38 IGR: 59Kb before C3orf38(+) EPHA6 IGR: 55Kb before EPHA6(+) - 0 0 0 0 2 0 2 0 4.742826e-01 -7.003696e-01 1 10 1 10 1 88257898 96478604 1 88257878 -20 96478630 26 6 9.471376e-01 1 0 69 32 ATAAACCTTAACCCAGAAAAAATAATCAATTT 30 1 -1 -88257899 -1 -96478605 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 776 3 1 87352321 9 1 94321375 inter_chr NaN 10 0 0 0 26_samples:0 87352330 87352595 266 62 94321376 94321598 223 46 POU1F1 IGR: 44Kb before POU1F1(-) NFIL3 IGR: 150Kb before NFIL3(-) - 0 0 1.000000e-02 3.000000e-02 2 1 3 1 6.124769e-01 -4.930780e-01 1 10 1 10 1 87352330 94321376 1 87352321 -9 94321375 -1 10 9.980485e-01 1 0 76 0 12 1 -1 -87352331 -1 -94321377 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 777 4 0 35856990 4 0 35858068 inversion 1069 10 0 0 0 26_samples:0 35856723 35856975 253 54 35857789 35858044 256 51 ARAP2 IGR: 211Kb before ARAP2(-) ARAP2 IGR: 210Kb before ARAP2(-) - 0 0 0 0 1 0 1 0 5.969945e-02 -1.475921e-01 1 10 1 10 1 35856975 35858044 1 35856990 15 35858068 24 9 1 0 2 64 0 20 1 -1 -35856976 -1 -35858045 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 779 4 1 150650513 4 0 161026322 long_range 10375694 10 0 0 0 26_samples:0 150650517 150650771 255 62 161025989 161026211 223 42 DCLK2 IGR: 350Kb before DCLK2(+) RAPGEF2 IGR: 837Kb before RAPGEF2(+) - 3.000000e-02 3.000000e-02 0 0 3 2 4 1 6.124769e-01 -7.694668e-01 1 10 1 10 1 150650517 161026211 1 150650513 -4 161026322 111 4 8.171793e-01 1 0 73 0 9 1 150650527 10 161026412 201 2 8.222811e-01 1 1 71 1 A 13 1 6.923077e-01 LUSC-66-2766 781 5 0 24068522 5 1 24069860 deletion 1354 10 0 0 0 26_samples:0 24068301 24068515 215 41 24069869 24070094 226 45 CDH10 IGR: 419Kb before CDH10(-) CDH10 IGR: 417Kb before CDH10(-) - 0 0 0 2.000000e-02 1 1 1 0 -8.385639e-01 -5.621752e-01 1 10 1 10 1 24068515 24069869 1 24068522 7 24069860 -9 11 8.204933e-01 0 0 69 1 G 27 1 -1 -24068516 -1 -24069870 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 782 5 0 78429128 5 1 78432668 deletion 3542 10 0 0 0 26_samples:0 78428839 78429137 299 64 78432679 78432899 221 43 BHMT IGR: 1Kb after BHMT(+) BHMT IGR: 5Kb after BHMT(+) - 0 0 0 0 2 1 0 1 7.506713e-01 -7.003696e-01 1 10 1 10 1 78429137 78432679 1 78429128 -9 78432668 -11 6 9.957449e-01 0 1 76 0 10 1 -1 -78429138 -1 -78432680 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 783 5 0 25652748 5 1 25653961 deletion 1253 10 0 0 0 26_samples:0 25652465 25652714 250 41 25653967 25654179 213 43 CDH10 IGR: 1Mb before CDH10(-) CDH10 IGR: 1Mb before CDH10(-) - 1.300000e-01 2.000000e-02 9.000000e-02 7.000000e-02 2 1 4 2 -8.385639e-01 -7.003696e-01 1 10 1 10 1 25652714 25653967 1 25652748 34 25653961 -6 8 9.904929e-01 0 1 79 0 15 1 -1 -25652715 -1 -25653968 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 785 5 0 121451003 17 1 38836588 inter_chr NaN 10 0 0 0 26_samples:0 121450686 121450993 308 61 38836591 38836834 244 49 ZNF474 IGR: 14Kb before ZNF474(+) KRT24 IGR: 18Kb before KRT24(-) - 0 0 0 0 1 1 1 1 5.433797e-01 -2.857865e-01 1 10 1 10 1 121450993 38836591 1 121451003 10 38836588 -3 14 9.973325e-01 0 1 73 0 19 1 -1 -121450994 -1 -38836592 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 790 7 1 25417233 7 0 25433246 tandem_dup 16005 10 0 0 0 26_samples:0 25417235 25417459 225 47 25432985 25433240 256 57 NPVF IGR: 153Kb before NPVF(-) NPVF IGR: 169Kb before NPVF(-) - 0 0 0 0 1 0 2 1 -4.239808e-01 2.669910e-01 1 10 1 10 1 25417235 25433240 1 25417233 -2 25433246 6 18 9.832820e-01 1 0 66 1 A 21 1 25417028 -207 25433370 130 3 7.998369e-01 1 7 81 0 15 1 1.400000e+00 LUSC-66-2766 793 7 0 30394243 22 1 29065498 inter_chr NaN 10 0 0 0 26_samples:0 30393951 30394222 272 64 29065495 29065770 276 61 ZNRF2 Intron of ZNRF2(+): 1Kb before exon 3 TTC28 Intron of TTC28(-): 10Kb after exon 1 Antisense fusion 0 0 0 0 1 1 3 2 7.506713e-01 5.433797e-01 1 10 1 10 1 30394222 29065495 1 30394243 21 29065498 3 6 9.876907e-01 0 3 66 0 11 1 -1 -30394223 -1 -29065496 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 795 10 0 55648682 10 1 55651589 deletion 2907 10 0 0 0 26_samples:0 55648435 55648682 248 45 55651589 55651859 271 57 PCDH15 Intron of PCDH15(-): 14Kb after exon 27 PCDH15 Intron of PCDH15(-): 11Kb after exon 27 Deletion within intron 2.500000e-01 0 1.200000e-01 7.000000e-02 2 0 2 3 -5.621752e-01 2.669910e-01 1 10 1 10 1 55648682 55651589 1 55648700 18 55651577 -12 1 9.960014e-01 0 2 66 0 6 1 55648884 202 55651549 -40 3 8.067524e-01 0 1 72 0 9 0 6.666667e-01 LUSC-66-2766 796 11 0 14665036 11 1 14667789 deletion 2767 10 0 0 0 26_samples:0 14664787 14665025 239 43 14667792 14668091 300 60 PSMA1 5'-UTR of PSMA1(-): 32Kb before coding start PDE3B Intron of PDE3B(+): 1Kb after exon 1 - 0 0 0 0 0 1 2 1 -7.003696e-01 4.742826e-01 1 10 1 10 1 14665025 14667792 1 14665036 11 14667789 -3 8 9.899573e-01 0 1 68 0 11 1 -1 -14665026 -1 -14667793 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 803 16 0 33411715 16 1 33415315 deletion 3621 10 0 0 0 26_samples:0 33411431 33411710 280 57 33415331 33415596 266 61 TP53TG3 IGR: 150Kb before TP53TG3(+) TP53TG3 IGR: 154Kb before TP53TG3(+) - 3.000000e-02 7.000000e-02 7.000000e-02 1.500000e-01 2 1 1 2 2.669910e-01 5.433797e-01 1 10 1 10 1 33411710 33415331 1 33411715 5 33415315 -16 8 9.861694e-01 0 1 61 0 25 1 -1 -33411711 -1 -33415332 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 805 18 0 416402 18 1 420623 deletion 4249 10 0 0 0 26_samples:0 416159 416375 217 52 420624 420872 249 58 COLEC12 Intron of COLEC12(-): 59Kb before exon 3 COLEC12 Intron of COLEC12(-): 60Kb after exon 2 Deletion within intron 0 0 0 0 1 1 0 0 -7.849492e-02 3.360882e-01 1 10 1 10 1 416375 420624 1 416402 27 420623 -1 7 9.186643e-01 0 0 78 2 CT 14 1 -1 -416376 -1 -420625 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 807 21 0 41866671 21 1 41869878 deletion 3212 10 0 0 0 26_samples:0 41866395 41866676 282 61 41869888 41870174 287 60 DSCAM Intron of DSCAM(-): 126Kb before exon 4 DSCAM Intron of DSCAM(-): 129Kb before exon 4 Deletion within intron 0 0 0 0 1 0 1 2 5.433797e-01 4.742826e-01 1 10 1 10 1 41866676 41869888 1 41866671 -5 41869878 -10 12 9.622898e-01 0 2 76 3 TTT 20 1 -1 -41866677 -1 -41869889 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 809 23 1 11208359 23 0 11216440 tandem_dup 8088 10 0 0 0 26_samples:0 11208353 11208551 199 40 11216157 11216441 285 63 ARHGAP6 Intron of ARHGAP6(-): 1Kb before exon 4 ARHGAP6 Intron of ARHGAP6(-): 1Kb before exon 3 Duplication of 1 exon: in frame 0 0 0 0 1 0 1 0 -9.076611e-01 6.815741e-01 1 10 1 10 1 11208353 11216441 1 11208359 6 11216440 -1 5 9.366475e-01 1 2 84 35 AGTATTTACATAATTTCCCCAATGTATTTACAGTA 27 1 11208149 -204 11216383 -58 1 8.647135e-01 1 4 85 0 8 1 3.375000e+00 LUSC-66-2766 769 3 1 171939191 3 0 171951134 tandem_dup 11888 10 0 0 0 26_samples:0 171939225 171939439 215 47 171950843 171951113 271 70 FNDC3B Intron of FNDC3B(+): 5Kb before exon 4 FNDC3B Intron of FNDC3B(+): 6Kb after exon 4 Duplication of 1 exon: out of frame 0 0 0 0 2 0 2 1 -4.239808e-01 1.165254e+00 9.955073e-01 9.955073e+00 1 9.955073e+00 1 171939225 171951113 1 171939191 -34 171951134 21 4 1 1 4 62 0 22 1 -1 -171939226 -1 -171951114 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 470 7 0 136295880 7 1 136298067 deletion 2221 15 0 0 0 26_samples:0 136295576 136295846 271 68 136298067 136298370 304 75 CHRM2 IGR: 258Kb before CHRM2(+) CHRM2 IGR: 255Kb before CHRM2(+) - 4.000000e-02 2.000000e-02 7.000000e-02 4.000000e-02 6 0 5 1 1.133064e+00 1.681861e+00 6.629787e-01 9.944680e+00 1 9.944680e+00 1 136295846 136298067 1 136295880 34 136298067 0 17 9.909323e-01 0 5 74 0 37 1 -1 -136295847 -1 -136298068 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 683 1 0 92929912 1 1 92933436 deletion 3578 11 0 0 0 26_samples:0 92929674 92929908 235 67 92933486 92933774 289 72 GFI1 IGR: 10Kb before GFI1(-) GFI1 IGR: 7Kb before GFI1(-) - 1.300000e-01 1.800000e-01 0 0 1 1 6 2 9.579628e-01 1.303449e+00 8.647268e-01 9.511994e+00 1 9.511994e+00 1 92929908 92933486 1 92929912 4 92933436 -50 15 9.431294e-01 0 1 55 0 13 1 -1 -92929909 -1 -92933487 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 315 2 0 141661449 2 1 141737901 deletion 76475 18 0 0 0 26_samples:0 141661139 141661421 283 76 141737896 141738220 325 75 LRP1B Intron of LRP1B(-): 687bp before exon 23 LRP1B Intron of LRP1B(-): 2Kb after exon 18 Deletion of 4 exons: in frame 0 0 0 0 2 1 2 1 1.760261e+00 1.681861e+00 5.274942e-01 9.494895e+00 1 9.494895e+00 1 141661421 141737896 1 141661449 28 141737901 5 12 9.750238e-01 0 3 72 0 25 1 141661395 -26 141737695 -201 2 8.421879e-01 0 0 82 8 AGAAAATC 10 1 2.500000e+00 LUSC-66-2766 439 16 0 49686410 20 1 60655329 inter_chr NaN 16 0 0 0 26_samples:0 49686142 49686419 278 61 60655330 60655646 317 67 ZNF423 Intron of ZNF423(-): 14Kb before exon 5 LSM14B IGR: 42Kb before LSM14B(+) - 0 0 2.900000e-01 4.500000e-01 2 0 5 1 5.842664e-01 1.054664e+00 5.852937e-01 9.364699e+00 1 9.364699e+00 1 49686419 60655330 1 49686410 -9 60655329 -1 13 9.833137e-01 0 3 73 0 21 1 -1 -49686420 -1 -60655331 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 285 6 0 82485763 6 1 82490083 deletion 4331 19 0 0 0 26_samples:0 82485489 82485760 272 54 82490091 82490361 271 76 FAM46A IGR: 30Kb before FAM46A(-) FAM46A IGR: 35Kb before FAM46A(-) - 0 0 1.300000e-01 4.100000e-01 2 0 1 3 3.546914e-02 1.760261e+00 4.928495e-01 9.364140e+00 1 9.364140e+00 1 82485760 82490091 1 82485763 3 82490083 -8 20 9.709944e-01 0 1 78 0 31 1 82485969 209 82490026 -65 4 8.359223e-01 0 15 104 0 27 1 1.148148e+00 LUSC-66-2766 483 12 0 80132955 12 1 80134926 deletion 2001 15 0 0 0 26_samples:0 80132702 80132943 242 47 80134944 80135192 249 77 PPP1R12A IGR: 34Kb before PPP1R12A(-) PPP1R12A IGR: 32Kb before PPP1R12A(-) - 0 0 1.700000e-01 8.000000e-02 5 1 4 0 -5.133281e-01 1.838660e+00 6.193047e-01 9.289571e+00 1 9.289571e+00 1 80132943 80134944 1 80132955 12 80134926 -18 19 9.874123e-01 0 3 70 0 22 1 -1 -80132944 -1 -80134945 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 558 3 0 118025292 3 1 118026250 deletion 950 13 0 0 0 26_samples:0 118024984 118025291 308 68 118026241 118026541 301 77 IGSF11 IGR: 594Kb before IGSF11(-) IGSF11 IGR: 593Kb before IGSF11(-) - 0 0 0 0 1 1 1 0 1.080167e+00 1.742810e+00 7.089259e-01 9.216037e+00 1 9.216037e+00 1 118025291 118026241 1 118025292 1 118026250 9 6 9.017082e-01 0 4 70 0 16 1 118025493 202 118026126 -115 1 7.539779e-01 0 1 78 0 10 1 1.600000e+00 LUSC-66-2766 798 11 1 78212837 11 0 78223893 tandem_dup 11051 10 0 0 0 26_samples:0 78212837 78213109 273 74 78223649 78223888 240 58 NARS2 Intron of NARS2(-): 9Kb before exon 7 NARS2 Intron of NARS2(-): 16Kb after exon 6 Duplication within intron 0 0 0 0 2 1 1 1 1.441643e+00 3.360882e-01 9.206900e-01 9.206900e+00 1 9.206900e+00 1 78212837 78223888 1 78212837 0 78223893 5 6 9.592224e-01 1 0 72 19 TAAGATACATAAGATATTG 26 1 -1 -78212838 -1 -78223889 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 723 12 1 6369484 12 0 6397138 tandem_dup 27617 11 0 0 0 26_samples:0 6369501 6369818 318 76 6396845 6397118 274 59 PLEKHG6 IGR: 50Kb before PLEKHG6(+) PLEKHG6 IGR: 22Kb before PLEKHG6(+) - 0 0 0 6.000000e-02 3 1 2 0 1.579837e+00 4.051854e-01 8.368565e-01 9.205421e+00 1 9.205421e+00 1 6369501 6397118 1 6369484 -17 6397138 20 14 8.034096e-01 1 0 78 0 31 1 -1 -6369502 -1 -6397119 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 810 1 0 87441049 1 1 87442400 deletion 1382 9 0 0 0 26_samples:0 87440799 87441050 252 49 87442432 87442650 219 43 HS2ST1 Intron of HS2ST1(+): 60Kb after exon 1 HS2ST1 Intron of HS2ST1(+): 62Kb after exon 1 Deletion within intron 0 0 0 0 0 0 0 1 -2.412652e-01 -6.266899e-01 1 9 1 9 1 87441050 87442432 1 87441049 -1 87442400 -32 8 9.755685e-01 0 0 76 2 GC 15 1 -1 -87441051 -1 -87442433 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 813 1 1 201655510 1 0 201692292 tandem_dup 36735 9 0 0 0 26_samples:0 201655542 201655799 258 46 201692060 201692277 218 49 NAV1 Intron of NAV1(+): 26Kb before exon 2 NAV1 Intron of NAV1(+): 4Kb after exon 3 Duplication of 2 exons: out of frame 0 0 5.000000e-02 8.000000e-02 4 1 2 1 -4.339775e-01 -2.412652e-01 1 9 1 9 1 201655542 201692277 1 201655510 -32 201692292 15 6 9.519677e-01 1 0 76 0 17 1 201655656 114 201692481 204 2 7.778255e-01 1 3 79 0 8 1 2.125000e+00 LUSC-66-2766 815 1 0 192823287 8 0 29063560 inter_chr NaN 9 0 0 0 26_samples:0 192823014 192823274 261 48 29063354 29063542 189 30 RGS2 IGR: 45Kb before RGS2(+) KIF13B Intron of KIF13B(-): 10Kb before exon 3 - 0 0 3.000000e-02 0 2 1 2 1 -3.055026e-01 -1.461777e+00 1 9 1 9 1 192823274 29063542 1 192823287 13 29063560 18 9 9.908286e-01 0 0 70 0 16 1 -1 -192823275 -1 -29063543 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 816 2 1 46567342 2 0 46579120 tandem_dup 11718 9 0 0 0 26_samples:0 46567343 46567615 273 66 46578851 46579061 211 60 EPAS1 Intron of EPAS1(+): 7Kb before exon 2 EPAS1 Intron of EPAS1(+): 4Kb before exon 3 Duplication of 1 exon: out of frame 0 0 0 0 2 1 1 1 8.507715e-01 4.653468e-01 1 9 1 9 1 46567343 46579061 1 46567342 -1 46579120 59 7 9.190341e-01 1 1 74 0 29 1 -1 -46567344 -1 -46579062 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 817 2 0 142000864 2 0 142292793 inversion 291971 9 0 0 0 26_samples:0 142000618 142000829 212 54 142292527 142292800 274 62 LRP1B Intron of LRP1B(-): 4Kb after exon 5 LRP1B Intron of LRP1B(-): 55Kb before exon 3 - 0 0 0 0 1 1 2 0 7.992210e-02 5.938217e-01 1 9 1 9 1 142000829 142292800 1 142000864 35 142292793 -7 2 9.684609e-01 0 0 68 0 6 1 142000685 -144 142293004 204 1 9.504576e-01 0 3 76 0 6 1 1 LUSC-66-2766 818 2 0 217650786 2 1 217654154 deletion 3377 9 0 0 0 26_samples:0 217650526 217650791 266 64 217654168 217654448 281 63 TNP1 IGR: 73Kb before TNP1(-) TNP1 IGR: 70Kb before TNP1(-) - 3.000000e-02 0 0 0 0 0 0 0 7.222966e-01 6.580592e-01 1 9 1 9 1 217650791 217654168 1 217650786 -5 217654154 -14 10 9.948727e-01 0 6 82 0 17 1 -1 -217650792 -1 -217654169 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 819 2 0 104420489 7 1 63345514 inter_chr NaN 9 0 0 0 26_samples:0 104420201 104420474 274 66 63345523 63345754 232 56 LOC150568 IGR: 630Kb before LOC150568(+) ZNF727 IGR: 160Kb before ZNF727(+) - 0 0 6.000000e-02 9.000000e-02 2 1 2 0 8.507715e-01 2.083970e-01 1 9 1 9 1 104420474 63345523 1 104420489 15 63345514 -9 11 9.766077e-01 0 3 61 0 17 1 -1 -104420475 -1 -63345524 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 825 3 1 194368889 3 0 194370586 tandem_dup 1659 9 0 0 0 26_samples:0 194368895 194369143 249 62 194370335 194370554 220 36 LSG1 Intron of LSG1(-): 515bp after exon 11 LSG1 Intron of LSG1(-): 1Kb before exon 11 Duplication of 1 exon: out of frame 0 0 1.000000e-02 9.000000e-02 1 0 1 2 5.938217e-01 -1.076352e+00 1 9 1 9 1 194368895 194370554 1 194368889 -6 194370586 32 6 9.773859e-01 1 1 66 0 37 1 -1 -194368896 -1 -194370555 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 826 3 0 145706481 19 1 4510546 inter_chr NaN 9 0 0 0 26_samples:0 145706367 145706485 119 10 4510634 4510816 183 35 PLOD2 IGR: 81Kb before PLOD2(-) PLIN4 Exon 3 of PLIN4(-) - 0 0 0 0 3 0 1 0 -2.746526e+00 -1.140590e+00 1 9 1 9 1 145706485 4510634 1 145706481 -4 4510546 -88 13 9.599686e-01 0 1 70 0 24 1 -1 -145706486 -1 -4510635 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 827 3 1 145618958 21 1 10977777 inter_chr NaN 9 0 0 0 26_samples:0 145618977 145619232 256 50 10977784 10978039 256 66 PLOD2 IGR: 168Kb before PLOD2(-) TPTE 5'-UTR of TPTE(-): 4Kb before coding start - 0 0 0 5.000000e-02 3 0 1 2 -1.770277e-01 8.507715e-01 1 9 1 9 1 145618977 10977784 1 145618958 -19 10977777 -7 11 9.722495e-01 1 1 75 0 15 1 -1 -145618978 -1 -10977785 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 829 4 1 107273864 4 0 107283049 tandem_dup 9183 9 0 0 0 26_samples:0 107273866 107274116 251 47 107282837 107283049 213 41 AIMP1 IGR: 3Kb after AIMP1(+) AIMP1 IGR: 45Kb before AIMP1(+) - 0 0 0 0 0 0 1 1 -3.697401e-01 -7.551648e-01 1 9 1 9 1 107273866 107283049 1 107273864 -2 107283049 0 2 8.935730e-01 1 0 75 46 AAGATATATGTTATCAATATATCAAGATATATATCAAGATAGATAA 22 1 -1 -107273867 -1 -107283050 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 832 5 0 134737640 5 1 134748433 deletion 10831 9 0 0 0 26_samples:0 134737343 134737610 268 61 134748441 134748647 207 42 H2AFY Promoter of H2AFY(-): 2Kb from tx start C5orf20 IGR: 31Kb before C5orf20(-) - 0 0 0 0 3 1 3 2 5.295843e-01 -6.909273e-01 1 9 1 9 1 134737610 134748441 1 134737640 30 134748433 -8 13 9.834567e-01 0 6 74 0 19 1 -1 -134737611 -1 -134748442 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 833 5 0 141386645 5 1 141390225 deletion 3650 9 0 0 0 26_samples:0 141386420 141386638 219 51 141390288 141390535 248 48 GNPDA1 Intron of GNPDA1(-): 726bp after exon 3 GNPDA1 Intron of GNPDA1(-): 1Kb after exon 2 Deletion of 1 exon: in frame 0 0 7.000000e-02 5.000000e-02 0 0 1 1 -1.127903e-01 -3.055026e-01 1 9 1 9 1 141386638 141390288 1 141386645 7 141390225 -63 4 9.423683e-01 0 3 76 0 18 1 141386821 183 141390077 -211 1 7.782761e-01 0 10 65 0 12 1 1.500000e+00 LUSC-66-2766 834 5 0 149981118 5 1 149987676 deletion 6588 9 0 0 0 26_samples:0 149980867 149981083 217 46 149987671 149987897 227 44 SYNPO 5'-UTR of SYNPO(+): 17Kb before coding start SYNPO 5'-UTR of SYNPO(+): 10Kb before coding start Deletion within transcript 0 0 0 0 1 1 0 0 -4.339775e-01 -5.624524e-01 1 9 1 9 1 149981083 149987671 1 149981118 35 149987676 5 6 9.189704e-01 0 1 75 14 ACTAGGGACTTAGT 22 1 -1 -149981084 -1 -149987672 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 835 5 1 166246946 5 0 166252935 tandem_dup 5954 9 0 0 0 26_samples:0 166246946 166247169 224 41 166252633 166252900 268 53 ODZ2 IGR: 465Kb before ODZ2(+) ODZ2 IGR: 459Kb before ODZ2(+) - 0 0 0 0 0 0 1 0 -7.551648e-01 1.568464e-02 1 9 1 9 1 166246946 166252900 1 166246946 0 166252935 35 6 9.920649e-01 1 0 78 0 11 1 -1 -166246947 -1 -166252901 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 837 6 0 31817340 6 0 31835573 inversion 18235 9 0 0 0 26_samples:0 31817040 31817309 270 66 31835332 31835544 213 56 NEU1 IGR: 10Kb before NEU1(-) SLC44A4 Intron of SLC44A4(-): 1Kb after exon 13 - 7.000000e-02 1.100000e-01 4.000000e-02 6.000000e-02 3 2 4 1 8.507715e-01 2.083970e-01 1 9 1 9 1 31817309 31835544 1 31817340 31 31835573 29 7 9.544788e-01 0 3 68 0 29 1 -1 -31817310 -1 -31835545 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 839 6 1 67940667 6 1 67943720 inversion 3046 9 0 0 0 26_samples:0 67940686 67940930 245 59 67943732 67944048 317 66 BAI3 IGR: 1Mb before BAI3(+) BAI3 IGR: 1Mb before BAI3(+) - 0 0 0 0 0 1 1 0 4.011094e-01 8.507715e-01 1 9 1 9 1 67940686 67943732 1 67940667 -19 67943720 -12 18 9.926232e-01 1 2 77 0 21 1 -1 -67940687 -1 -67943733 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 841 6 1 157526238 6 0 157529273 tandem_dup 2984 9 0 0 0 26_samples:0 157526294 157526526 233 39 157529079 157529278 200 42 ARID1B Intron of ARID1B(+): 1Kb before exon 20 ARID1B 3'-UTR of ARID1B(+): 253bp after coding stop - 0 0 0 0 0 1 1 0 -8.836397e-01 -6.909273e-01 1 9 1 9 1 157526294 157529278 1 157526238 -56 157529273 -5 11 9.336384e-01 1 0 69 1 C 19 1 -1 -157526295 -1 -157529279 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 845 7 1 134261767 7 0 134289435 tandem_dup 27620 9 0 0 0 26_samples:0 134261766 134262016 251 49 134289103 134289386 284 66 AKR1B15 Exon 10 of AKR1B15(+) BPGM IGR: 42Kb before BPGM(+) - 2.000000e-02 3.000000e-02 2.000000e-02 9.000000e-02 3 1 3 1 -2.412652e-01 8.507715e-01 1 9 1 9 1 134261766 134289386 1 134261767 1 134289435 49 9 9.871875e-01 1 4 68 0 34 1 -1 -134261767 -1 -134289387 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 848 9 0 87354356 9 1 87360363 deletion 5994 9 0 0 0 26_samples:0 87354073 87354364 292 63 87360358 87360648 291 65 NTRK2 Intron of NTRK2(+): 2Kb before exon 12 NTRK2 Intron of NTRK2(+): 370bp after exon 13 Deletion of 2 exons: out of frame 3.000000e-02 1.800000e-01 0 0 1 0 1 0 6.580592e-01 7.865341e-01 1 9 1 9 1 87354364 87360358 1 87354356 -8 87360363 5 10 9.423615e-01 0 4 65 0 13 1 -1 -87354365 -1 -87360359 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 850 11 1 36273261 11 0 36288906 tandem_dup 15615 9 0 0 0 26_samples:0 36273267 36273494 228 54 36288639 36288882 244 45 COMMD9 IGR: 21Kb before COMMD9(-) COMMD9 IGR: 5Kb before COMMD9(-) - 0 0 0 0 1 0 4 0 7.992210e-02 -4.982150e-01 1 9 1 9 1 36273267 36288882 1 36273261 -6 36288906 24 5 9.559171e-01 1 3 65 0 22 1 -1 -36273268 -1 -36288883 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 852 14 1 26550949 14 0 26553445 tandem_dup 2489 9 0 0 0 26_samples:0 26550947 26551204 258 50 26553132 26553436 305 59 NOVA1 IGR: 364Kb before NOVA1(-) NOVA1 IGR: 362Kb before NOVA1(-) - 0 0 0 0 0 1 0 0 -1.770277e-01 4.011094e-01 1 9 1 9 1 26550947 26553436 1 26550949 2 26553445 9 7 9.362384e-01 1 1 74 0 15 1 -1 -26550948 -1 -26553437 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 856 19 0 2492757 19 1 2494530 deletion 1851 9 0 0 0 26_samples:0 2492475 2492712 238 47 2494563 2494766 204 49 GADD45B IGR: 17Kb before GADD45B(+) GNG7 IGR: 17Kb before GNG7(-) - 3.000000e-02 0 0 0 1 0 0 0 -3.697401e-01 -2.412652e-01 1 9 1 9 1 2492712 2494563 1 2492757 45 2494530 -33 5 9.814674e-01 0 0 76 0 10 1 2492700 -12 2494361 -202 4 8.100525e-01 0 1 82 0 3 1 3.333333e+00 LUSC-66-2766 858 23 1 94048292 23 0 94064645 tandem_dup 16300 9 0 0 0 26_samples:0 94048300 94048499 200 43 94064422 94064600 179 28 FAM133A IGR: 1Mb before FAM133A(+) FAM133A IGR: 1Mb before FAM133A(+) - 4.000000e-02 5.000000e-02 0 0 1 1 1 1 -6.266899e-01 -1.590252e+00 1 9 1 9 1 94048300 94064600 1 94048292 -8 94064645 45 10 9.982595e-01 1 3 66 0 16 1 -1 -94048301 -1 -94064601 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 446 1 0 88117063 1 1 88159550 deletion 42490 15 0 0 0 26_samples:0 88116760 88117063 304 77 88159553 88159855 303 71 LMO4 IGR: 323Kb before LMO4(+) LMO4 IGR: 365Kb before LMO4(+) - 0 0 0 0 2 0 1 1 1.838660e+00 1.368262e+00 5.990625e-01 8.985938e+00 1 8.985938e+00 1 88117063 88159553 1 88117063 0 88159550 -3 7 9.635967e-01 0 4 75 0 16 1 88117266 203 88159554 1 2 8.675651e-01 0 2 78 0 4 1 4 LUSC-66-2766 314 2 0 65730172 2 1 65736514 deletion 6339 18 0 0 0 26_samples:0 65729890 65730173 284 59 65736512 65736798 287 68 SPRED2 IGR: 192Kb before SPRED2(-) SPRED2 IGR: 199Kb before SPRED2(-) - 8.000000e-02 1.400000e-01 8.000000e-02 6.000000e-02 8 1 3 1 4.274672e-01 1.133064e+00 4.988248e-01 8.978846e+00 1 8.978846e+00 1 65730173 65736512 1 65730172 -1 65736514 2 20 9.495691e-01 0 0 79 0 56 1 65730161 -12 65736306 -206 1 8.069020e-01 0 5 85 0 7 1 8 LUSC-66-2766 699 3 1 176875313 3 0 176890354 tandem_dup 15033 11 0 0 0 26_samples:0 176875314 176875626 313 76 176890057 176890347 291 72 TBL1XR1 5'-UTR of TBL1XR1(-): 93Kb before coding start TBL1XR1 5'-UTR of TBL1XR1(-): 108Kb before coding start Duplication within transcript 0 0 1.000000e-02 7.000000e-02 2 2 3 3 1.579837e+00 1.303449e+00 8.141087e-01 8.955196e+00 1 8.955196e+00 1 176875314 176890347 1 176875313 -1 176890354 7 8 9.820602e-01 1 5 69 0 40 1 -1 -176875315 -1 -176890348 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 402 2 0 5259896 2 1 5261300 deletion 1410 16 0 0 0 26_samples:0 5259610 5259897 288 69 5261307 5261597 291 78 SOX11 IGR: 573Kb before SOX11(+) SOX11 IGR: 571Kb before SOX11(+) - 0 0 0 0 1 0 0 1 1.211463e+00 1.917060e+00 5.592858e-01 8.948573e+00 1 8.948573e+00 1 5259897 5261307 1 5259896 -1 5261300 -7 20 9.917554e-01 0 2 75 0 27 1 -1 -5259898 -1 -5261308 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 814 1 1 201987400 1 0 202011647 tandem_dup 24223 9 0 0 0 26_samples:0 201987408 201987687 280 72 202011383 202011631 249 67 ELF3 IGR: 8Kb before ELF3(+) ELF3 IGR: 32Kb before ELF3(+) - 0 0 0 0 1 1 2 1 1.236196e+00 9.150090e-01 9.869943e-01 8.882949e+00 1 8.882949e+00 1 201987408 202011631 1 201987400 -8 202011647 16 6 9.277053e-01 1 1 85 0 23 1 -1 -201987409 -1 -202011632 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 849 10 1 32409976 10 0 32431494 tandem_dup 21510 9 0 0 0 26_samples:0 32409981 32410254 274 72 32431217 32431491 275 66 KIF5B IGR: 112Kb before KIF5B(-) EPC1 IGR: 126Kb before EPC1(-) - 0 0 5.000000e-02 7.000000e-02 3 0 4 1 1.236196e+00 8.507715e-01 9.869943e-01 8.882949e+00 1 8.882949e+00 1 32409981 32431491 1 32409976 -5 32431494 3 19 9.616866e-01 1 2 77 2 GA 24 1 -1 -32409982 -1 -32431492 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 854 18 1 64159190 18 0 64162862 tandem_dup 3636 9 0 0 0 26_samples:0 64159195 64159477 283 72 64162611 64162831 221 51 CDH19 IGR: 12Kb before CDH19(-) CDH19 IGR: 8Kb before CDH19(-) - 0 4.000000e-02 0 0 1 0 1 2 1.236196e+00 -1.127903e-01 9.869943e-01 8.882949e+00 1 8.882949e+00 1 64159195 64162831 1 64159190 -5 64162862 31 13 9.907053e-01 1 3 80 0 21 1 -1 -64159196 -1 -64162832 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 842 7 1 24250273 7 0 24257959 tandem_dup 7596 9 0 0 0 26_samples:0 24250299 24250500 202 52 24257687 24257895 209 56 NPY IGR: 74Kb before NPY(+) NPY IGR: 66Kb before NPY(+) - 0 0 7.000000e-02 0 2 1 5 3 -4.855281e-02 2.083970e-01 9.846154e-01 8.861538e+00 1 8.861538e+00 1 24250299 24257895 1 24250273 -26 24257959 64 8 9.596132e-01 1 5 72 0 17 1 -1 -24250300 -1 -24257896 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 847 8 0 41170912 18 0 34479816 inter_chr NaN 9 0 0 0 26_samples:0 41170633 41170891 259 58 34479586 34479815 230 50 SFRP1 IGR: 4Kb after SFRP1(-) KIAA1328 Intron of KIAA1328(+): 14Kb after exon 5 - 1.300000e-01 1.700000e-01 0 0 5 3 4 0 3.368719e-01 -1.770277e-01 9.846154e-01 8.861538e+00 1 8.861538e+00 1 41170891 34479815 1 41170912 21 34479816 1 4 8.977739e-01 0 0 68 1 T 6 1 -1 -41170892 -1 -34479816 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 855 18 0 38513069 22 0 19250362 inter_chr NaN 9 0 0 0 26_samples:0 38512831 38513072 242 51 19250079 19250341 263 61 KC6 IGR: 547Kb before KC6(-) CLTCL1 Intron of CLTCL1(-): 9Kb before exon 3 - 4.000000e-02 8.000000e-02 3.000000e-02 5.000000e-02 5 2 4 0 -1.127903e-01 5.295843e-01 9.846154e-01 8.861538e+00 1 8.861538e+00 1 38513072 19250341 1 38513069 -3 19250362 21 5 9.914392e-01 0 5 76 0 37 1 -1 -38513073 -1 -19250342 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 799 12 0 50493524 12 1 50503085 deletion 9563 10 0 0 0 26_samples:0 50493276 50493531 256 54 50503094 50503385 292 75 SMARCD1 3'-UTR of SMARCD1(+): 748bp after coding stop GPD1 Intron of GPD1(+): 112bp before exon 8 - 0 0 0 0 2 0 0 1 5.969945e-02 1.510740e+00 8.824338e-01 8.824338e+00 1 8.824338e+00 1 50493531 50503094 1 50493524 -7 50503085 -9 9 9.851370e-01 0 3 68 0 29 1 -1 -50493532 -1 -50503095 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 185 5 0 39794184 7 1 62280831 inter_chr NaN 24 0 0 0 26_samples:0 39793900 39794189 290 54 62280893 62281167 275 48 DAB2 IGR: 422Kb before DAB2(-) LOC643955 IGR: 471Kb before LOC643955(-) - 0 0 3.000000e-02 6.000000e-02 6 2 9 3 1.919707e-02 -4.920968e-01 3.648682e-01 8.756836e+00 1 8.756836e+00 1 39794189 62280893 1 39794184 -5 62280831 -62 2 8.755311e-01 0 0 75 0 13 1 39794186 -3 62280835 -58 1 8.710422e-01 0 0 76 0 4 1 3.250000e+00 LUSC-66-2766 226 17 1 19662905 17 0 19668924 tandem_dup 6014 22 0 0 0 26_samples:0 19662916 19663260 345 79 19668672 19668930 259 53 ULK2 IGR: 11Kb before ULK2(-) ULK2 IGR: 5Kb before ULK2(-) - 0 0 0 0 1 0 1 1 2.149588e+00 -6.601857e-02 3.969449e-01 8.732787e+00 1 8.732787e+00 1 19662916 19668930 1 19662905 -11 19668924 -6 11 9.707971e-01 1 0 72 0 18 1 -1 -19662917 -1 -19668931 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 751 1 0 39366456 1 1 39367844 deletion 1427 10 0 0 0 26_samples:0 39366189 39366442 254 58 39367869 39368112 244 51 RHBDL2 Intron of RHBDL2(-): 5Kb before exon 5 RHBDL2 Intron of RHBDL2(-): 6Kb before exon 5 Deletion within intron 3.000000e-02 1.600000e-01 2.000000e-01 2.900000e-01 6 1 3 2 3.360882e-01 -1.475921e-01 8.667013e-01 8.667013e+00 1 8.667013e+00 1 39366442 39367869 1 39366456 14 39367844 -25 6 9.730049e-01 0 2 67 0 14 1 -1 -39366443 -1 -39367870 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 715 10 1 105438729 10 0 105458442 tandem_dup 19683 11 0 0 0 26_samples:0 105438737 105438971 235 43 105458115 105458420 306 77 SH3PXD2A Intron of SH3PXD2A(-): 10Kb before exon 7 SH3PXD2A Intron of SH3PXD2A(-): 6Kb before exon 6 Duplication of 1 exon: out of frame 0 0 0 0 2 0 1 0 -7.003696e-01 1.648935e+00 7.853751e-01 8.639126e+00 1 8.639126e+00 1 105438737 105458420 1 105438729 -8 105458442 22 6 9.772712e-01 1 3 79 0 13 1 -1 -105438738 -1 -105458421 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 507 3 1 146994827 17 0 73661090 inter_chr NaN 14 0 0 0 26_samples:0 146994824 146995119 296 79 73660814 73661081 268 66 ZIC4 IGR: 109Kb before ZIC4(-) RECQL5 Intron of RECQL5(-): 50bp after exon 3 - 1.000000e-02 0 1.100000e-01 5.000000e-02 4 2 4 4 1.890064e+00 9.329128e-01 5.864683e-01 8.210556e+00 1 8.210556e+00 1 146994824 73661081 1 146994827 3 73661090 9 15 9.720668e-01 1 1 74 0 24 1 -1 -146994825 -1 -73661082 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 609 23 0 88929921 23 1 88931365 deletion 1534 13 0 0 0 26_samples:0 88929661 88929899 239 38 88931433 88931588 156 20 TGIF2LX IGR: 247Kb before TGIF2LX(+) TGIF2LX IGR: 246Kb before TGIF2LX(+) - 2.200000e-01 4.400000e-01 2.700000e-01 2.600000e-01 3 1 2 2 -1.128644e+00 -2.453931e+00 6.288371e-01 8.174882e+00 1 8.174882e+00 1 88929899 88931433 1 88929921 22 88931365 -68 2 9.843423e-01 0 1 78 0 5 1 88930100 201 88931500 67 2 8.651312e-01 0 0 83 41 ACCACATCAGAAGGTCACCAACATCAAAGACTAAAGGTAGG 17 1 2.941176e-01 LUSC-66-2766 828 4 1 949519 4 0 953698 tandem_dup 4182 9 0 0 0 26_samples:0 949520 949823 304 63 953400 953702 303 76 TMEM175 Intron of TMEM175(+): 23bp before exon 10 DGKQ 3'-UTR of DGKQ(-): 706bp after coding stop - 0 0 0 0 1 0 0 0 6.580592e-01 1.493146e+00 8.929132e-01 8.036219e+00 1 8.036219e+00 1 949520 953702 1 949519 -1 953698 -4 11 9.562541e-01 1 3 93 0 15 1 -1 -949521 -1 -953703 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 420 6 0 27675319 6 1 27679456 deletion 4167 16 0 0 0 26_samples:0 27675028 27675324 297 68 27679491 27679808 318 79 HIST1H2BL IGR: 100Kb before HIST1H2BL(-) HIST1H2BL IGR: 96Kb before HIST1H2BL(-) - 0 0 1.400000e-01 1.100000e-01 4 0 1 0 1.133064e+00 1.995459e+00 5.022299e-01 8.035679e+00 1 8.035679e+00 1 27675324 27679491 1 27675319 -5 27679456 -35 19 9.757380e-01 0 0 68 0 27 1 -1 -27675325 -1 -27679492 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 698 3 1 172071710 3 1 172074791 inversion 3100 11 0 0 0 26_samples:0 172071709 172071993 285 52 172074809 172075120 312 78 FNDC3B Intron of FNDC3B(+): 836bp after exon 22 FNDC3B Intron of FNDC3B(+): 4Kb after exon 22 - 1.000000e-02 0 0 0 3 0 1 1 -7.849492e-02 1.718032e+00 7.298229e-01 8.028051e+00 1 8.028051e+00 1 172071709 172074809 1 172071710 1 172074791 -18 18 9.247499e-01 1 4 69 0 29 1 -1 -172071710 -1 -172074810 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 83 7 1 128038020 7 0 128067562 tandem_dup 29535 31 0 0 0 26_samples:0 128038028 128038371 344 76 128067294 128067563 270 64 IMPDH1 Intron of IMPDH1(-): 440bp after exon 9 C7orf68 IGR: 28Kb before C7orf68(+) - 0 0 5.000000e-02 7.000000e-02 8 0 2 2 2.084071e+00 9.465811e-01 2.584989e-01 8.013466e+00 1 8.013466e+00 1 128038028 128067563 1 128038020 -8 128067562 -1 19 9.566576e-01 1 4 77 0 33 1 -1 -128038029 -1 -128067564 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 864 2 0 141461398 2 0 141521298 inversion 59914 8 0 0 0 26_samples:0 141461149 141461385 237 57 141521033 141521299 267 63 LRP1B Intron of LRP1B(-): 1Kb before exon 38 LRP1B Intron of LRP1B(-): 5Kb after exon 35 - 0 0 0 0 2 2 2 0 2.726345e-01 6.580592e-01 1 8 1 8 1 141461385 141521299 1 141461398 13 141521298 -1 7 9.170116e-01 0 1 68 33 TACATGTTTACAATGGATCTTACAATAGTTTTC 30 1 141461294 -91 141521500 201 2 8.209441e-01 0 0 76 1 A 12 1 2.500000e+00 LUSC-66-2766 865 2 1 165806014 2 1 165808429 inversion 2431 8 0 0 0 26_samples:0 165806026 165806226 201 32 165808457 165808659 203 33 SLC38A11 Intron of SLC38A11(-): 3Kb after exon 2 SLC38A11 Intron of SLC38A11(-): 760bp after exon 2 Antisense fusion 0 0 0 0 2 0 0 2 -1.333302e+00 -1.269064e+00 1 8 1 8 1 165806026 165808457 1 165806014 -12 165808429 -28 6 9.897985e-01 1 0 70 0 14 1 -1 -165806027 -1 -165808458 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 870 2 1 122443523 9 1 77761928 inter_chr NaN 8 0 0 0 26_samples:0 122443523 122443780 258 67 77761928 77762116 189 34 MKI67IP IGR: 41Kb before MKI67IP(-) OSTF1 3'-UTR of OSTF1(+): 271bp after coding stop - 1.000000e-02 1.000000e-02 2.000000e-02 0 2 1 3 1 9.150090e-01 -1.204827e+00 1 8 1 8 1 122443523 77761928 1 122443511 -12 77761940 12 1 8.089690e-01 1 0 64 0 3 1 -1 -122443524 -1 -77761929 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2766 871 3 0 191327106 3 1 191331902 deletion 4826 8 0 0 0 26_samples:0 191326863 191327115 253 48 191331941 191332141 201 30 PYDC2 IGR: 148Kb before PYDC2(+) PYDC2 IGR: 153Kb before PYDC2(+) - 0 0 1.000000e-02 2.000000e-02 1 0 0 2 -3.055026e-01 -1.461777e+00 1 8 1 8 1 191327115 191331941 1 191327106 -9 191331902 -39 7 9.702979e-01 0 2 68 0 10 1 191327320 205 191331758 -183 1 8.078976e-01 0 4 82 0 10 1 1 LUSC-66-2766 874 5 0 24221523 5 1 24225238 deletion 3765 8 0 0 0 26_samples:0 24221230 24221485 256 54 24225250 24225493 244 54 CDH10 IGR: 266Kb before CDH10(-) CDH10 IGR: 262Kb before CDH10(-) - 1.000000e-02 0 0 0 0 1 0 1 7.992210e-02 7.992210e-02 1 8 1 8 1 24221485 24225250 1 24221523 38 24225238 -12 7 9.569898e-01 0 1 75 0 14 1 24221662 177 24225048 -202 1 8.712109e-01 0 1 84 0 9 1 1.555556e+00 LUSC-66-2766 875 5 1 115120637 5 0 115129241 tandem_dup 8511 8 0 0 0 26_samples:0 115120712 115120969 258 50 115129061 115129223 163 33 CDO1 IGR: 20Kb before CDO1(-) CDO1 IGR: 11Kb before CDO1(-) - 0 0 5.000000e-02 8.000000e-02 1 0 0 2 -1.770277e-01 -1.269064e+00 1 8 1 8 1 115120712 115129223 1 115120637 -75 115129241 18 10 9.806858e-01 1 2 76 0 11 1 -1 -115120713 -1 -115129224 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 876 5 1 149946343 5 1 149951382 inversion 4991 8 0 0 0 26_samples:0 149946408 149946633 226 42 149951399 149951617 219 55 SYNPO IGR: 34Kb before SYNPO(+) SYNPO IGR: 29Kb before SYNPO(+) - 0 0 0 0 0 0 0 1 -6.909273e-01 1.441596e-01 1 8 1 8 1 149946408 149951399 1 149946343 -65 149951382 -17 13 9.839693e-01 1 1 66 0 21 1 -1 -149946409 -1 -149951400 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 877 5 1 150997048 5 0 151017770 tandem_dup 20643 8 0 0 0 26_samples:0 150997045 150997258 214 48 151017451 151017688 238 62 SPARC IGR: 44Kb before SPARC(-) SPARC IGR: 23Kb before SPARC(-) - 0 0 0 0 1 1 1 0 -3.055026e-01 5.938217e-01 1 8 1 8 1 150997045 151017688 1 150997048 3 151017770 82 6 9.904727e-01 1 3 74 0 20 1 -1 -150997046 -1 -151017689 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 879 6 0 49832536 6 1 49834340 deletion 1804 8 0 0 0 26_samples:0 49832325 49832536 212 37 49834340 49834574 235 52 CRISP1 5'-UTR of CRISP1(-): 7Kb before coding start CRISP1 Promoter of CRISP1(-): 122bp from tx start Deletion within transcript 0 0 0 0 1 1 4 1 -1.012115e+00 -4.855281e-02 1 8 1 8 1 49832536 49834340 1 -1 -49832537 -1 -49834341 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -49832537 -1 -49834341 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2766 883 7 0 31964253 7 1 31966279 deletion 2094 8 0 0 0 26_samples:0 31963954 31964190 237 55 31966284 31966492 209 38 PDE1C Intron of PDE1C(-): 44Kb before exon 4 PDE1C Intron of PDE1C(-): 46Kb before exon 4 Deletion within intron 0 0 3.000000e-02 1.000000e-01 0 1 0 1 1.441596e-01 -9.478772e-01 1 8 1 8 1 31964190 31966284 1 31964253 63 31966279 -5 10 9.229052e-01 0 1 60 18 GTGCACTTTTGGGAAGTG 14 1 -1 -31964191 -1 -31966285 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 889 10 1 16880588 10 0 16887241 tandem_dup 6625 8 0 0 0 26_samples:0 16880593 16880841 249 61 16886991 16887218 228 41 CUBN Intron of CUBN(-): 2Kb after exon 62 CUBN Intron of CUBN(-): 4Kb before exon 61 Duplication of 2 exons: in frame 2.000000e-02 3.000000e-02 0 0 0 1 0 0 5.295843e-01 -7.551648e-01 1 8 1 8 1 16880593 16887218 1 16880588 -5 16887241 23 10 9.741077e-01 1 2 79 0 16 1 -1 -16880594 -1 -16887219 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 890 10 0 85329415 10 1 85435439 deletion 106029 8 0 0 0 26_samples:0 85329134 85329419 286 62 85435448 85435677 230 57 GHITM IGR: 570Kb before GHITM(+) GHITM IGR: 464Kb before GHITM(+) - 0 0 0 0 2 1 1 0 5.938217e-01 2.726345e-01 1 8 1 8 1 85329419 85435448 1 85329415 -4 85435439 -9 16 9.967750e-01 0 2 71 0 23 1 85329344 -75 85435243 -205 8 8.519793e-01 0 4 82 0 8 1 2.875000e+00 LUSC-66-2766 891 10 1 108831670 10 0 108835892 tandem_dup 4213 8 0 0 0 26_samples:0 108831679 108831959 281 58 108835605 108835892 288 65 SORCS1 Intron of SORCS1(-): 92Kb after exon 1 SORCS1 Intron of SORCS1(-): 88Kb after exon 1 Duplication within intron 0 0 0 0 1 1 1 0 3.368719e-01 7.865341e-01 1 8 1 8 1 108831679 108835892 1 108831670 -9 108835892 0 7 9.936456e-01 1 7 63 0 17 1 -1 -108831680 -1 -108835893 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 893 11 1 133211594 11 0 133227473 tandem_dup 15829 8 0 0 0 26_samples:0 133211649 133211926 278 67 133227254 133227478 225 56 OPCML Intron of OPCML(-): 191Kb after exon 1 OPCML Intron of OPCML(-): 175Kb after exon 1 Duplication within intron 5.000000e-02 8.000000e-02 0 0 2 1 1 1 9.150090e-01 2.083970e-01 1 8 1 8 1 133211649 133227478 1 133211594 -55 133227473 -5 11 9.716676e-01 1 1 74 0 20 1 -1 -133211650 -1 -133227479 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 894 11 1 12884183 11 0 12896156 tandem_dup 11895 8 0 0 0 26_samples:0 12884232 12884461 230 41 12895931 12896127 197 44 TEAD1 Intron of TEAD1(+): 371bp after exon 4 TEAD1 Intron of TEAD1(+): 5Kb before exon 6 Duplication of 1 exon: in frame 0 0 0 0 3 1 2 2 -7.551648e-01 -5.624524e-01 1 8 1 8 1 12884232 12896127 1 12884183 -49 12896156 29 6 8.860137e-01 1 0 71 12 TATGAATGTATA 35 1 12884218 -14 12896330 203 3 8.431307e-01 1 4 71 0 14 1 2.500000e+00 LUSC-66-2766 897 13 1 73444052 13 0 73455854 tandem_dup 11775 8 0 0 0 26_samples:0 73444051 73444293 243 44 73455589 73455826 238 43 PIBF1 Intron of PIBF1(+): 16Kb after exon 10 PIBF1 Intron of PIBF1(+): 12Kb before exon 11 Duplication within intron 0 0 3.000000e-02 6.000000e-02 4 0 3 1 -5.624524e-01 -6.266899e-01 1 8 1 8 1 73444051 73455826 1 73444052 1 73455854 28 10 9.398331e-01 1 0 66 29 CTCTGTCAAATTACTACAAAAGAATTATG 29 1 -1 -73444052 -1 -73455827 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 900 15 0 63763252 15 1 63764917 deletion 1665 8 0 0 0 26_samples:0 63763001 63763252 252 54 63764917 63765126 210 46 USP3 IGR: 34Kb before USP3(+) USP3 IGR: 32Kb before USP3(+) - 6.000000e-02 2.200000e-01 6.000000e-02 8.000000e-02 1 1 2 0 7.992210e-02 -4.339775e-01 1 8 1 8 1 63763252 63764917 1 63763317 65 63764914 -3 1 9.570182e-01 0 15 125 0 31 1 -1 -63763253 -1 -63764918 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2766 903 17 0 57943770 23 1 142804946 inter_chr NaN 8 0 0 0 26_samples:0 57943511 57943762 252 51 142804984 142805249 266 60 TUBD1 Intron of TUBD1(-): 208bp after exon 7 SPANXN2 Promoter of SPANXN2(-): 468bp from tx start Transcript fusion (SPANXN2-TUBD1) 1.000000e-02 0 0 0 4 1 2 0 -1.127903e-01 4.653468e-01 1 8 1 8 1 57943762 142804984 1 57943770 8 142804946 -38 15 9.833690e-01 0 0 72 0 25 1 -1 -57943763 -1 -142804985 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 904 18 0 64674436 18 1 64677252 deletion 2821 8 0 0 0 26_samples:0 64674228 64674430 203 38 64677251 64677487 237 41 DSEL IGR: 499Kb before DSEL(-) DSEL IGR: 497Kb before DSEL(-) - 0 0 0 0 0 0 0 0 -9.478772e-01 -7.551648e-01 1 8 1 8 1 64674430 64677251 1 64674436 6 64677252 1 4 8.651837e-01 0 2 67 0 8 1 -1 -64674431 -1 -64677252 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 905 18 1 35301390 22 1 19037046 inter_chr NaN 8 0 0 0 26_samples:0 35301390 35301622 233 57 19037107 19037337 231 58 CELF4 IGR: 478Kb before CELF4(-) DGCR2 Intron of DGCR2(-): 951bp before exon 7 - 0 0 2.000000e-02 3.000000e-02 4 1 3 1 2.726345e-01 3.368719e-01 1 8 1 8 1 35301390 19037107 1 35301390 0 19037046 -61 6 9.513014e-01 1 1 68 0 20 1 -1 -35301391 -1 -19037108 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 908 20 0 49347849 20 1 49350772 deletion 2923 8 0 0 0 26_samples:0 49347617 49347849 233 64 49350772 49351029 258 64 PARD6B Promoter of PARD6B(+): 232bp from tx start PARD6B Intron of PARD6B(+): 2Kb after exon 1 Deletion within transcript 0 0 8.000000e-02 0 0 0 1 1 7.222966e-01 7.222966e-01 1 8 1 8 1 49347849 49350772 1 49347868 19 49350743 -29 1 9.811121e-01 0 2 67 0 5 1 -1 -49347850 -1 -49350773 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2766 862 2 1 80335622 2 0 80338953 tandem_dup 3306 8 0 0 0 26_samples:0 80335619 80335834 216 51 80338645 80338925 281 70 CTNNA2 Intron of CTNNA2(+): 199Kb after exon 7 CTNNA2 Intron of CTNNA2(+): 202Kb after exon 7 Duplication within intron 0 0 0 2.000000e-02 2 1 2 0 -1.127903e-01 1.107721e+00 9.987516e-01 7.990013e+00 1 7.990013e+00 1 80335619 80338925 1 80335622 3 80338953 28 12 9.687344e-01 1 2 77 0 19 1 -1 -80335620 -1 -80338926 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 892 11 0 39206452 11 1 39235324 deletion 28922 8 0 0 0 26_samples:0 39206231 39206451 221 50 39235373 39235609 237 70 LRRC4C IGR: 929Kb before LRRC4C(-) LRRC4C IGR: 900Kb before LRRC4C(-) - 0 0 1.000000e-01 4.000000e-02 2 1 3 0 -1.770277e-01 1.107721e+00 9.987516e-01 7.990013e+00 1 7.990013e+00 1 39206451 39235373 1 39206452 1 39235324 -49 9 9.871670e-01 0 5 71 0 17 1 -1 -39206452 -1 -39235374 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 859 1 0 233671251 1 1 233672608 deletion 1395 8 0 0 0 26_samples:0 233670993 233671226 234 71 233672621 233672918 298 67 KCNK1 IGR: 79Kb before KCNK1(+) KCNK1 IGR: 77Kb before KCNK1(+) - 8.000000e-02 8.000000e-02 0 0 0 2 0 0 1.171959e+00 9.150090e-01 9.949409e-01 7.959527e+00 1 7.959527e+00 1 233671226 233672621 1 233671251 25 233672608 -13 7 9.432941e-01 0 0 68 6 ATCTGA 17 1 233671231 5 233672549 -72 1 7.675597e-01 0 1 71 1 T 5 1 3.400000e+00 LUSC-66-2766 901 17 1 402522 17 0 413673 tandem_dup 11098 8 0 0 0 26_samples:0 402580 402786 207 41 413480 413678 199 42 VPS53 IGR: 12Kb before VPS53(-) VPS53 IGR: 1Kb before VPS53(-) - 0 0 1.900000e-01 2.700000e-01 2 0 2 1 -7.551648e-01 -6.909273e-01 9.936407e-01 7.949126e+00 1 7.949126e+00 1 402580 413678 1 402522 -58 413673 -5 3 9.364156e-01 1 4 79 0 43 1 -1 -402581 -1 -413679 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 806 19 1 31567772 19 0 31574656 tandem_dup 6833 10 0 0 0 26_samples:0 31567784 31568040 257 68 31574378 31574617 240 77 DKFZp566F0947 IGR: 73Kb before DKFZp566F0947(+) DKFZp566F0947 IGR: 66Kb before DKFZp566F0947(+) - 0 0 0 0 1 0 0 0 1.027060e+00 1.648935e+00 7.853595e-01 7.853595e+00 1 7.853595e+00 1 31567784 31574617 1 31567772 -12 31574656 39 5 9.777935e-01 1 1 69 0 18 1 -1 -31567785 -1 -31574618 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 680 23 0 118888016 23 1 118888925 deletion 918 12 0 0 0 26_samples:0 118887775 118888021 247 59 118888939 118889238 300 78 ANKRD58 IGR: 5Kb before ANKRD58(+) ANKRD58 IGR: 4Kb before ANKRD58(+) - 0 0 0 0 1 1 1 1 4.175235e-01 1.816437e+00 6.475792e-01 7.770951e+00 1 7.770951e+00 1 118888021 118888939 1 118888016 -5 118888925 -14 8 9.647386e-01 0 1 68 0 11 1 -1 -118888022 -1 -118888940 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 192 15 1 93303622 15 0 93385987 tandem_dup 82331 24 0 0 0 26_samples:0 93303656 93303934 279 58 93385708 93385987 280 61 CHD2 IGR: 140Kb before CHD2(+) CHD2 IGR: 58Kb before CHD2(+) - 6.000000e-02 1.500000e-01 2.000000e-02 8.000000e-02 8 1 8 1 3.600596e-01 6.157066e-01 3.218972e-01 7.725532e+00 1 7.725532e+00 1 93303656 93385987 1 93303622 -34 93385987 0 4 9.591716e-01 1 0 76 9 GTATATGTT 33 1 -1 -93303657 -1 -93385988 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 722 11 0 120407368 11 1 120408875 deletion 1520 11 0 0 0 26_samples:0 120407064 120407355 292 73 120408875 120409192 318 78 ARHGEF12 IGR: 47Kb after ARHGEF12(+) ARHGEF12 IGR: 48Kb after ARHGEF12(+) - 0 0 0 0 0 0 1 0 1.372546e+00 1.718032e+00 6.939420e-01 7.633362e+00 1 7.633362e+00 1 120407355 120408875 1 120407368 13 120408875 0 15 9.578973e-01 0 2 73 0 19 1 -1 -120407356 -1 -120408876 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 493 22 0 39739684 22 1 39740950 deletion 1264 15 0 0 0 26_samples:0 39739394 39739686 293 66 39740950 39741268 319 79 SYNGR1 IGR: 6Kb before SYNGR1(+) SYNGR1 IGR: 5Kb before SYNGR1(+) - 0 3.000000e-02 4.000000e-02 8.000000e-02 2 1 1 2 9.762644e-01 1.995459e+00 5.034132e-01 7.551198e+00 1 7.551198e+00 1 39739686 39740950 1 39739684 -2 39740950 0 7 9.554167e-01 0 5 82 0 20 1 -1 -39739687 -1 -39740951 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 230 3 1 189621887 3 0 189640258 tandem_dup 18367 21 0 0 0 26_samples:0 189621893 189622204 312 66 189639990 189640260 271 58 TP63 IGR: 7Kb after TP63(+) LEPREL1 IGR: 34Kb before LEPREL1(-) - 0 0 0 0 6 2 9 0 1.041785e+00 3.600596e-01 3.563780e-01 7.483939e+00 1 7.483939e+00 1 189621893 189640260 1 189621887 -6 189640258 -2 16 9.861694e-01 1 1 75 0 122 1 -1 -189621894 -1 -189640261 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 857 20 0 309271 20 1 315208 deletion 5941 9 0 0 0 26_samples:0 308991 309278 288 75 315219 315511 293 76 SOX12 3'-UTR of SOX12(+): 2Kb after coding stop SOX12 IGR: 4Kb after SOX12(+) - 0 6.000000e-02 2.000000e-02 3.000000e-02 2 1 1 1 1.428909e+00 1.493146e+00 8.276120e-01 7.448508e+00 1 7.448508e+00 1 309278 315219 1 309271 -7 315208 -11 11 9.469765e-01 0 2 76 0 28 1 -1 -309279 -1 -315220 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 882 7 1 75497464 7 0 75526749 tandem_dup 29262 8 0 0 0 26_samples:0 75497493 75497781 289 60 75526419 75526755 337 75 RHBDD2 IGR: 11Kb before RHBDD2(+) POR IGR: 18Kb before POR(+) - 2.000000e-02 4.000000e-02 0 0 2 0 1 0 4.653468e-01 1.428909e+00 9.268673e-01 7.414938e+00 1 7.414938e+00 1 75497493 75526755 1 75497464 -29 75526749 -6 15 9.921551e-01 1 1 61 0 27 1 75497583 90 75526958 203 9 8.186004e-01 1 3 105 0 29 1 9.310345e-01 LUSC-66-2766 739 19 0 16561333 19 0 16563164 inversion 1831 11 0 0 0 26_samples:0 16561105 16561333 229 58 16562914 16563164 251 79 EPS15L1 Intron of EPS15L1(-): 8Kb before exon 2 EPS15L1 Intron of EPS15L1(-): 10Kb before exon 2 - 6.000000e-02 5.000000e-02 5.000000e-02 1.100000e-01 1 2 3 1 3.360882e-01 1.787129e+00 6.721861e-01 7.394047e+00 1 7.394047e+00 1 16561333 16563164 1 16561535 202 16563051 -113 9 8.959992e-01 0 19 123 0 73 1 16561535 202 16563051 -113 9 8.920642e-01 0 19 123 0 33 0 2.212121e+00 LUSC-66-2766 709 7 0 29221076 7 1 29223172 deletion 2093 11 0 0 0 26_samples:0 29220790 29221080 291 71 29223173 29223467 295 79 CHN2 IGR: 13Kb before CHN2(+) CHN2 IGR: 11Kb before CHN2(+) - 0 0 1.400000e-01 1.100000e-01 1 0 1 1 1.234352e+00 1.787129e+00 6.636445e-01 7.300090e+00 1 7.300090e+00 1 29221080 29223173 1 29221076 -4 29223172 -1 8 9.902361e-01 0 3 67 0 14 1 -1 -29221081 -1 -29223174 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 332 10 0 55008686 10 1 55022665 deletion 13979 18 0 0 0 26_samples:0 55008375 55008684 310 69 55022663 55022998 336 81 MBL2 IGR: 484Kb before MBL2(-) MBL2 IGR: 498Kb before MBL2(-) - 0 0 0 0 2 1 1 0 1.211463e+00 2.152259e+00 3.915771e-01 7.048388e+00 1 7.048388e+00 1 55008684 55022663 1 55008686 2 55022665 2 13 9.829710e-01 0 4 70 0 22 1 -1 -55008685 -1 -55022664 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 527 10 1 1414505 10 1 5009918 long_range 3595420 14 0 0 0 26_samples:0 1414539 1414714 176 25 5009959 5010144 186 27 ADARB2 Intron of ADARB2(-): 7Kb after exon 2 AKR1C1 Intron of AKR1C1(+): 542bp before exon 4 Protein fusion: out of frame (ADARB2-AKR1C1) 0 0 4.200000e-01 4.000000e-01 4 0 3 0 -2.085796e+00 -1.938542e+00 5.027996e-01 7.039194e+00 1 7.039194e+00 1 1414539 5009959 1 1414505 -34 5009918 -41 17 9.499256e-01 1 1 75 0 30 1 -1 -1414540 -1 -5009960 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 628 2 0 102732204 2 1 102733456 deletion 1251 12 0 0 0 26_samples:0 102731945 102732208 264 58 102733459 102733754 296 79 IL1R1 IGR: 38Kb before IL1R1(+) IL1R1 IGR: 37Kb before IL1R1(+) - 0 0 0 0 1 1 1 0 3.438964e-01 1.890064e+00 5.864683e-01 7.037620e+00 1 7.037620e+00 1 102732208 102733459 1 102732204 -4 102733456 -3 8 9.530982e-01 0 0 74 2 CC 22 1 -1 -102732209 -1 -102733460 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 912 1 1 44960781 1 1 44969802 inversion 9070 7 0 0 0 26_samples:0 44960782 44961010 229 56 44969852 44970074 223 59 RNF220 Intron of RNF220(+): 82Kb after exon 2 RNF220 Intron of RNF220(+): 91Kb after exon 2 - 8.000000e-02 3.000000e-02 0 0 3 0 0 0 2.179208e-01 3.872504e-01 1 7 1 7 1 44960782 44969852 1 44960781 -1 44969802 -50 10 9.406434e-01 1 4 74 0 11 1 44960756 -26 44969646 -206 7 8.706030e-01 1 21 116 0 27 1 4.074074e-01 LUSC-66-2766 913 1 0 229734165 1 1 229819543 deletion 85409 7 0 0 0 26_samples:0 229733890 229734156 267 67 229819565 229819814 250 54 TAF5L Intron of TAF5L(-): 3Kb before exon 5 URB2 IGR: 58Kb before URB2(+) - 0 0 7.000000e-02 9.000000e-02 3 1 3 2 8.387960e-01 1.050344e-01 1 7 1 7 1 229734156 229819565 1 229734165 9 229819543 -22 9 9.941995e-01 0 2 80 0 25 1 -1 -229734157 -1 -229819566 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 917 2 0 70581420 2 1 70584737 deletion 3351 7 0 0 0 26_samples:0 70581212 70581384 173 30 70584735 70584961 227 48 FAM136A IGR: 58Kb before FAM136A(-) FAM136A IGR: 62Kb before FAM136A(-) - 0 0 0 0 1 1 0 0 -1.249602e+00 -2.336248e-01 1 7 1 7 1 70581384 70584735 1 70581420 36 70584737 2 9 9.985472e-01 0 2 75 0 12 1 -1 -70581385 -1 -70584736 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 918 2 0 149977336 2 1 149982605 deletion 5404 7 0 0 0 26_samples:0 149977164 149977316 153 43 149982720 149982935 216 43 LYPD6B 5'-UTR of LYPD6B(+): 10Kb before coding start LYPD6B 5'-UTR of LYPD6B(+): 5Kb before coding start Deletion within transcript 7.000000e-02 1.300000e-01 0 0 0 4 3 1 -5.158408e-01 -5.158408e-01 1 7 1 7 1 149977316 149982720 1 149977336 20 149982605 -115 6 9.007452e-01 0 0 61 0 18 1 -1 -149977317 -1 -149982721 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 919 2 0 185661038 2 1 185662680 deletion 1692 7 0 0 0 26_samples:0 185660816 185661014 199 46 185662706 185662979 274 68 ZNF804A Intron of ZNF804A(+): 70Kb before exon 2 ZNF804A Intron of ZNF804A(+): 68Kb before exon 2 Deletion within intron 2.000000e-02 0 3.000000e-02 6.000000e-02 1 1 0 2 -3.465112e-01 8.952392e-01 1 7 1 7 1 185661014 185662706 1 185661038 24 185662680 -26 11 9.941424e-01 0 1 86 0 29 1 -1 -185661015 -1 -185662707 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 920 2 1 187205970 2 0 187214778 tandem_dup 8753 7 0 0 0 26_samples:0 187206023 187206242 220 41 187214543 187214776 234 48 ZC3H15 IGR: 145Kb before ZC3H15(+) ZC3H15 IGR: 136Kb before ZC3H15(+) - 0 2.000000e-02 0 0 0 2 1 0 -6.287272e-01 -2.336248e-01 1 7 1 7 1 187206023 187214776 1 187205970 -53 187214778 2 10 9.778007e-01 1 0 80 2 TT 19 1 187205822 -201 187214906 130 3 8.419887e-01 1 0 75 1 G 10 1 1.900000e+00 LUSC-66-2766 921 2 1 235144642 2 0 235180401 tandem_dup 35734 7 0 0 0 26_samples:0 235144672 235144935 264 69 235180211 235180406 196 39 SPP2 IGR: 185Kb before SPP2(+) SPP2 IGR: 221Kb before SPP2(+) - 2.000000e-02 2.000000e-02 0 0 3 0 2 1 9.516824e-01 -7.416136e-01 1 7 1 7 1 235144672 235180406 1 235144642 -30 235180401 -5 7 9.907635e-01 1 3 76 0 15 1 -1 -235144673 -1 -235180407 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 922 2 0 228690547 2 1 228691842 deletion 1322 7 0 0 0 26_samples:0 228690307 228690520 214 53 228691842 228692088 247 62 CCL20 IGR: 12Kb before CCL20(+) CCL20 IGR: 13Kb before CCL20(+) - 1.500000e-01 6.000000e-02 0 0 0 0 1 1 4.859121e-02 5.565800e-01 1 7 1 7 1 228690520 228691842 1 228690547 27 228691842 0 4 9.884338e-01 0 3 68 0 10 1 -1 -228690521 -1 -228691843 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 926 3 0 145427735 7 1 48986752 inter_chr NaN 7 0 0 0 26_samples:0 145427518 145427736 219 40 48986766 48986996 231 45 PLOD2 IGR: 359Kb before PLOD2(-) CDC14C IGR: 23Kb before CDC14C(+) - 4.000000e-02 1.600000e-01 8.000000e-02 4.000000e-02 3 2 2 0 -6.851704e-01 -4.029544e-01 1 7 1 7 1 145427736 48986766 1 145427735 -1 48986752 -14 13 9.938822e-01 0 0 78 0 23 1 -1 -145427737 -1 -48986767 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 929 3 1 10190317 11 0 3946460 inter_chr NaN 7 0 0 0 26_samples:0 10190346 10190604 259 65 3946240 3946463 224 49 VHL Intron of VHL(+): 1Kb before exon 3 STIM1 Intron of STIM1(+): 42Kb before exon 2 Protein fusion: in frame (STIM1-VHL) 2.000000e-02 6.000000e-02 2.000000e-02 0 4 1 4 1 7.259096e-01 -1.771816e-01 1 7 1 7 1 10190346 3946463 1 10190317 -29 3946460 -3 10 9.717164e-01 1 0 72 0 18 1 10190140 -206 3946495 32 1 7.842329e-01 1 5 84 0 10 1 1.800000e+00 LUSC-66-2766 930 4 0 36400722 4 1 36404046 deletion 3465 7 0 0 0 26_samples:0 36400442 36400579 138 13 36404044 36404178 135 17 DTHD1 IGR: 53Kb after DTHD1(+) DTHD1 IGR: 57Kb after DTHD1(+) - 0 0 0 3.000000e-02 1 1 0 2 -2.209137e+00 -1.983364e+00 1 7 1 7 1 36400579 36404044 1 36400722 143 36404046 2 14 9.956287e-01 0 2 75 0 22 1 -1 -36400580 -1 -36404045 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 933 6 1 129964234 6 0 129981685 tandem_dup 17420 7 0 0 0 26_samples:0 129964246 129964417 172 27 129981474 129981666 193 34 ARHGAP18 Intron of ARHGAP18(-): 1Kb before exon 2 ARHGAP18 Intron of ARHGAP18(-): 19Kb before exon 2 Duplication within intron 0 5.000000e-02 0 0 2 1 2 0 -1.418932e+00 -1.023830e+00 1 7 1 7 1 129964246 129981666 1 129964234 -12 129981685 19 5 8.841453e-01 1 2 62 13 CACATTTTATATA 10 1 -1 -129964247 -1 -129981667 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 934 6 0 141490125 6 1 141492735 deletion 2631 7 0 0 0 26_samples:0 141489883 141490124 242 49 141492755 141493008 254 55 NMBR IGR: 907Kb before NMBR(-) NMBR IGR: 904Kb before NMBR(-) - 7.000000e-02 5.000000e-02 0 0 0 0 1 0 -1.771816e-01 1.614776e-01 1 7 1 7 1 141490124 141492755 1 141490125 1 141492735 -20 10 9.860730e-01 0 0 73 0 17 1 -1 -141490125 -1 -141492756 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 935 7 0 50808615 7 1 55605402 long_range 4796866 7 0 0 0 26_samples:0 50808315 50808548 234 52 55605414 55605631 218 51 GRB10 5'-UTR of GRB10(-): 66Kb before coding start VOPP1 Intron of VOPP1(-): 17Kb before exon 2 Transcript fusion (VOPP1-GRB10) 0 0 0 0 1 2 1 0 -7.851987e-03 -6.429519e-02 1 7 1 7 1 50808548 55605414 1 50808615 67 55605402 -12 9 9.647310e-01 0 3 67 0 13 1 -1 -50808549 -1 -55605415 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 940 8 0 123501217 8 1 123503459 deletion 2259 7 0 0 0 26_samples:0 123500997 123501209 213 41 123503468 123503730 263 59 ZHX2 IGR: 293Kb before ZHX2(+) ZHX2 IGR: 290Kb before ZHX2(+) - 0 4.000000e-02 0 0 1 0 3 0 -6.287272e-01 3.872504e-01 1 7 1 7 1 123501209 123503468 1 123501217 8 123503459 -9 11 9.737883e-01 0 3 70 0 28 1 -1 -123501210 -1 -123503469 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 944 9 0 5593792 9 0 5597577 inversion 3783 7 0 0 0 26_samples:0 5593552 5593790 239 52 5597377 5597573 197 39 KIAA1432 IGR: 36Kb before KIAA1432(+) KIAA1432 IGR: 32Kb before KIAA1432(+) - 2.000000e-02 0 0 0 2 1 2 1 -7.851987e-03 -7.416136e-01 1 7 1 7 1 5593790 5597573 1 5593792 2 5597577 4 5 8.856936e-01 0 0 72 0 15 1 -1 -5593791 -1 -5597574 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 945 9 1 34148327 9 0 34151524 tandem_dup 3195 7 0 0 0 26_samples:0 34148326 34148570 245 57 34151236 34151521 286 62 UBAP1 IGR: 31Kb before UBAP1(+) UBAP1 IGR: 27Kb before UBAP1(+) - 9.000000e-02 1.700000e-01 2.000000e-02 0 2 2 2 0 2.743640e-01 5.565800e-01 1 7 1 7 1 34148326 34151521 1 34148327 1 34151524 3 9 8.987506e-01 1 0 75 1 A 18 1 -1 -34148327 -1 -34151522 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 947 9 1 83373406 9 0 83377842 tandem_dup 4348 7 0 0 0 26_samples:0 83373405 83373635 231 66 83377587 83377753 167 29 TLE1 IGR: 825Kb before TLE1(-) TLE1 IGR: 821Kb before TLE1(-) - 0 0 0 4.000000e-02 4 2 2 1 7.823528e-01 -1.306046e+00 1 7 1 7 1 83373405 83377753 1 83373406 1 83377842 89 6 9.391583e-01 1 1 68 0 13 1 -1 -83373406 -1 -83377754 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 950 11 0 3808947 11 1 3822040 deletion 13093 7 0 0 0 26_samples:0 3808710 3808947 238 49 3822040 3822214 175 31 NUP98 5'-UTR of NUP98(-): 6Kb before coding start PGAP2 Intron of PGAP2(+): 3Kb after exon 1 - 3.000000e-02 0 3.000000e-02 1.900000e-01 2 0 4 0 -1.771816e-01 -1.193159e+00 1 7 1 7 1 3808947 3822040 1 3809169 222 3821967 -73 13 8.907530e-01 0 22 127 0 40 1 3809169 222 3821967 -73 14 9.299854e-01 0 22 127 0 29 0 1.379310e+00 LUSC-66-2766 951 13 1 104277036 18 1 31777572 inter_chr NaN 7 0 0 0 26_samples:0 104277039 104277194 156 21 31777626 31777823 198 38 SLC10A2 IGR: 581Kb before SLC10A2(-) NOL4 Intron of NOL4(-): 25Kb after exon 1 - 0 0 0 0 2 0 2 1 -1.757591e+00 -7.980568e-01 1 7 1 7 1 104277039 31777626 1 104277036 -3 31777572 -54 5 9.956975e-01 1 4 79 0 13 1 -1 -104277040 -1 -31777627 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 953 17 0 57881518 17 1 57900920 deletion 19402 7 0 0 0 26_samples:0 57881257 57881518 262 55 57900920 57901139 220 45 TMEM49 Intron of TMEM49(+): 5Kb before exon 8 TMEM49 Intron of TMEM49(+): 6Kb after exon 10 Deletion of 3 exons: out of frame 0 0 6.000000e-02 1.700000e-01 3 0 3 3 1.614776e-01 -4.029544e-01 1 7 1 7 1 57881518 57900920 1 57881744 226 57900852 -68 18 8.907027e-01 0 28 110 0 22 1 57881744 226 57900852 -68 7 9.292578e-01 0 28 110 0 13 0 1.692308e+00 LUSC-66-2766 956 18 1 37935897 18 0 38311190 tandem_dup 375170 7 0 0 0 26_samples:0 37935895 37936039 145 22 38310900 38311065 166 29 KC6 IGR: 1Mb before KC6(-) KC6 IGR: 749Kb before KC6(-) - 0 0 0 0 3 1 1 1 -1.701148e+00 -1.306046e+00 1 7 1 7 1 37935895 38311065 1 37935897 2 38311190 125 6 9.886144e-01 1 3 77 0 23 1 -1 -37935896 -1 -38311066 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 958 18 0 38924224 18 1 39631644 deletion 707475 7 0 0 0 26_samples:0 38923982 38924212 231 53 39631687 39631884 198 35 KC6 IGR: 136Kb before KC6(-) PIK3C3 Intron of PIK3C3(+): 2Kb after exon 21 - 0 0 3.000000e-02 7.000000e-02 1 1 4 1 4.859121e-02 -9.673864e-01 1 7 1 7 1 38924212 39631687 1 38924224 12 39631644 -43 9 9.737570e-01 0 0 65 0 16 1 -1 -38924213 -1 -39631688 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 965 23 1 56949520 23 0 56956049 tandem_dup 6529 7 0 0 0 26_samples:0 56949520 56949757 238 61 56955829 56956049 221 49 SPIN3 IGR: 53Kb before SPIN3(-) SPIN3 IGR: 47Kb before SPIN3(-) - 0 0 0 0 1 0 0 1 5.001368e-01 -1.771816e-01 1 7 1 7 1 56949520 56956049 1 -1 -56949521 -1 -56956050 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -56949521 -1 -56956050 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2766 962 19 0 39965394 22 1 48260009 inter_chr NaN 7 0 0 0 26_samples:0 39965256 39965394 139 32 48260009 48260196 188 46 SUPT5H Intron of SUPT5H(+): 36bp after exon 27 FLJ46257 IGR: 243Kb before FLJ46257(-) - 0 0 3.000000e-02 3.000000e-02 2 0 5 1 -1.136716e+00 -3.465112e-01 9.846154e-01 6.892308e+00 1 6.892308e+00 1 39965394 48260009 1 -1 -39965395 -1 -48260010 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -39965395 -1 -48260010 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2766 800 12 1 120364776 12 0 120375463 tandem_dup 10648 10 0 0 0 26_samples:0 120364770 120364963 194 44 120375176 120375418 243 38 CCDC64 IGR: 63Kb before CCDC64(+) CCDC64 IGR: 52Kb before CCDC64(+) - 5.000000e-02 4.200000e-01 0 0 2 1 3 0 -6.312724e-01 -1.045855e+00 6.838074e-01 6.838074e+00 1 6.838074e+00 1 120364770 120375418 1 120364776 6 120375463 45 5 9.674303e-01 1 2 74 0 20 1 120364810 40 120375620 202 7 7.969073e-01 1 1 104 1 A 28 1 7.142857e-01 LUSC-66-2766 939 8 0 37081207 8 1 37082923 deletion 1761 7 0 0 0 26_samples:0 37080969 37081206 238 60 37082967 37083266 300 76 KCNU1 IGR: 439Kb before KCNU1(+) KCNU1 IGR: 441Kb before KCNU1(+) - 0 0 0 0 1 0 1 1 4.436936e-01 1.346785e+00 9.599654e-01 6.719758e+00 1 6.719758e+00 1 37081206 37082967 1 37081207 1 37082923 -44 6 9.779195e-01 0 8 72 0 14 1 37081407 201 37082929 -38 7 7.901186e-01 0 0 73 1 A 13 1 1.076923e+00 LUSC-66-2766 952 16 0 68221926 16 1 68327120 deletion 105201 7 0 0 0 26_samples:0 68221696 68221931 236 53 68327132 68327387 256 76 NFATC3 Intron of NFATC3(+): 3Kb before exon 9 SLC7A6 Intron of SLC7A6(+): 1Kb before exon 8 Protein fusion: out of frame (NFATC3-SLC7A6) 0 0 6.000000e-02 6.000000e-02 2 0 2 1 4.859121e-02 1.346785e+00 9.599654e-01 6.719758e+00 1 6.719758e+00 1 68221931 68327132 1 68221926 -5 68327120 -12 6 9.856793e-01 0 2 70 0 16 1 -1 -68221932 -1 -68327133 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 853 18 1 3724968 18 1 3750651 inversion 25685 9 0 0 0 26_samples:0 3724964 3725271 308 79 3750649 3750950 302 72 DLGAP1 Intron of DLGAP1(-): 4Kb after exon 4 DLGAP1 Intron of DLGAP1(-): 8Kb before exon 3 Antisense fusion 0 0 0 0 2 1 4 1 1.685858e+00 1.236196e+00 7.462367e-01 6.716130e+00 1 6.716130e+00 1 3724964 3750649 1 3724968 4 3750651 2 11 9.706050e-01 1 3 62 0 12 1 -1 -3724965 -1 -3750650 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 742 19 0 13602808 19 1 13603971 deletion 1172 11 0 0 0 26_samples:0 13602508 13602790 283 75 13603962 13604253 292 79 CACNA1A Intron of CACNA1A(-): 14Kb after exon 1 CACNA1A Intron of CACNA1A(-): 13Kb after exon 1 Deletion within intron 0 0 0 0 0 2 0 2 1.510740e+00 1.787129e+00 5.931597e-01 6.524757e+00 1 6.524757e+00 1 13602790 13603962 1 13602808 18 13603971 9 15 9.823474e-01 0 3 70 0 30 1 -1 -13602791 -1 -13603963 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 594 12 0 121228897 12 1 121231069 deletion 2158 13 0 0 0 26_samples:0 121228554 121228903 350 78 121231061 121231363 303 76 SPPL3 Intron of SPPL3(-): 369bp after exon 3 SPPL3 Intron of SPPL3(-): 2Kb before exon 3 Deletion of 1 exon: out of frame 4.000000e-02 7.000000e-02 1.300000e-01 1.000000e-01 1 2 2 1 1.816437e+00 1.669183e+00 4.982665e-01 6.477465e+00 1 6.477465e+00 1 121228903 121231061 1 121228897 -6 121231069 8 20 9.851755e-01 0 0 73 0 28 1 -1 -121228904 -1 -121231062 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 863 2 0 133542538 2 1 133774974 deletion 232432 8 0 0 0 26_samples:0 133542280 133542542 263 57 133774974 133775265 292 78 NCKAP5 Exon 14 of NCKAP5(-) NCKAP5 Intron of NCKAP5(-): 23Kb before exon 7 Deletion within transcript: mid-exon 0 0 0 0 1 0 2 1 2.726345e-01 1.621621e+00 8.063201e-01 6.450561e+00 1 6.450561e+00 1 133542542 133774974 1 133542538 -4 133774974 0 4 9.291845e-01 0 0 71 2 TG 12 1 -1 -133542543 -1 -133774975 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 650 7 1 71432675 7 0 71444622 tandem_dup 11940 12 0 0 0 26_samples:0 71432674 71432987 314 75 71444307 71444614 308 78 CALN1 Intron of CALN1(-): 56Kb after exon 5 CALN1 Intron of CALN1(-): 44Kb after exon 5 Duplication within intron 0 0 5.000000e-02 3.000000e-02 2 1 2 2 1.595556e+00 1.816437e+00 5.346433e-01 6.415719e+00 1 6.415719e+00 1 71432674 71444614 1 71432675 1 71444622 8 14 9.713809e-01 1 1 52 0 21 1 71432482 -192 71444821 207 2 8.794355e-01 1 6 72 0 15 1 1.400000e+00 LUSC-66-2766 964 22 1 19720462 22 0 21110140 long_range 1389665 7 0 0 0 26_samples:0 19720462 19720783 322 77 21109905 21110127 223 65 GP1BB IGR: 9Kb before GP1BB(+) PI4KA Intron of PI4KA(-): 3Kb before exon 24 - 0 0 1.000000e-02 3.000000e-02 5 0 5 0 1.403228e+00 7.259096e-01 9.098180e-01 6.368726e+00 1 6.368726e+00 1 19720462 21110127 1 19720462 0 21110140 13 8 9.489414e-01 1 3 71 0 37 1 -1 -19720463 -1 -21110128 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 180 2 0 182286198 2 1 182290274 deletion 4076 24 0 0 0 26_samples:0 182285861 182286197 337 68 182290273 182290581 309 82 ITGA4 IGR: 35Kb before ITGA4(+) ITGA4 IGR: 31Kb before ITGA4(+) - 0 0 0 0 1 2 1 1 1.212216e+00 2.405235e+00 2.624000e-01 6.297601e+00 1 6.297601e+00 1 182286197 182290273 1 182286198 1 182290274 1 15 9.329048e-01 0 1 72 0 28 1 -1 -182286198 -1 -182290274 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 649 6 1 124865029 6 0 124870137 tandem_dup 5083 12 0 0 0 26_samples:0 124865042 124865311 270 56 124869877 124870125 249 45 NKAIN2 Intron of NKAIN2(+): 114Kb before exon 4 NKAIN2 Intron of NKAIN2(+): 109Kb before exon 4 Duplication within intron 0 0 0 0 2 8 1 0 1.966424e-01 -6.132551e-01 5.000000e-01 6 1 6 1 124865042 124870125 1 124865029 -13 124870137 12 7 9.919540e-01 1 5 75 0 17 1 -1 -124865043 -1 -124870126 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 972 2 0 128469742 2 1 128473982 deletion 4449 6 0 0 0 26_samples:0 128469365 128469569 205 49 128474018 128474193 176 34 WDR33 Intron of WDR33(-): 2Kb after exon 18 WDR33 Intron of WDR33(-): 711bp after exon 17 Deletion of 1 exon: out of frame 1.300000e-01 2.500000e-01 0 0 3 1 1 0 -1.771816e-01 -1.023830e+00 1 6 1 6 1 128469569 128474018 1 128469742 173 128473982 -36 4 8.198659e-01 0 1 75 0 13 1 -1 -128469570 -1 -128474019 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 973 2 1 142289179 2 1 142290472 inversion 1263 6 0 0 0 26_samples:0 142289243 142289433 191 33 142290506 142290688 183 29 LRP1B Intron of LRP1B(-): 51Kb before exon 3 LRP1B Intron of LRP1B(-): 52Kb before exon 3 Antisense fusion 0 0 0 6.000000e-02 2 0 0 1 -1.080273e+00 -1.306046e+00 1 6 1 6 1 142289243 142290506 1 142289179 -64 142290472 -34 9 8.984551e-01 1 2 75 0 16 1 142288887 -356 142290224 -282 2 8.092835e-01 1 5 73 0 6 1 2.666667e+00 LUSC-66-2766 979 3 0 55487040 3 1 55489484 deletion 2521 6 0 0 0 26_samples:0 55486819 55487029 211 61 55489550 55489746 197 50 WNT5A IGR: 13Kb before WNT5A(-) WNT5A IGR: 10Kb before WNT5A(-) - 0 0 0 0 0 1 0 1 5.001368e-01 -1.207384e-01 1 6 1 6 1 55487029 55489550 1 55487040 11 55489484 -66 11 9.663564e-01 0 3 74 0 22 1 -1 -55487030 -1 -55489551 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 980 3 0 100997196 3 1 100999024 deletion 1853 6 0 0 0 26_samples:0 100996945 100997195 251 64 100999048 100999248 201 45 IMPG2 Intron of IMPG2(-): 2Kb before exon 5 IMPG2 Intron of IMPG2(-): 3Kb before exon 5 Deletion within intron 3.000000e-02 5.000000e-02 0 0 1 0 2 1 6.694664e-01 -4.029544e-01 1 6 1 6 1 100997195 100999048 1 100997196 1 100999024 -24 3 9.591429e-01 0 1 81 0 6 1 -1 -100997196 -1 -100999049 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 982 3 0 189566993 3 0 189593641 inversion 26648 6 0 0 0 26_samples:0 189566722 189566993 272 59 189593424 189593641 218 66 TP63 Intron of TP63(+): 15Kb before exon 5 TP63 Intron of TP63(+): 3Kb after exon 10 Antisense fusion 0 0 0 0 2 1 4 0 3.872504e-01 7.823528e-01 1 6 1 6 1 189566993 189593641 1 189567348 355 189593601 -40 4 7.770644e-01 0 4 82 0 28 1 189567348 355 189593601 -40 5 7.814512e-01 0 4 82 0 12 0 2.333333e+00 LUSC-66-2766 985 4 0 36400729 4 1 36407155 deletion 6426 6 0 0 0 26_samples:0 36400588 36400729 142 15 36407155 36407332 178 50 DTHD1 IGR: 53Kb after DTHD1(+) DTHD1 IGR: 60Kb after DTHD1(+) - 0 0 0 0 0 0 0 0 -2.096250e+00 -1.207384e-01 1 6 1 6 1 36400729 36407155 1 -1 -36400730 -1 -36407156 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -36400730 -1 -36407156 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2766 986 4 0 47080152 4 1 47082873 deletion 2866 6 0 0 0 26_samples:0 47080000 47080107 108 23 47082973 47083148 176 30 GABRB1 Intron of GABRB1(+): 46Kb after exon 3 GABRB1 Intron of GABRB1(+): 48Kb after exon 3 Deletion within intron 0 1.000000e-01 0 0 0 0 1 0 -1.644705e+00 -1.249602e+00 1 6 1 6 1 47080107 47082973 1 47080152 45 47082873 -100 14 9.943869e-01 0 3 77 0 17 1 -1 -47080108 -1 -47082974 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 987 4 0 93270778 4 1 93272207 deletion 1516 6 0 0 0 26_samples:0 93270529 93270693 165 27 93272209 93272428 220 44 GRID2 Intron of GRID2(+): 45Kb after exon 1 GRID2 Intron of GRID2(+): 46Kb after exon 1 Deletion within intron 0 0 0 0 1 0 1 0 -1.418932e+00 -4.593976e-01 1 6 1 6 1 93270693 93272209 1 93270778 85 93272207 -2 10 1 0 3 72 0 13 1 -1 -93270694 -1 -93272210 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 991 5 0 171707910 5 1 171711164 deletion 3394 6 0 0 0 26_samples:0 171707681 171707843 163 25 171711237 171711373 137 23 UBTD2 Intron of UBTD2(-): 3Kb after exon 1 UBTD2 Promoter of UBTD2(-): 442bp from tx start Deletion within transcript 0 0 0 0 1 1 1 0 -1.531818e+00 -1.644705e+00 1 6 1 6 1 171707843 171711237 1 171707910 67 171711164 -73 6 9.726200e-01 0 3 58 0 9 1 -1 -171707844 -1 -171711238 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 992 5 1 167874077 5 0 167888211 tandem_dup 14076 6 0 0 0 26_samples:0 167874137 167874381 245 66 167887961 167888213 253 63 WWC1 Intron of WWC1(+): 3Kb after exon 17 WWC1 Intron of WWC1(+): 466bp after exon 20 Duplication of 3 exons: out of frame 0 0 0 3.000000e-02 2 1 1 0 7.823528e-01 6.130232e-01 1 6 1 6 1 167874137 167888213 1 167874077 -60 167888211 -2 2 9.946006e-01 1 4 77 0 10 1 -1 -167874138 -1 -167888214 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 996 7 0 153887724 7 1 153892436 deletion 4729 6 0 0 0 26_samples:0 153887465 153887732 268 67 153892461 153892703 243 59 DPP6 Intron of DPP6(+): 138Kb after exon 1 DPP6 Intron of DPP6(+): 142Kb after exon 1 Deletion within intron 0 0 6.000000e-02 0 0 0 0 0 8.387960e-01 3.872504e-01 1 6 1 6 1 153887732 153892461 1 153887724 -8 153892436 -25 11 9.091757e-01 0 0 67 23 ACCCTTTCCCCTAGTGAACCAGA 23 1 -1 -153887733 -1 -153892462 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 998 7 1 155596927 7 1 155600337 inversion 3418 6 0 0 0 26_samples:0 155596934 155597144 211 40 155600352 155600605 254 63 SHH Intron of SHH(-): 514bp before exon 3 SHH Intron of SHH(-): 1Kb before exon 2 Antisense fusion 0 0 0 0 0 0 0 1 -6.851704e-01 6.130232e-01 1 6 1 6 1 155596934 155600352 1 155596927 -7 155600337 -15 3 9.431516e-01 1 4 68 0 11 1 -1 -155596935 -1 -155600353 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 999 8 0 4081254 8 1 4159535 deletion 78319 6 0 0 0 26_samples:0 4081024 4081227 204 44 4159546 4159794 249 53 CSMD1 Intron of CSMD1(-): 192Kb before exon 4 CSMD1 Intron of CSMD1(-): 118Kb after exon 3 Deletion within intron 0 0 0 0 1 0 1 1 -4.593976e-01 4.859121e-02 1 6 1 6 1 4081227 4159546 1 4081254 27 4159535 -11 9 9.916714e-01 0 4 71 0 10 1 4081578 351 4159312 -234 1 7.704362e-01 0 0 68 36 TCAAACAGGGCTAAGGGCTGATGGAACTGACCTGAG 21 1 4.761905e-01 LUSC-66-2766 1001 10 0 77621584 10 1 77624652 deletion 3103 6 0 0 0 26_samples:0 77621369 77621550 182 37 77624653 77624870 218 43 C10orf11 Intron of C10orf11(+): 79Kb after exon 1 C10orf11 Intron of C10orf11(+): 82Kb after exon 1 Deletion within intron 0 0 0 0 1 0 1 1 -8.545000e-01 -5.158408e-01 1 6 1 6 1 77621550 77624653 1 77621584 34 77624652 -1 3 9.699714e-01 0 1 78 0 8 1 -1 -77621551 -1 -77624654 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 1012 18 0 4267138 18 1 4269345 deletion 2324 6 0 0 0 26_samples:0 4266949 4267133 185 32 4269457 4269589 133 11 DLGAP1 IGR: 387Kb after DLGAP1(-) DLGAP1 IGR: 389Kb after DLGAP1(-) - 0 0 1.500000e-01 1.800000e-01 1 1 1 1 -1.136716e+00 -2.322023e+00 1 6 1 6 1 4267133 4269457 1 4267138 5 4269345 -112 10 9.726896e-01 0 4 67 0 16 1 -1 -4267134 -1 -4269458 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 844 7 0 132997956 7 1 133008226 deletion 10357 9 0 0 0 26_samples:0 132997773 132997959 187 37 133008316 133008528 213 36 EXOC4 Intron of EXOC4(+): 4Kb before exon 5 EXOC4 Intron of EXOC4(+): 6Kb after exon 5 Deletion of 1 exon: out of frame 0 0 1.800000e-01 3.100000e-01 7 1 4 1 -1.012115e+00 -1.076352e+00 6.649931e-01 5.984938e+00 1 5.984938e+00 1 132997959 133008316 1 132997956 -3 133008226 -90 15 9.701695e-01 0 2 76 0 24 1 132998160 201 133008359 43 3 8.298329e-01 0 0 87 1 T 11 1 2.181818e+00 LUSC-66-2766 455 3 0 160214431 3 1 160237597 deletion 23163 15 0 0 0 26_samples:0 160214079 160214430 352 80 160237593 160237906 314 66 KPNA4 IGR: 4Kb before KPNA4(-) KPNA4 Intron of KPNA4(-): 2Kb after exon 11 - 0 0 6.000000e-02 1.400000e-01 2 0 6 1 2.073859e+00 9.762644e-01 3.971188e-01 5.956782e+00 1 5.956782e+00 1 160214430 160237593 1 160214431 1 160237597 4 5 9.898327e-01 0 4 65 0 34 1 -1 -160214431 -1 -160237594 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 966 1 1 94418826 1 0 94456006 tandem_dup 37141 6 0 0 0 26_samples:0 94418863 94419077 215 50 94455771 94456004 234 52 ABCA4 IGR: 40Kb before ABCA4(-) ABCA4 IGR: 2Kb before ABCA4(-) - 0 7.000000e-02 0 0 5 2 2 0 -1.207384e-01 -7.851987e-03 9.846154e-01 5.907692e+00 1 5.907692e+00 1 94418863 94456004 1 94418826 -37 94456006 2 7 9.490634e-01 1 0 81 0 14 1 -1 -94418864 -1 -94456005 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 974 2 0 183123115 2 1 183124232 deletion 1129 6 0 0 0 26_samples:0 183122874 183123110 237 60 183124239 183124482 244 75 PDE1A Intron of PDE1A(-): 6Kb after exon 2 PDE1A Intron of PDE1A(-): 5Kb after exon 2 Deletion within intron 0 0 0 0 2 0 1 0 4.436936e-01 1.290342e+00 9.761094e-01 5.856657e+00 1 5.856657e+00 1 183123110 183124239 1 183123115 5 183124232 -7 15 9.946445e-01 0 2 76 0 21 1 183123461 351 183123977 -262 1 7.879321e-01 0 0 67 29 GAAGTCTAGACATATCTGGTTTGGAAGTC 22 1 9.545455e-01 LUSC-66-2766 830 5 1 38975064 5 0 44073382 long_range 5098324 9 0 0 0 26_samples:0 38975059 38975348 290 70 44073088 44073383 296 81 RICTOR Intron of RICTOR(-): 580bp after exon 10 FGF10 IGR: 232Kb before FGF10(-) - 0 0 5.000000e-02 5.000000e-02 5 2 4 0 1.107721e+00 1.814333e+00 6.385558e-01 5.747002e+00 1 5.747002e+00 1 38975059 44073383 1 38975064 5 44073382 -1 8 9.888153e-01 1 2 75 0 27 1 -1 -38975060 -1 -44073384 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 766 3 1 148765386 3 0 161533906 long_range 12768520 10 0 0 0 26_samples:0 148765386 148765660 275 78 161533617 161533906 290 77 HLTF Intron of HLTF(-): 429bp after exon 17 OTOL1 IGR: 319Kb before OTOL1(+) - 0 7.000000e-02 3.000000e-02 1.800000e-01 4 1 3 1 1.718032e+00 1.648935e+00 5.731847e-01 5.731847e+00 1 5.731847e+00 1 148765386 161533906 1 148765181 -205 161533871 -35 8 8.425001e-01 1 4 87 0 19 1 148765181 -205 161533871 -35 8 8.270794e-01 1 4 87 0 9 0 2.111111e+00 LUSC-66-2766 801 13 0 83583727 13 1 83587036 deletion 3336 10 0 0 0 26_samples:0 83583447 83583699 253 66 83587035 83587316 282 81 SLITRK1 IGR: 868Kb before SLITRK1(-) SLITRK1 IGR: 864Kb before SLITRK1(-) - 0 0 0 0 0 0 0 1 8.888657e-01 1.925323e+00 5.579474e-01 5.579474e+00 1 5.579474e+00 1 83583699 83587035 1 83583727 28 83587036 1 11 9.910788e-01 0 3 76 0 15 1 83583879 180 83586833 -202 1 7.552232e-01 0 1 80 0 4 1 3.750000e+00 LUSC-66-2766 938 7 0 47156782 23 0 142798813 inter_chr NaN 7 0 0 0 26_samples:0 47156499 47156784 286 80 142798492 142798815 324 77 TNS3 IGR: 158Kb before TNS3(-) SPANXN2 Intron of SPANXN2(-): 3Kb before exon 2 - 0 0 0 5.000000e-02 2 0 2 0 1.572558e+00 1.403228e+00 7.901610e-01 5.531127e+00 1 5.531127e+00 1 47156784 142798815 1 47156782 -2 142798813 -2 11 9.881479e-01 0 4 72 0 22 1 -1 -47156785 -1 -142798816 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 689 2 0 32558287 2 1 32736643 deletion 178401 11 0 0 0 26_samples:0 32558046 32558259 214 40 32736660 32736910 251 46 BIRC6 IGR: 24Kb before BIRC6(+) BIRC6 Intron of BIRC6(+): 959bp after exon 53 - 2.000000e-02 2.500000e-01 2.000000e-02 5.000000e-02 2 2 8 1 -9.076611e-01 -4.930780e-01 5.000000e-01 5.500000e+00 1 5.500000e+00 1 32558259 32736660 1 32558287 28 32736643 -17 8 9.731142e-01 0 1 76 0 19 1 -1 -32558260 -1 -32736661 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 1009 16 0 48814892 16 1 48818679 deletion 3811 6 0 0 0 26_samples:0 48814594 48814870 277 78 48818681 48818927 247 66 N4BP1 IGR: 242Kb before N4BP1(-) N4BP1 IGR: 246Kb before N4BP1(-) - 0 3.000000e-02 1.400000e-01 8.000000e-02 1 2 2 4 1.459671e+00 7.823528e-01 9.114711e-01 5.468827e+00 1 5.468827e+00 1 48814870 48818681 1 48814892 22 48818679 -2 12 9.969528e-01 0 2 63 0 17 1 -1 -48814871 -1 -48818682 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 608 22 0 47626271 22 1 47627612 deletion 1341 13 0 0 0 26_samples:0 47625971 47626271 301 76 47627612 47627929 318 80 TBC1D22A IGR: 57Kb after TBC1D22A(+) TBC1D22A IGR: 58Kb after TBC1D22A(+) - 0 0 0 0 0 1 0 1 1.669183e+00 1.963691e+00 4.060353e-01 5.278460e+00 1 5.278460e+00 1 47626271 47627612 1 47626271 0 47627612 0 9 9.828855e-01 0 1 68 0 21 1 -1 -47626272 -1 -47627613 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 1022 1 1 108359595 1 1 108361268 inversion 1723 5 0 0 0 26_samples:0 108359624 108359827 204 43 108361347 108361547 201 43 VAV3 Intron of VAV3(-): 38Kb before exon 3 VAV3 Intron of VAV3(-): 39Kb before exon 3 Antisense fusion 0 0 0 0 1 0 0 0 -4.442120e-01 -4.442120e-01 1 5 1 5 1 108359624 108361347 1 108359595 -29 108361268 -79 5 9.390546e-01 1 0 66 0 10 1 108359270 -354 108361545 198 1 7.666690e-01 1 3 79 0 5 1 2 LUSC-66-2766 1023 1 0 181835496 1 1 181838907 deletion 3508 5 0 0 0 26_samples:0 181835228 181835394 167 26 181838902 181839020 119 15 ZNF648 IGR: 188Kb before ZNF648(-) ZNF648 IGR: 185Kb before ZNF648(-) - 2.000000e-02 2.000000e-02 0 0 3 1 0 1 -1.329781e+00 -1.902796e+00 1 5 1 5 1 181835394 181838902 1 181835496 102 181838907 5 6 9.370296e-01 0 0 70 9 GTTTTTGTG 16 1 -1 -181835395 -1 -181838903 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 1024 1 0 30920786 1 1 30921994 deletion 1208 5 0 0 0 26_samples:0 30920561 30920786 226 63 30921994 30922235 242 70 MATN1 IGR: 263Kb before MATN1(-) MATN1 IGR: 262Kb before MATN1(-) - 0 0 7.000000e-02 5.000000e-02 0 1 0 0 5.976337e-01 9.622796e-01 1 5 1 5 1 30920786 30921994 1 30920849 63 30921991 -3 1 9.177325e-01 0 2 76 0 7 1 -1 -30920787 -1 -30921995 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2766 1027 2 0 100013370 2 1 100015763 deletion 2393 5 0 0 0 26_samples:0 100013224 100013370 147 36 100015763 100015921 159 37 EIF5B Intron of EIF5B(+): 9bp after exon 22 EIF5B Intron of EIF5B(+): 7bp before exon 24 Deletion of 1 exon: in frame 0 0 0 0 1 0 1 1 -8.088580e-01 -7.567657e-01 1 5 1 5 1 100013370 100015763 1 100013176 -194 100015767 4 1 7.795719e-01 0 0 78 1 A 23 1 100013553 183 100015411 -352 1 7.754846e-01 0 1 87 0 6 0 3.833333e+00 LUSC-66-2766 1033 2 0 107808889 20 1 23413505 inter_chr NaN 5 0 0 0 26_samples:0 107808631 107808771 141 17 23413505 23413625 121 35 ST6GAL2 IGR: 379Kb before ST6GAL2(-) CSTL1 IGR: 7Kb before CSTL1(+) - 0 0 0 0 3 0 4 1 -1.798611e+00 -8.609503e-01 1 5 1 5 1 107808771 23413505 1 107808889 118 23413505 0 10 9.866040e-01 0 2 66 0 15 1 107808799 28 23413154 -351 1 8.372251e-01 0 0 68 2 AC 13 1 1.153846e+00 LUSC-66-2766 1035 3 0 67245821 3 1 67248537 deletion 2725 5 0 0 0 26_samples:0 67245593 67245829 237 50 67248554 67248776 223 57 SUCLG2 IGR: 165Kb before SUCLG2(-) SUCLG2 IGR: 162Kb before SUCLG2(-) - 0 0 0 0 0 0 0 2 -7.956602e-02 2.850800e-01 1 5 1 5 1 67245829 67248554 1 67245821 -8 67248537 -17 2 9.628991e-01 0 3 74 0 6 1 -1 -67245830 -1 -67248555 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 1036 3 0 148769078 3 1 152737859 long_range 3968856 5 0 0 0 26_samples:0 148768845 148769058 214 60 152737914 152738153 240 63 HLTF Intron of HLTF(-): 896bp before exon 15 RAP2B IGR: 142Kb before RAP2B(+) - 0 0 0 0 2 1 3 2 4.413568e-01 5.976337e-01 1 5 1 5 1 148769058 152737914 1 148769078 20 152737859 -55 12 9.420857e-01 0 0 69 0 35 1 148769412 354 152737592 -322 7 8.184229e-01 0 13 106 0 27 1 1.296296e+00 LUSC-66-2766 1042 3 1 145706365 19 1 4511789 inter_chr NaN 5 0 0 0 26_samples:0 145706367 145706483 117 11 4511884 4512082 199 56 PLOD2 IGR: 81Kb before PLOD2(-) PLIN4 Exon 3 of PLIN4(-) - 0 0 3.000000e-02 4.000000e-02 3 0 2 1 -2.111165e+00 2.329877e-01 1 5 1 5 1 145706367 4511884 1 145706365 -2 4511789 -95 14 9.700947e-01 1 2 74 0 35 1 -1 -145706368 -1 -4511885 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 1047 5 0 138910123 5 1 138915936 deletion 5909 5 0 0 0 26_samples:0 138909938 138910124 187 38 138916033 138916201 169 25 UBE2D2 IGR: 31Kb before UBE2D2(+) UBE2D2 IGR: 25Kb before UBE2D2(+) - 2.000000e-02 6.000000e-02 6.000000e-02 4.000000e-02 1 0 2 1 -7.046734e-01 -1.381873e+00 1 5 1 5 1 138910124 138916033 1 138910123 -1 138915936 -97 4 9.397855e-01 0 0 78 37 AATCACAGCCTCACAGGTTCAAGCTGTGATTACTTTG 10 1 -1 -138910125 -1 -138916034 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 1059 7 1 30394271 22 0 29065835 inter_chr NaN 5 0 0 0 26_samples:0 30394271 30394449 179 29 29065713 29065835 123 26 ZNRF2 Intron of ZNRF2(+): 1Kb before exon 3 TTC28 Intron of TTC28(-): 10Kb after exon 1 - 0 0 0 0 3 0 2 0 -1.173504e+00 -1.329781e+00 1 5 1 5 1 30394271 29065835 1 -1 -30394272 -1 -29065836 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -30394272 -1 -29065836 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2766 1060 8 0 3957763 8 1 4010415 deletion 52710 5 0 0 0 26_samples:0 3957509 3957742 234 51 4010452 4010611 160 25 CSMD1 Intron of CSMD1(-): 68Kb before exon 4 CSMD1 Intron of CSMD1(-): 121Kb before exon 4 Deletion within intron 0 0 0 0 2 0 1 0 -2.747374e-02 -1.381873e+00 1 5 1 5 1 3957742 4010452 1 3957763 21 4010415 -37 9 9.709366e-01 0 1 76 1 G 13 1 -1 -3957743 -1 -4010453 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 1063 8 0 109355238 21 1 20913637 inter_chr NaN 5 0 0 0 26_samples:0 109355034 109355238 205 44 20913637 20913818 182 32 TTC35 IGR: 101Kb before TTC35(+) C21orf131 IGR: 1Mb before C21orf131(-) - 1.000000e-02 4.000000e-02 0 0 3 0 3 0 -3.921197e-01 -1.017227e+00 1 5 1 5 1 109355238 20913637 1 -1 -109355239 -1 -20913638 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -109355239 -1 -20913638 -1 -1 -1 -1 -1 -1 failed 0 0 NaN LUSC-66-2766 1069 11 0 67955688 18 1 41049707 inter_chr NaN 5 0 0 0 26_samples:0 67955434 67955665 232 65 41049709 41049931 223 46 SUV420H1 Intron of SUV420H1(-): 2Kb after exon 2 SYT4 IGR: 202Kb before SYT4(-) - 8.000000e-02 9.000000e-02 0 0 3 2 2 0 7.018182e-01 -2.879352e-01 1 5 1 5 1 67955665 41049709 1 67955688 23 41049707 -2 16 8.860665e-01 0 0 70 1 C 18 1 -1 -67955666 -1 -41049710 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 1075 13 1 107798977 13 0 107804532 tandem_dup 5522 5 0 0 0 26_samples:0 107799013 107799264 252 60 107804299 107804535 237 65 FAM155A IGR: 22Kb before FAM155A(-) FAM155A IGR: 16Kb before FAM155A(-) - 1.000000e-02 8.000000e-02 0 2.000000e-02 1 1 0 1 4.413568e-01 7.018182e-01 1 5 1 5 1 107799013 107804535 1 107798977 -36 107804532 -3 2 9.191665e-01 1 2 77 0 22 1 107798660 -353 107804711 176 1 8.314869e-01 1 2 79 0 12 1 1.833333e+00 LUSC-66-2766 1078 17 0 57917670 17 1 57942517 deletion 24933 5 0 0 0 26_samples:0 57917337 57917575 239 58 57942508 57942667 160 29 TMEM49 3'-UTR of TMEM49(+): 303bp after coding stop TUBD1 Intron of TUBD1(-): 1Kb before exon 8 - 0 0 1.000000e-02 3.000000e-02 1 0 3 2 3.371722e-01 -1.173504e+00 1 5 1 5 1 57917575 57942508 1 57917670 95 57942517 9 7 9.871897e-01 0 1 70 0 13 1 -1 -57917576 -1 -57942509 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 1079 18 0 36318307 18 0 39967301 long_range 3648994 5 0 0 0 26_samples:0 36318151 36318307 157 29 39967110 39967301 192 34 LOC647946 IGR: 469Kb before LOC647946(-) RIT2 IGR: 356Kb before RIT2(-) - 0 0 0 0 1 1 2 0 -1.173504e+00 -9.130425e-01 1 5 1 5 1 36318307 39967301 1 36318244 -63 39967295 -6 1 8.167430e-01 0 0 78 0 13 1 36318613 306 39967654 353 1 7.972545e-01 0 2 73 0 14 0 9.285714e-01 LUSC-66-2766 1085 23 0 67213126 23 1 67214742 deletion 1623 5 0 0 0 26_samples:0 67212836 67213119 284 69 67214742 67215010 269 69 OPHN1 IGR: 49Kb before OPHN1(-) OPHN1 IGR: 47Kb before OPHN1(-) - 8.000000e-02 1.000000e-01 0 4.000000e-02 0 1 0 1 9.101874e-01 9.101874e-01 1 5 1 5 1 67213119 67214742 1 67213126 7 67214742 0 15 9.605112e-01 0 3 72 0 15 1 67213470 351 67214708 -34 1 8.045347e-01 0 0 64 1 A 5 1 3 LUSC-66-2766 1046 5 1 21901948 5 1 21905117 inversion 3185 5 0 0 0 26_samples:0 21901941 21902146 206 54 21905126 21905392 267 71 CDH12 Intron of CDH12(-): 47Kb before exon 7 CDH12 Intron of CDH12(-): 50Kb before exon 7 Antisense fusion 1.000000e-02 0 0 0 1 0 1 0 1.288031e-01 1.014372e+00 9.999970e-01 4.999985e+00 1 4.999985e+00 1 21901941 21905126 1 21901948 7 21905117 -9 5 1 1 1 79 0 9 1 -1 -21901942 -1 -21905127 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 1034 3 1 9585381 3 0 9587886 tandem_dup 2505 5 0 0 0 26_samples:0 9585381 9585637 257 59 9587602 9587886 285 75 LHFPL4 Intron of LHFPL4(-): 9Kb after exon 2 LHFPL4 Intron of LHFPL4(-): 6Kb after exon 2 Duplication within intron 2.000000e-02 3.000000e-02 2.000000e-02 5.000000e-02 4 1 3 1 3.892645e-01 1.222741e+00 9.890698e-01 4.945349e+00 1 4.945349e+00 1 9585381 9587886 1 9585012 -369 9587854 -32 20 9.050171e-01 1 28 126 0 42 1 9585012 -369 9587854 -32 9 8.790695e-01 1 28 126 0 20 0 2.100000e+00 LUSC-66-2766 1082 18 1 37936082 22 0 18965160 inter_chr NaN 5 0 0 0 26_samples:0 37936170 37936388 219 75 18965028 18965146 119 33 KC6 IGR: 1Mb before KC6(-) DGCR5 5'-UTR of DGCR5(+): 17Kb before coding start - 0 0 0 0 2 1 2 0 1.222741e+00 -9.651348e-01 9.890698e-01 4.945349e+00 1 4.945349e+00 1 37936170 18965146 1 37936082 -88 18965160 14 5 9.244487e-01 1 0 60 0 25 1 -1 -37936171 -1 -18965147 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 840 6 0 135493792 6 1 135500469 deletion 6674 9 0 0 0 26_samples:0 135493511 135493794 284 69 135500468 135500785 318 83 MYB IGR: 9Kb before MYB(+) MYB Promoter of MYB(+): 2Kb from tx start - 0 0 0 0 2 1 1 1 1.043484e+00 1.942808e+00 5.440100e-01 4.896090e+00 1 4.896090e+00 1 135493794 135500468 1 135493792 -2 135500469 1 8 9.197440e-01 0 2 80 0 22 1 -1 -135493795 -1 -135500469 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 1074 13 0 38537168 13 1 38538482 deletion 1335 5 0 0 0 26_samples:0 38536933 38537148 216 44 38538483 38538767 285 77 TRPC4 IGR: 326Kb before TRPC4(-) TRPC4 IGR: 328Kb before TRPC4(-) - 0 0 0 0 0 0 1 1 -3.921197e-01 1.326926e+00 9.662378e-01 4.831189e+00 1 4.831189e+00 1 38537148 38538483 1 38537168 20 38538482 -1 2 9.945658e-01 0 4 81 0 5 1 38537501 353 38538307 -176 2 8.066853e-01 0 3 76 0 16 1 3.125000e-01 LUSC-66-2766 907 19 0 3959841 19 1 3962709 deletion 2866 8 0 0 0 26_samples:0 3959509 3959842 334 82 3962708 3962944 237 49 DAPK3 Intron of DAPK3(-): 207bp before exon 8 DAPK3 Intron of DAPK3(-): 933bp after exon 5 Deletion of 2 exons: out of frame 0 0 1.100000e-01 8.000000e-02 1 0 3 2 1.878571e+00 -2.412652e-01 5.958918e-01 4.767134e+00 1 4.767134e+00 1 3959842 3962708 1 3959841 -1 3962709 1 5 9.296314e-01 0 1 80 0 7 1 -1 -3959843 -1 -3962709 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 1017 20 1 29588117 22 1 21055989 inter_chr NaN 6 0 0 0 26_samples:0 29588248 29588386 139 14 21055983 21056144 162 21 FRG1B IGR: 24Kb before FRG1B(+) TMEM191A 5'-UTR of TMEM191A(+): 3Kb before coding start - 1.000000e-01 1.300000e-01 1.500000e-01 1.800000e-01 6 6 5 0 -2.152694e+00 -1.757591e+00 7.779677e-01 4.667806e+00 1 4.667806e+00 1 29588248 21055983 1 29588117 -131 21055989 6 11 9.733832e-01 1 2 67 0 22 1 -1 -29588249 -1 -21055984 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 447 1 0 120025676 1 1 120030273 deletion 4597 15 0 0 0 26_samples:0 120025347 120025679 333 83 120030276 120030544 269 65 HSD3B1 IGR: 24Kb before HSD3B1(+) HSD3B1 IGR: 20Kb before HSD3B1(+) - 0 3.000000e-02 0 0 1 0 0 0 2.309058e+00 8.978648e-01 3.083333e-01 4.625000e+00 1 4.625000e+00 1 120025679 120030276 1 120025676 -3 120030273 -3 14 9.094397e-01 0 1 64 0 27 1 -1 -120025680 -1 -120030277 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 327 8 0 58718737 8 1 58723375 deletion 4636 18 0 0 0 26_samples:0 58718416 58718740 325 83 58723376 58723701 326 74 FAM110B IGR: 188Kb before FAM110B(+) FAM110B IGR: 184Kb before FAM110B(+) - 0 0 0 0 0 1 1 1 2.309058e+00 1.603461e+00 2.527820e-01 4.550076e+00 1 4.550076e+00 1 58718740 58723376 1 58718737 -3 58723375 -1 20 9.796966e-01 0 1 81 0 29 1 -1 -58718741 -1 -58723377 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 773 3 0 10866239 3 1 10871563 deletion 5342 10 0 0 0 26_samples:0 10865993 10866226 234 59 10871568 10871866 299 83 SLC6A11 Intron of SLC6A11(+): 1Kb after exon 4 SLC6A11 Intron of SLC6A11(+): 6Kb after exon 4 Deletion within intron 0 0 0 0 1 0 1 0 4.051854e-01 2.063518e+00 4.539444e-01 4.539444e+00 1 4.539444e+00 1 10866226 10871568 1 10866239 13 10871563 -5 7 9.622153e-01 0 1 86 0 13 1 -1 -10866227 -1 -10871569 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 1071 12 0 29559133 12 0 29595554 inversion 36421 5 0 0 0 26_samples:0 29558979 29559133 155 24 29595428 29595554 127 13 OVCH1 IGR: 21Kb before OVCH1(-) OVCH1 Intron of OVCH1(-): 740bp after exon 25 - 0 0 2.200000e-01 3.300000e-01 3 0 3 3 -1.433965e+00 -2.006980e+00 9.071118e-01 4.535559e+00 1 4.535559e+00 1 29559133 29595554 1 29559391 258 29595432 -122 3 8.864708e-01 0 13 136 0 42 1 -1 -29559134 -1 -29595555 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2766 1013 18 1 15078988 18 0 15141903 tandem_dup 62885 6 0 0 0 26_samples:0 15078989 15079243 255 59 15141625 15141874 250 52 LOC644669 IGR: 235Kb before LOC644669(-) LOC644669 IGR: 172Kb before LOC644669(-) - 1.700000e-01 1.300000e-01 2.800000e-01 3.900000e-01 3 1 3 1 3.872504e-01 -7.851987e-03 7.504601e-01 4.502761e+00 1 4.502761e+00 1 15078989 15141874 1 15078988 -1 15141903 29 7 9.626250e-01 1 1 70 0 9 1 -1 -15078990 -1 -15141875 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 1070 12 1 1629573 12 0 1650312 tandem_dup 20664 5 0 0 0 26_samples:0 1629648 1629854 207 57 1650129 1650312 184 32 LOC100292680 IGR: 20Kb before LOC100292680(+) FBXL14 IGR: 25Kb before FBXL14(-) - 5.000000e-02 7.000000e-02 0 0 6 2 2 1 2.850800e-01 -1.017227e+00 8.888889e-01 4.444444e+00 1 4.444444e+00 1 1629648 1650312 1 1629573 -75 1650312 0 9 8.515149e-01 1 5 66 0 12 1 1629589 -59 1650664 352 5 7.868125e-01 1 2 114 0 16 1 7.500000e-01 LUSC-66-2766 600 16 1 3650529 16 0 3664597 tandem_dup 14051 13 0 0 0 26_samples:0 3650549 3650811 263 66 3664345 3664600 256 63 BTBD12 Intron of BTBD12(-): 431bp after exon 5 BTBD12 IGR: 3Kb after BTBD12(-) - 1.100000e-01 1.400000e-01 2.000000e-02 0 5 0 9 0 9.329128e-01 7.120317e-01 3.334147e-01 4.334392e+00 1 4.334392e+00 1 3650549 3664600 1 3650529 -20 3664597 -3 20 9.920687e-01 1 3 63 0 50 1 -1 -3650550 -1 -3664601 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 906 18 0 38316606 22 0 19522258 inter_chr NaN 8 0 0 0 26_samples:0 38316325 38316606 282 82 19521983 19522258 276 68 KC6 IGR: 744Kb before KC6(-) CLDN5 IGR: 12Kb before CLDN5(-) - 0 0 3.000000e-02 1.400000e-01 3 0 6 2 1.878571e+00 9.792464e-01 5.296816e-01 4.237453e+00 1 4.237453e+00 1 38316606 19522258 1 38316598 -8 19522263 5 1 9.859097e-01 0 1 78 2 GC 22 1 -1 -38316607 -1 -19522259 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2766 595 12 0 113202082 12 1 113205827 deletion 3735 13 0 0 0 26_samples:0 113201795 113202087 293 71 113205822 113206147 326 84 RPH3A IGR: 27Kb before RPH3A(+) RPH3A IGR: 24Kb before RPH3A(+) - 0 0 0 0 0 0 2 1 1.301048e+00 2.258200e+00 3.253681e-01 4.229786e+00 1 4.229786e+00 1 113202087 113205822 1 113202082 -5 113205827 5 12 9.878478e-01 0 2 76 0 21 1 -1 -113202088 -1 -113205823 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 1067 10 1 5013291 10 0 5018702 tandem_dup 5353 5 0 0 0 26_samples:0 5013357 5013492 136 14 5018513 5018710 198 40 AKR1C1 Intron of AKR1C1(+): 1Kb before exon 6 AKR1C1 Intron of AKR1C1(+): 585bp after exon 8 Duplication of 3 exons: out of frame 1.600000e-01 2.600000e-01 3.300000e-01 3.200000e-01 2 1 0 1 -1.954888e+00 -6.004889e-01 8.398207e-01 4.199104e+00 1 4.199104e+00 1 5013357 5018710 1 5013291 -66 5018702 -8 17 9.866748e-01 1 0 77 0 23 1 5013147 -210 5019062 352 6 8.032896e-01 1 1 68 0 15 1 1.533333e+00 LUSC-66-2766 633 3 0 189652245 3 1 189663432 deletion 11204 12 0 0 0 26_samples:0 189651980 189652230 251 58 189663434 189663704 271 60 LEPREL1 IGR: 22Kb before LEPREL1(-) LEPREL1 IGR: 11Kb before LEPREL1(-) - 0 0 0 5.000000e-02 4 0 9 1 3.438964e-01 4.911505e-01 3.386243e-01 4.063492e+00 1 4.063492e+00 1 189652230 189663434 1 189652245 15 189663432 -2 14 9.935303e-01 0 0 73 0 54 1 -1 -189652231 -1 -189663435 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 1089 1 1 233103670 1 0 233108920 tandem_dup 5204 4 0 0 0 26_samples:0 233103718 233103889 172 38 233108675 233108922 248 69 C1orf57 Intron of C1orf57(+): 2Kb before exon 4 C1orf57 Intron of C1orf57(+): 3Kb after exon 4 Duplication of 1 exon: in frame 0 0 0 0 1 0 1 0 -5.819692e-01 8.450749e-01 1 4 1 4 1 233103718 233108922 1 233103670 -48 233108920 -2 8 9.836489e-01 1 0 79 0 16 1 -1 -233103719 -1 -233108923 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 1101 2 0 80258124 2 1 80261101 deletion 2977 4 0 0 0 26_samples:0 80257995 80258124 130 43 80261101 80261234 134 47 CTNNA2 Intron of CTNNA2(+): 121Kb after exon 7 CTNNA2 Intron of CTNNA2(+): 124Kb after exon 7 Deletion within intron 0 0 3.000000e-02 0 1 0 2 2 -3.518008e-01 -1.676661e-01 1 4 1 4 1 80258124 80261101 1 80258079 -45 80260750 -351 1 7.539837e-01 0 0 74 13 CGTAGAATCAGAC 9 1 80258079 -45 80260750 -351 1 7.537086e-01 0 0 74 13 CGTAGAATCAGAC 13 0 6.923077e-01 LUSC-66-2766 1102 2 0 212246387 3 0 86032788 inter_chr NaN 4 0 0 0 26_samples:0 212246188 212246387 200 41 86032597 86032788 192 40 ERBB4 3'-UTR of ERBB4(-): 2Kb after coding stop CADM2 Intron of CADM2(+): 4Kb after exon 8 - 0 0 0 0 3 0 4 0 -4.438682e-01 -4.899019e-01 1 4 1 4 1 212246387 86032788 1 212246393 6 86032578 -210 1 8.175880e-01 0 0 69 0 12 1 -1 -212246388 -1 -86032789 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2766 1156 5 0 21905110 5 0 21908994 inversion 3943 4 0 0 0 26_samples:0 21904858 21905027 170 29 21908854 21908970 117 11 CDH12 Intron of CDH12(-): 50Kb before exon 7 CDH12 Intron of CDH12(-): 54Kb before exon 7 - 0 0 0 0 0 0 0 0 -9.962724e-01 -1.824879e+00 1 4 1 4 1 21905027 21908970 1 21905110 83 21908994 24 3 1 0 4 79 0 15 1 -1 -21905028 -1 -21908971 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 1159 5 1 95049476 5 0 95239472 tandem_dup 189996 4 0 0 0 26_samples:0 95049476 95049708 233 57 95239286 95239472 187 35 RHOBTB3 IGR: 17Kb before RHOBTB3(+) ELL2 Intron of ELL2(-): 3Kb before exon 6 - 0 2.000000e-02 0 0 1 0 1 1 2.926707e-01 -7.200703e-01 1 4 1 4 1 95049476 95239472 1 95049462 -14 95239535 63 1 9.470925e-01 1 1 67 0 5 1 -1 -95049477 -1 -95239473 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2766 1163 5 1 99186430 19 0 5693616 inter_chr NaN 4 0 0 0 26_samples:0 99186430 99186575 146 21 5693501 5693616 116 31 LOC100133050 IGR: 529Kb before LOC100133050(-) LONP1 Exon 16 of LONP1(-) - 0 0 0 0 1 1 1 1 -1.364542e+00 -9.042050e-01 1 4 1 4 1 99186430 5693616 1 99186390 -40 5693696 80 1 8.061522e-01 1 0 69 62 TTGGGGTTGAAACATATTATATCACTACAGATTCTTCGACATCAATAGTACACCAAAGGAAT 14 1 -1 -99186431 -1 -5693617 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2766 1188 12 0 125103577 12 1 125104681 deletion 1104 4 0 0 0 26_samples:0 125103393 125103577 185 39 125104681 125104875 195 44 NCOR2 IGR: 52Kb after NCOR2(-) NCOR2 IGR: 53Kb after NCOR2(-) - 2.000000e-02 4.000000e-02 0 0 1 1 2 1 -5.359355e-01 -3.057671e-01 1 4 1 4 1 125103577 125104681 1 125103637 60 125104682 1 1 1 0 4 78 0 11 1 -1 -125103578 -1 -125104682 -1 -1 -1 -1 -1 -1 failed 0 0 Inf LUSC-66-2766 1200 17 1 52319165 17 0 52323057 tandem_dup 3918 4 0 0 0 26_samples:0 52319185 52319336 152 58 52322927 52323103 177 44 KIF2B IGR: 419Kb before KIF2B(+) KIF2B IGR: 423Kb before KIF2B(+) - 0 0 4.000000e-02 5.000000e-02 1 0 1 0 3.387044e-01 -3.057671e-01 1 4 1 4 1 52319185 52323103 1 52319165 -20 52323057 -46 14 9.698115e-01 1 0 87 0 24 1 -1 -52319186 -1 -52323104 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 1201 18 0 36318148 22 0 18965023 inter_chr NaN 4 0 0 0 26_samples:0 36318008 36318148 141 22 18964911 18965023 113 27 LOC647946 IGR: 469Kb before LOC647946(-) DGCR5 5'-UTR of DGCR5(+): 17Kb before coding start - 0 0 0 0 1 1 4 0 -1.318508e+00 -1.088340e+00 1 4 1 4 1 36318148 18965023 1 36318167 19 18965376 353 9 8.391236e-01 0 2 70 0 37 1 36318167 19 18965376 353 2 8.657764e-01 0 2 70 0 22 0 1.681818e+00 LUSC-66-2766 1202 18 0 39967297 22 1 18964894 inter_chr NaN 4 0 0 0 26_samples:0 39967048 39967222 175 35 18964888 18965020 133 19 RIT2 IGR: 356Kb before RIT2(-) DGCR5 5'-UTR of DGCR5(+): 17Kb before coding start - 0 0 0 0 2 0 4 0 -7.200703e-01 -1.456609e+00 1 4 1 4 1 39967222 18964888 1 39967297 75 18964894 6 5 9.952499e-01 0 3 88 0 21 1 39967576 354 18964897 9 2 7.694646e-01 0 3 76 0 22 1 9.545455e-01 LUSC-66-2766 1205 19 0 47744138 19 1 47752733 deletion 8691 4 0 0 0 26_samples:0 47743956 47744106 151 23 47752797 47752907 111 7 CCDC9 IGR: 16Kb before CCDC9(+) CCDC9 IGR: 7Kb before CCDC9(+) - 0 0 2.500000e-01 1.800000e-01 2 0 2 1 -1.272474e+00 -2.009013e+00 1 4 1 4 1 47744106 47752797 1 47744138 32 47752733 -64 9 9.405361e-01 0 1 64 2 CA 13 1 -1 -47744107 -1 -47752798 -1 -1 -1 -1 -1 -1 failed 0 1 Inf LUSC-66-2766 1209 22 1 19520680 22 1 22033540 long_range 2512860 4 0 0 0 26_samples:0 19520680 19520876 197 45 22033540 22033648 109 9 CLDN5 IGR: 8Kb after CLDN5(-) PPIL2 Intron of PPIL2(+): 2Kb before exon 7 - 0 0 2.000000e-02 4.000000e-02 2 0 2 0 -2.597334e-01 -1.916946e+00 1 4 1 4 1 19520680 22033540 1 -1 -19520681 -1 -22033541 -1 -1 -1 -1 -1 -1 failed 0 1 19520412 -268 22033640 100 1 9.675988e-01 1 0 73 0 3 0 0 TCGA-60-2719 2 19 0 23730555 19 0 23735923 inversion 5359 50 0 0 0 26_samples:0 23730086 23730563 478 75 23735627 23735922 296 68 ZNF675 IGR: 105Kb before ZNF675(-) ZNF675 IGR: 100Kb before ZNF675(-) - 1.000000e-02 5.000000e-02 1.000000e-02 0 1 2 3 0 1.257833e+00 7.223423e-01 9.831487e-01 4.915743e+01 1 4.915743e+01 1 23730563 23735922 1 23730555 -8 23735923 1 20 9.913300e-01 0 2 74 0 81 1 -1 -23730564 -1 -23735923 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 1 3 1 137729309 10 0 43100516 inter_chr NaN 51 0 0 0 26_samples:0 137729304 137729724 421 75 43100139 43100522 384 72 CLDN18 Intron of CLDN18(+): 17bp after exon 1 ZNF33B Intron of ZNF33B(-): 10Kb before exon 5 - 0 0 4.000000e-02 9.000000e-02 4 0 6 2 1.257833e+00 1.028337e+00 9.384953e-01 4.786326e+01 1 4.786326e+01 1 137729304 43100522 1 137729309 5 43100516 -6 20 9.876810e-01 1 2 58 0 79 1 -1 -137729305 -1 -43100523 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 4 23 1 46280139 23 1 46313489 inversion 33352 44 0 0 0 26_samples:0 46280132 46280487 356 64 46313484 46313786 303 69 ZNF673 IGR: 26Kb before ZNF673(+) ZNF673 Intron of ZNF673(+): 4Kb after exon 3 - 0 0 0 4.000000e-02 2 0 4 1 4.163477e-01 7.988410e-01 1 44 1 44 1 46280132 46313484 1 46280139 7 46313489 5 20 9.852847e-01 1 1 67 0 59 1 -1 -46280133 -1 -46313485 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 6 23 0 8289235 23 1 33684997 long_range 25395762 43 0 0 0 26_samples:0 8288956 8289240 285 52 33685002 33685305 304 56 VCX3B IGR: 144Kb before VCX3B(+) FAM47A IGR: 463Kb before FAM47A(-) - 0 0 0 0 3 0 2 0 -5.016361e-01 -1.956415e-01 1 43 1 43 1 8289240 33685002 1 8289235 -5 33684997 -5 20 9.865385e-01 0 2 75 0 59 1 -1 -8289241 -1 -33685003 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 5 7 0 65404695 7 1 68173549 long_range 2768854 43 0 0 0 26_samples:0 65404401 65404697 297 60 68173551 68173845 295 61 VKORC1L1 Intron of VKORC1L1(+): 9Kb before exon 2 AUTS2 IGR: 890Kb before AUTS2(+) - 1.000000e-02 0 4.000000e-02 8.000000e-02 6 2 4 1 1.103531e-01 1.868518e-01 9.464509e-01 4.069739e+01 1 4.069739e+01 1 65404697 68173551 1 65404695 -2 68173549 -2 20 9.688434e-01 0 3 62 0 59 1 -1 -65404698 -1 -68173552 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 10 23 0 58500360 23 1 58517885 deletion 17522 37 0 0 0 26_samples:0 58500081 58500365 285 54 58517887 58518257 371 55 ZXDA IGR: 568Kb before ZXDA(-) ZXDA IGR: 586Kb before ZXDA(-) - 3.000000e-02 7.000000e-02 5.000000e-02 9.000000e-02 5 1 3 0 -3.486388e-01 -2.721401e-01 9.953848e-01 3.682924e+01 1 3.682924e+01 1 58500365 58517887 1 58500360 -5 58517885 -2 20 8.985926e-01 0 1 64 1 C 52 1 58500360 -5 58517885 -2 1 9.021693e-01 0 1 64 1 C 4 1 13 TCGA-60-2719 11 23 1 50766091 23 0 50767961 tandem_dup 1879 36 0 0 0 26_samples:0 50766087 50766391 305 61 50767671 50767966 296 61 BMP15 IGR: 112Kb before BMP15(+) BMP15 IGR: 114Kb before BMP15(+) - 0 0 0 0 1 1 0 1 1.868518e-01 1.868518e-01 1 36 1 36 1 50766087 50767966 1 50766091 4 50767961 -5 20 9.584911e-01 1 1 69 8 CTCGCATC 47 1 -1 -50766088 -1 -50767967 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 15 6 0 2702941 6 1 2705495 deletion 2555 33 0 0 0 26_samples:0 2702650 2702947 298 69 2705502 2705792 291 64 MYLK4 Intron of MYLK4(-): 10Kb before exon 3 MYLK4 Intron of MYLK4(-): 12Kb before exon 3 Deletion within intron 0 0 0 0 1 0 0 0 7.988410e-01 4.163477e-01 1 33 1 33 1 2702947 2705502 1 2702941 -6 2705495 -7 20 9.897028e-01 0 2 74 0 36 1 -1 -2702948 -1 -2705503 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 12 12 0 132188836 12 1 132190695 deletion 1831 35 0 0 0 26_samples:0 132188555 132188855 301 65 132190686 132190985 300 67 SFRS8 IGR: 7Kb before SFRS8(+) SFRS8 IGR: 5Kb before SFRS8(+) - 2.000000e-02 0 3.000000e-02 4.000000e-02 2 1 6 1 4.928464e-01 6.458437e-01 9.374914e-01 3.281220e+01 1 3.281220e+01 1 132188855 132190686 1 132188836 -19 132190695 9 6 9.944474e-01 0 8 103 0 19 1 -1 -132188856 -1 -132190687 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 16 23 1 2485207 23 0 32840998 long_range 30355794 32 0 0 0 26_samples:0 2485208 2485609 402 67 32840726 32841002 277 43 NCRNA00103 IGR: 42Kb before NCRNA00103(+) DMD Intron of DMD(-): 410bp after exon 5 - 0 0 0 0 3 1 1 0 6.458437e-01 -1.190124e+00 1 32 1 32 1 2485208 32841002 1 2485207 -1 32840998 -4 14 8.727432e-01 1 2 66 36 AATTGAATTCAATGCAGAGTGAGATTGCATTGAATC 47 1 -1 -2485209 -1 -32841003 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 13 17 1 4579529 17 0 4824498 tandem_dup 244977 34 0 0 0 26_samples:0 4579527 4579857 331 77 4824193 4824504 312 70 PELP1 Intron of PELP1(-): 70bp before exon 8 GP1BA IGR: 11Kb before GP1BA(+) - 0 0 0 6.000000e-02 1 1 3 0 1.410830e+00 8.753396e-01 9.351558e-01 3.179530e+01 1 3.179530e+01 1 4579527 4824504 1 4579529 2 4824498 -6 19 9.861512e-01 1 3 76 0 32 1 -1 -4579528 -1 -4824505 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 14 23 1 6393502 23 1 22023145 long_range 15629652 34 0 0 0 26_samples:0 6393494 6393831 338 64 22023146 22023565 420 78 VCX3A IGR: 58Kb before VCX3A(-) PHEX IGR: 28Kb before PHEX(+) - 0 0 1.000000e-02 3.000000e-02 3 1 3 0 4.163477e-01 1.487329e+00 8.962698e-01 3.047317e+01 1 3.047317e+01 1 6393494 22023146 1 6393502 8 22023145 -1 20 9.843406e-01 1 1 74 1 A 72 1 -1 -6393495 -1 -22023147 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 17 15 0 96125240 19 0 13138787 inter_chr NaN 30 0 0 0 26_samples:0 96124909 96125222 314 62 13138461 13138797 337 61 LOC145820 IGR: 149Kb before LOC145820(+) NFIX Intron of NFIX(+): 2Kb after exon 2 - 0 0 0 0 2 1 1 0 2.633504e-01 1.868518e-01 1 30 1 30 1 96125222 13138797 1 96125240 18 13138787 -10 18 9.632662e-01 0 2 67 0 30 1 -1 -96125223 -1 -13138798 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 19 14 0 41795701 14 1 42057305 deletion 261596 29 0 0 0 26_samples:0 41795392 41795708 317 63 42057304 42057600 297 70 LRFN5 IGR: 281Kb before LRFN5(+) LRFN5 IGR: 19Kb before LRFN5(+) - 5.000000e-02 5.000000e-02 0 0 2 2 2 1 3.312841e-01 8.105917e-01 1 29 1 29 1 41795708 42057304 1 41795701 -7 42057305 1 20 9.925811e-01 0 2 75 0 25 1 -1 -41795709 -1 -42057305 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 20 23 1 18537396 23 0 31745324 long_range 13207937 29 0 0 0 26_samples:0 18537395 18537648 254 46 31745033 31745332 300 57 CDKL5 Intron of CDKL5(+): 8Kb after exon 3 DMD Intron of DMD(-): 2Kb after exon 52 - 0 0 0 0 1 1 1 1 -8.327484e-01 -7.955087e-02 1 29 1 29 1 18537395 31745332 1 18537396 1 31745324 -8 18 9.992541e-01 1 1 78 0 25 1 -1 -18537396 -1 -31745333 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 18 1 1 56860961 1 0 57357029 tandem_dup 496050 29 0 0 0 26_samples:0 56860961 56861236 276 56 57356725 57357011 287 58 PPAP2B IGR: 99Kb before PPAP2B(-) C8A Intron of C8A(+): 5Kb after exon 7 - 1.000000e-02 0 0 0 5 0 2 0 -1.480234e-01 -1.107837e-02 9.937335e-01 2.881827e+01 1 2.881827e+01 1 56860961 57357011 1 56860961 0 57357029 18 20 9.938702e-01 1 2 74 0 34 1 -1 -56860962 -1 -57357012 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 22 23 1 57428924 23 0 57452964 tandem_dup 24040 28 0 0 0 26_samples:0 57428929 57429252 324 55 57452596 57452969 374 65 FAAH2 Intron of FAAH2(+): 21Kb after exon 7 FAAH2 Intron of FAAH2(+): 5Kb before exon 8 Duplication within intron 1.000000e-02 5.000000e-02 0 0 3 1 3 1 -2.164959e-01 4.682291e-01 1 28 1 28 1 57428929 57452969 1 57428924 -5 57452964 -5 16 9.447650e-01 1 0 63 36 CACTTAAAACCGTTTGCTTAAATATCTTTTTAGAAA 92 1 -1 -57428930 -1 -57452970 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 24 8 1 99694601 8 0 99937550 tandem_dup 242933 27 0 0 0 26_samples:0 99694601 99694872 272 52 99937278 99937534 257 46 STK3 Intron of STK3(-): 24Kb after exon 6 OSR2 IGR: 19Kb before OSR2(+) - 0 0 0 0 1 0 2 0 -4.219134e-01 -8.327484e-01 1 27 1 27 1 99694601 99937534 1 99694601 0 99937550 16 14 9.981786e-01 1 1 82 0 17 1 -1 -99694602 -1 -99937535 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 25 23 0 3519881 23 0 31669749 long_range 28149894 27 0 0 0 26_samples:0 3519542 3519863 322 62 31669440 31669757 318 59 PRKX IGR: 3Kb before PRKX(-) DMD Intron of DMD(-): 6Kb after exon 54 - 1.000000e-02 0 0 0 5 1 3 1 2.628116e-01 5.739414e-02 9.932675e-01 2.681822e+01 1 2.681822e+01 1 3519863 31669757 1 3519881 18 31669749 -8 20 9.853488e-01 0 3 63 0 42 1 -1 -3519864 -1 -31669758 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 26 23 1 3519381 23 0 31669224 long_range 28149829 27 0 0 0 26_samples:0 3519399 3519652 254 48 31668986 31669228 243 45 PRKX IGR: 3Kb before PRKX(-) DMD Intron of DMD(-): 7Kb after exon 54 - 1.000000e-02 1.000000e-01 0 0 5 1 5 0 -6.958034e-01 -9.012209e-01 9.865804e-01 2.663767e+01 1 2.663767e+01 1 3519399 31669228 1 3519381 -18 31669224 -4 7 9.950627e-01 1 4 67 0 26 1 -1 -3519400 -1 -31669229 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 8 23 0 6428071 23 0 22053793 long_range 15625715 37 0 0 0 26_samples:0 6427676 6428077 402 78 22053390 22053792 403 80 VCX3A IGR: 24Kb before VCX3A(-) PHEX Intron of PHEX(+): 3Kb after exon 1 - 0 0 0 0 2 1 2 2 1.487329e+00 1.640326e+00 7.098914e-01 2.626598e+01 1 2.626598e+01 1 6428077 22053792 1 6428071 -6 22053793 1 20 9.917753e-01 0 5 72 0 55 1 -1 -6428078 -1 -22053793 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 27 23 0 7072354 23 1 8475242 long_range 1402886 26 0 0 0 26_samples:0 7072093 7072351 259 49 8475237 8475483 247 53 HDHD1A IGR: 6Kb after HDHD1A(-) KAL1 IGR: 22Kb before KAL1(-) - 0 0 1.000000e-02 3.000000e-02 3 1 3 1 -6.273309e-01 -3.534409e-01 1 26 1 26 1 7072351 8475237 1 7072354 3 8475242 5 17 9.927622e-01 0 0 71 0 33 1 7072552 201 8475270 33 1 7.651949e-01 0 0 75 1 G 5 1 6.600000e+00 TCGA-60-2719 28 13 1 20565596 13 0 20571757 tandem_dup 6144 25 0 0 0 26_samples:0 20565616 20565872 257 49 20571420 20571760 341 60 ZMYM2 5'-UTR of ZMYM2(+): 2Kb before coding start ZMYM2 Intron of ZMYM2(+): 4Kb after exon 4 Duplication within transcript 0 5.000000e-02 0 0 1 2 0 1 -6.273309e-01 1.258666e-01 1 25 1 25 1 20565616 20571760 1 20565596 -20 20571757 -3 10 9.648735e-01 1 3 74 1 C 24 1 -1 -20565617 -1 -20571761 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 30 23 1 9358233 23 1 14875139 long_range 5516910 25 0 0 0 26_samples:0 9358234 9358518 285 52 14875144 14875412 269 52 TBL1X IGR: 73Kb before TBL1X(+) FANCB Intron of FANCB(-): 840bp after exon 5 - 0 4.000000e-02 0 0 4 0 2 1 -4.219134e-01 -4.219134e-01 1 25 1 25 1 9358234 14875144 1 9358233 -1 14875139 -5 20 9.963341e-01 1 2 76 0 32 1 -1 -9358235 -1 -14875145 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 29 23 1 7070859 23 0 8235905 long_range 1165031 25 0 0 0 26_samples:0 7070853 7071177 325 45 8235486 8235884 399 76 HDHD1A IGR: 5Kb after HDHD1A(-) VCX2 IGR: 98Kb before VCX2(-) - 0 0 0 0 4 0 4 0 -9.012209e-01 1.221427e+00 9.892601e-01 2.473150e+01 1 2.473150e+01 1 7070853 8235884 1 7070859 6 8235905 21 20 9.920487e-01 1 3 93 0 27 1 -1 -7070854 -1 -8235885 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 31 21 1 42901911 21 0 43211481 tandem_dup 309578 24 0 0 0 26_samples:0 42901911 42902237 327 63 43211219 43211489 271 56 TMPRSS2 IGR: 22Kb after TMPRSS2(-) PRDM15 IGR: 7Kb before PRDM15(-) - 0 0 2.000000e-02 0 3 1 3 1 3.312841e-01 -1.480234e-01 1 24 1 24 1 42901911 43211489 1 42901911 0 43211481 -8 17 9.881123e-01 1 1 70 0 23 1 -1 -42901912 -1 -43211490 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 32 23 0 102942323 23 1 102947661 deletion 5327 24 0 0 0 26_samples:0 102942076 102942330 255 50 102947657 102947937 281 57 MORF4L2 5'-UTR of MORF4L2(-): 10Kb before coding start MORF4L2 IGR: 5Kb after MORF4L2(-) - 0 0 0 0 0 0 1 1 -5.588584e-01 -7.955087e-02 1 24 1 24 1 102942330 102947657 1 102942323 -7 102947661 4 20 9.926783e-01 0 0 63 0 36 1 102942535 205 102947474 -183 1 8.038865e-01 0 4 88 0 3 1 12 TCGA-60-2719 33 23 0 8292218 23 1 31669740 long_range 23377514 24 0 0 0 26_samples:0 8291903 8292221 319 60 31669735 31670027 293 62 VCX3B IGR: 141Kb before VCX3B(+) DMD Intron of DMD(-): 6Kb after exon 54 - 0 0 0 0 1 1 4 0 1.258666e-01 2.628116e-01 1 24 1 24 1 8292221 31669735 1 8292218 -3 31669740 5 19 9.814651e-01 0 4 79 0 30 1 -1 -8292222 -1 -31669736 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 34 23 1 8236032 23 1 8289914 inversion 53889 23 0 0 0 26_samples:0 8236026 8236316 291 57 8289915 8290195 281 54 VCX2 IGR: 98Kb before VCX2(-) VCX3B IGR: 143Kb before VCX3B(+) - 0 0 0 0 3 0 4 0 -7.955087e-02 -2.849684e-01 1 23 1 23 1 8236026 8289915 1 8236032 6 8289914 -1 20 9.964239e-01 1 2 77 0 32 1 -1 -8236027 -1 -8289916 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 9 23 1 43296154 23 0 44512248 long_range 1216101 37 0 0 0 26_samples:0 43296154 43296453 300 62 44511961 44512255 295 64 MAOA IGR: 219Kb before MAOA(+) FUNDC1 IGR: 129Kb before FUNDC1(-) - 0 0 3.000000e-02 5.000000e-02 8 0 5 1 2.633504e-01 4.163477e-01 6.028019e-01 2.230367e+01 1 2.230367e+01 1 43296154 44512255 1 43296154 0 44512248 -7 20 9.748412e-01 1 6 75 0 61 1 -1 -43296155 -1 -44512256 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 35 23 1 3400073 23 0 8171171 long_range 4771075 22 0 0 0 26_samples:0 3400093 3400345 253 45 8170883 8171168 286 56 PRKX IGR: 122Kb before PRKX(-) VCX2 IGR: 33Kb before VCX2(-) - 1.000000e-02 0 0 0 4 1 5 0 -9.012209e-01 -1.480234e-01 9.920043e-01 2.182409e+01 1 2.182409e+01 1 3400093 8171168 1 3400073 -20 8171171 3 10 9.983842e-01 1 4 78 0 17 1 -1 -3400094 -1 -8171169 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 36 23 1 7328264 23 1 8288404 inversion 960153 22 0 0 0 26_samples:0 7328262 7328533 272 55 8288415 8288676 262 52 STS IGR: 56Kb after STS(+) VCX3B IGR: 144Kb before VCX3B(+) - 0 0 0 0 3 0 5 0 -2.164959e-01 -4.219134e-01 9.920043e-01 2.182409e+01 1 2.182409e+01 1 7328262 8288415 1 7328264 2 8288404 -11 15 9.595515e-01 1 1 66 2 AT 29 1 7328240 -22 8288213 -202 1 7.734755e-01 1 3 83 0 3 1 9.666667e+00 TCGA-60-2719 38 23 0 7328530 23 0 31667554 long_range 24339006 21 0 0 0 26_samples:0 7328296 7328536 241 41 31667271 31667542 272 52 STS IGR: 56Kb after STS(+) DMD Intron of DMD(-): 9Kb after exon 54 - 0 0 0 0 3 0 3 0 -1.175111e+00 -4.219134e-01 1 21 1 21 1 7328536 31667542 1 7328530 -6 31667554 12 4 9.325454e-01 0 0 88 0 25 1 -1 -7328537 -1 -31667543 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 39 23 1 84473463 23 0 84579829 tandem_dup 106366 21 0 0 0 26_samples:0 84473468 84473796 329 71 84579567 84579834 268 48 ZNF711 IGR: 26Kb before ZNF711(+) POF1B Intron of POF1B(-): 6Kb after exon 7 - 0 0 0 0 1 1 3 0 8.790642e-01 -6.958034e-01 1 21 1 21 1 84473468 84579834 1 84473463 -5 84579829 -5 14 9.786764e-01 1 4 67 0 19 1 -1 -84473469 -1 -84579835 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 40 23 1 3329876 23 0 7143444 long_range 3813548 21 0 0 0 26_samples:0 3329878 3330228 351 71 7143112 7143426 315 63 MXRA5 IGR: 103Kb before MXRA5(-) STS Intron of STS(+): 6Kb after exon 1 - 1.000000e-02 0 0 0 3 0 2 0 8.790642e-01 3.312841e-01 1 21 1 21 1 3329878 7143426 1 3329876 -2 7143444 18 19 9.975172e-01 1 6 75 0 38 1 -1 -3329879 -1 -7143427 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 41 17 1 26679648 17 1 26681476 inversion 1855 20 0 0 0 26_samples:0 26679648 26679971 324 69 26681503 26681756 254 48 POLDIP2 Intron of POLDIP2(-): 290bp after exon 6 POLDIP2 Intron of POLDIP2(-): 11bp after exon 3 Antisense fusion 5.000000e-02 5.000000e-02 0 0 4 1 3 1 7.421192e-01 -6.958034e-01 1 20 1 20 1 26679648 26681503 1 26679648 0 26681476 -27 20 9.031699e-01 1 0 75 2 CA 38 1 -1 -26679649 -1 -26681504 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 43 19 1 23618912 19 1 23705091 inversion 86176 20 0 0 0 26_samples:0 23618910 23619217 308 68 23705086 23705375 290 63 ZNF91 IGR: 41Kb after ZNF91(-) ZNF675 IGR: 131Kb before ZNF675(-) - 5.000000e-02 1.100000e-01 0 0 2 0 4 0 6.736467e-01 3.312841e-01 1 20 1 20 1 23618910 23705086 1 23618912 2 23705091 5 10 9.845120e-01 1 2 74 0 24 1 -1 -23618911 -1 -23705087 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 44 23 0 8237711 23 1 18605185 long_range 10367462 20 0 0 0 26_samples:0 8237410 8237721 312 56 18605183 18605478 296 64 VCX2 IGR: 100Kb before VCX2(-) CDKL5 Intron of CDKL5(+): 891bp before exon 9 - 0 0 0 0 4 0 3 0 -1.480234e-01 3.997566e-01 1 20 1 20 1 8237721 18605183 1 8237711 -10 18605185 2 14 9.997149e-01 0 4 69 0 23 1 8237762 41 18604980 -203 1 7.675367e-01 0 2 73 0 3 1 7.666667e+00 TCGA-60-2719 45 23 1 8237684 23 0 18605193 long_range 10367518 20 0 0 0 26_samples:0 8237677 8237981 305 61 18604900 18605195 296 57 VCX2 IGR: 100Kb before VCX2(-) CDKL5 Intron of CDKL5(+): 879bp before exon 9 - 0 0 0 0 4 0 3 0 1.943391e-01 -7.955087e-02 1 20 1 20 1 8237677 18605195 1 8237684 7 18605193 -2 18 1 1 1 71 0 24 1 8237511 -166 18605152 -43 1 9.784944e-01 1 0 68 0 2 1 12 TCGA-60-2719 48 11 0 42188107 11 1 42203167 deletion 15061 19 0 0 0 26_samples:0 42187850 42188099 250 47 42203160 42203435 276 59 API5 IGR: 1Mb before API5(+) API5 IGR: 1Mb before API5(+) - 3.000000e-02 1.500000e-01 0 0 3 0 4 1 -6.786393e-01 7.442895e-02 1 19 1 19 1 42188099 42203160 1 42188107 8 42203167 7 17 9.742436e-01 0 2 68 0 22 1 -1 -42188100 -1 -42203161 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 51 23 0 1585412 23 0 15932754 long_range 14347341 19 0 0 0 26_samples:0 1585110 1585413 304 58 15932462 15932754 293 63 P2RY8 Exon 2 of P2RY8(-) AP1S2 IGR: 60Kb after AP1S2(-) - 0 0 0 3.000000e-02 1 0 2 0 1.167326e-02 3.254517e-01 1 19 1 19 1 1585413 15932754 1 1585412 -1 15932754 0 17 9.889542e-01 0 2 76 0 43 1 1585464 51 15932955 201 1 7.673127e-01 0 0 63 27 AGGAGAAAGAAATGGAAGATGGCTGCT 9 1 4.777778e+00 TCGA-60-2719 53 23 0 8475506 23 0 31668827 long_range 23193312 19 0 0 0 26_samples:0 8475242 8475494 253 48 31668541 31668806 266 53 KAL1 IGR: 21Kb before KAL1(-) DMD Intron of DMD(-): 7Kb after exon 54 - 1.000000e-02 3.000000e-02 0 0 3 1 3 1 -6.158836e-01 -3.021052e-01 1 19 1 19 1 8475494 31668806 1 8475506 12 31668827 21 4 9.946244e-01 0 5 69 0 18 1 -1 -8475495 -1 -31668807 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 55 23 0 7069692 23 0 7327043 inversion 257340 18 0 0 0 26_samples:0 7069444 7069690 247 50 7326780 7327030 251 49 HDHD1A IGR: 3Kb after HDHD1A(-) STS IGR: 54Kb after STS(+) - 0 0 0 0 3 0 2 1 -4.903722e-01 -5.531279e-01 1 18 1 18 1 7069690 7327030 1 7069692 2 7327043 13 20 9.006162e-01 0 1 69 1 A 48 1 -1 -7069691 -1 -7327031 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 50 19 1 39366671 19 1 39368365 inversion 1701 19 0 0 0 26_samples:0 39366677 39366930 254 47 39368378 39368711 334 81 RINL 5'-UTR of RINL(-): 4Kb before coding start RINL 5'-UTR of RINL(-): 6Kb before coding start Antisense fusion 0 0 0 3.000000e-02 1 2 1 2 -6.786393e-01 1.455054e+00 9.138847e-01 1.736381e+01 1 1.736381e+01 1 39366677 39368378 1 39366671 -6 39368365 -13 20 9.102568e-01 1 0 59 2 TC 28 1 -1 -39366678 -1 -39368379 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 56 4 0 40479896 7 1 82588118 inter_chr NaN 17 0 0 0 26_samples:0 40479610 40479896 287 61 82588110 82588396 287 53 RBM47 5'-UTR of RBM47(-): 39Kb before coding start PCLO Intron of PCLO(-): 2Kb before exon 5 Transcript fusion (PCLO-RBM47) 0 0 2.000000e-02 0 3 0 4 1 1.999403e-01 -3.021052e-01 1 17 1 17 1 40479896 82588110 1 40479896 0 82588118 8 20 9.929203e-01 0 0 61 0 25 1 -1 -40479897 -1 -82588111 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 47 6 0 164507164 6 1 164512408 deletion 5265 19 0 0 0 26_samples:0 164506943 164507166 224 49 164512431 164512730 300 59 QKI IGR: 671Kb before QKI(+) QKI IGR: 677Kb before QKI(+) - 0 0 6.000000e-02 8.000000e-02 6 0 1 0 -5.531279e-01 7.442895e-02 8.888889e-01 1.688889e+01 1 1.688889e+01 1 164507166 164512431 1 164507164 -2 164512408 -23 14 9.718980e-01 0 1 75 0 24 1 -1 -164507167 -1 -164512432 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 58 23 1 8288411 23 0 18516312 long_range 10227899 17 0 0 0 26_samples:0 8288414 8288695 282 57 18515977 18516313 337 65 VCX3B IGR: 144Kb before VCX3B(+) CDKL5 5'-UTR of CDKL5(+): 9Kb before coding start - 0 0 0 0 5 0 3 0 -5.108243e-02 4.509631e-01 9.846154e-01 1.673846e+01 1 1.673846e+01 1 8288414 18516313 1 8288411 -3 18516312 -1 14 9.386062e-01 1 0 73 1 A 20 1 -1 -8288415 -1 -18516314 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 59 6 1 52668325 6 0 52933818 tandem_dup 265425 16 0 0 0 26_samples:0 52668393 52668640 248 43 52933602 52933818 217 45 GSTA1 5'-UTR of GSTA1(-): 4Kb before coding start FBXO9 Intron of FBXO9(+): 2Kb before exon 2 Antisense fusion 1.000000e-01 4.000000e-02 1.000000e-02 5.000000e-02 2 0 4 1 -9.296621e-01 -8.041507e-01 1 16 1 16 1 52668393 52933818 1 52668325 -68 52933818 0 20 9.547671e-01 1 1 61 0 38 1 -1 -52668394 -1 -52933819 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 63 3 0 104295854 3 0 104297696 inversion 1845 15 0 0 0 26_samples:0 104295565 104295850 286 60 104297428 104297695 268 59 MIR548A3 IGR: 392Kb before MIR548A3(-) MIR548A3 IGR: 394Kb before MIR548A3(-) - 0 0 0 0 2 0 0 0 1.371846e-01 7.442895e-02 1 15 1 15 1 104295850 104297695 1 104295854 4 104297696 1 13 9.577635e-01 0 2 77 12 GTAAGACACCTT 34 1 -1 -104295851 -1 -104297696 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 66 22 0 43414385 22 1 43416469 deletion 2120 15 0 0 0 26_samples:0 43414085 43414359 275 50 43416479 43416750 272 52 PACSIN2 IGR: 3Kb after PACSIN2(-) PACSIN2 IGR: 5Kb after PACSIN2(-) - 0 0 8.000000e-02 6.000000e-02 2 0 1 1 -4.903722e-01 -3.648609e-01 1 15 1 15 1 43414359 43416479 1 43414385 26 43416469 -10 20 9.825589e-01 0 6 77 0 29 1 43414385 26 43416469 -10 1 9.591374e-01 0 6 77 0 3 1 9.666667e+00 TCGA-60-2719 68 23 0 34945258 23 1 57802797 long_range 22857542 15 0 0 0 26_samples:0 34945023 34945254 232 45 57802796 57803032 237 44 FAM47B IGR: 16Kb before FAM47B(+) ZXDA IGR: 129Kb before ZXDA(-) - 0 0 0 0 1 1 1 1 -8.041507e-01 -8.669064e-01 1 15 1 15 1 34945254 57802796 1 34945258 4 57802797 1 11 9.283409e-01 0 2 74 50 CTCACTCTGTCACCCAGGCTGGAGTGCAGTGGCGTGATCTCGGCTCACTG 48 1 -1 -34945255 -1 -57802797 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 65 19 1 23634859 19 1 23731396 inversion 96533 15 0 0 0 26_samples:0 23634857 23635168 312 71 23731390 23731683 294 76 ZNF91 IGR: 57Kb after ZNF91(-) ZNF675 IGR: 104Kb before ZNF675(-) - 2.000000e-02 1.400000e-01 0 4.000000e-02 4 3 4 2 8.274972e-01 1.141276e+00 9.971882e-01 1.495782e+01 1 1.495782e+01 1 23634857 23731390 1 23634859 2 23731396 6 12 9.871067e-01 1 0 75 0 22 1 -1 -23634858 -1 -23731391 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 61 23 1 8289026 23 1 31668273 long_range 23379213 16 0 0 0 26_samples:0 8289056 8289310 255 53 31668269 31668465 197 38 VCX3B IGR: 144Kb before VCX3B(+) DMD Intron of DMD(-): 8Kb after exon 54 - 0 0 0 0 2 0 6 1 -3.021052e-01 -1.243440e+00 8.888889e-01 1.422222e+01 1 1.422222e+01 1 8289056 31668269 1 8289026 -30 31668273 4 10 9.992009e-01 1 4 64 0 16 1 -1 -8289057 -1 -31668270 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 71 3 1 153383643 3 0 153419447 tandem_dup 35803 14 0 0 0 26_samples:0 153383649 153383950 302 64 153419179 153419452 274 56 C3orf79 IGR: 181Kb before C3orf79(+) C3orf79 IGR: 217Kb before C3orf79(+) - 0 0 0 0 1 1 3 0 3.839626e-01 -8.728792e-02 1 14 1 14 1 153383649 153419452 1 153383643 -6 153419447 -5 15 9.953340e-01 1 1 76 0 25 1 -1 -153383650 -1 -153419453 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 72 12 0 16194090 12 1 16195834 deletion 1790 14 0 0 0 26_samples:0 16193815 16194046 232 38 16195836 16196048 213 39 DERA IGR: 4Kb after DERA(+) DERA IGR: 6Kb after DERA(+) - 2.000000e-02 0 1.000000e-02 3.000000e-02 1 0 1 0 -1.147602e+00 -1.088695e+00 1 14 1 14 1 16194046 16195836 1 16194090 44 16195834 -2 12 9.985463e-01 0 3 76 0 16 1 16193952 -94 16195634 -202 1 8.500349e-01 0 1 82 1 A 5 1 3.200000e+00 TCGA-60-2719 70 3 1 103594984 3 1 103596482 inversion 1485 14 0 0 0 26_samples:0 103595000 103595331 332 80 103596485 103596848 364 73 MIR548A3 IGR: 308Kb before MIR548A3(-) MIR548A3 IGR: 307Kb before MIR548A3(-) - 0 0 0 0 1 0 2 0 1.326464e+00 9.141195e-01 9.663759e-01 1.352926e+01 1 1.352926e+01 1 103595000 103596485 1 103594984 -16 103596482 -3 6 9.993342e-01 1 3 73 0 12 1 -1 -103595001 -1 -103596486 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 74 1 1 212287460 1 0 212340244 tandem_dup 52765 13 0 0 0 26_samples:0 212287481 212287705 225 39 212339991 212340246 256 43 DTL IGR: 9Kb after DTL(+) DTL IGR: 62Kb after DTL(+) - 0 0 0 0 2 0 2 0 -1.088695e+00 -8.530701e-01 1 13 1 13 1 212287481 212340246 1 212287460 -21 212340244 -2 8 9.805284e-01 1 2 84 0 18 1 212287275 -206 212340328 82 1 7.671219e-01 1 5 76 0 1 1 18 TCGA-60-2719 77 7 0 63545226 23 1 75670522 inter_chr NaN 13 0 0 0 26_samples:0 63544958 63545226 269 52 75670528 75670877 350 71 ZNF727 IGR: 6Kb after ZNF727(+) MAGEE1 IGR: 22Kb before MAGEE1(+) - 0 0 0 0 2 0 1 1 -3.229132e-01 7.963069e-01 1 13 1 13 1 63545226 75670528 1 63545226 0 75670522 -6 20 9.998005e-01 0 4 69 0 23 1 -1 -63545227 -1 -75670529 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 79 18 0 74620596 18 1 74622451 deletion 1906 12 0 0 0 26_samples:0 74620264 74620547 284 52 74622453 74622664 212 38 ZNF236 Intron of ZNF236(+): 18bp after exon 14 ZNF236 Intron of ZNF236(+): 163bp before exon 16 Deletion of 1 exon: in frame 0 0 0 0 0 0 1 0 -3.229132e-01 -1.147602e+00 1 12 1 12 1 74620547 74622453 1 74620596 49 74622451 -2 9 9.749407e-01 0 2 69 0 14 1 -1 -74620548 -1 -74622454 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 81 23 1 7329626 23 1 31668987 long_range 24339346 12 0 0 0 26_samples:0 7329632 7329876 245 41 31668978 31669204 227 41 STS IGR: 57Kb after STS(+) DMD Intron of DMD(-): 7Kb after exon 54 - 0 0 0 0 2 0 5 0 -9.708827e-01 -9.708827e-01 9.846154e-01 1.181538e+01 1 1.181538e+01 1 7329632 31668978 1 7329626 -6 31668987 9 16 9.954859e-01 1 0 66 0 24 1 -1 -7329633 -1 -31668979 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 60 7 0 69426689 7 1 69896964 deletion 470273 16 0 0 0 26_samples:0 69426266 69426694 429 86 69896967 69897231 265 59 AUTS2 Intron of AUTS2(+): 62Kb after exon 2 AUTS2 Intron of AUTS2(+): 4Kb before exon 5 Deletion of 2 exons: in frame 0 0 0 0 1 1 2 0 1.768833e+00 7.442895e-02 6.875406e-01 1.100065e+01 1 1.100065e+01 1 69426694 69896967 1 69426689 -5 69896964 -3 20 9.945035e-01 0 2 74 0 27 1 -1 -69426695 -1 -69896968 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 83 23 1 8475680 23 1 31773715 long_range 23298019 11 0 0 0 26_samples:0 8475704 8475974 271 52 31773723 31774084 362 75 KAL1 IGR: 21Kb before KAL1(-) DMD Intron of DMD(-): 18Kb after exon 51 - 6.000000e-02 6.000000e-02 0 0 3 1 2 0 -2.853331e-01 9.829215e-01 1 11 1 11 1 8475704 31773723 1 8475680 -24 31773715 -8 9 9.830818e-01 1 3 62 0 13 1 -1 -8475705 -1 -31773724 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 85 4 1 111033793 9 0 27445512 inter_chr NaN 10 0 0 0 26_samples:0 111033803 111033934 132 16 27445197 27445396 200 33 ELOVL6 Intron of ELOVL6(-): 7Kb before exon 2 MOBKL2B Intron of MOBKL2B(-): 10Kb after exon 2 Protein fusion: out of frame (ELOVL6-MOBKL2B) 4.000000e-02 3.000000e-02 0 0 2 1 3 0 -2.270427e+00 -1.333022e+00 1 10 1 10 1 111033803 27445396 1 111033793 -10 27445512 116 10 9.826452e-01 1 3 71 0 16 1 -1 -111033804 -1 -27445397 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 86 4 1 65095033 19 0 41336978 inter_chr NaN 10 0 0 0 26_samples:0 65095028 65095195 168 24 41336723 41336874 152 33 TECRL IGR: 49Kb before TECRL(-) CYP2A6 IGR: 13Kb before CYP2A6(-) - 0 0 2.000000e-02 4.000000e-02 3 1 2 0 -1.829295e+00 -1.333022e+00 1 10 1 10 1 65095028 41336874 1 65095033 5 41336978 104 11 9.704364e-01 1 2 74 0 25 1 -1 -65095029 -1 -41336875 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 82 4 0 65095206 19 0 41338363 inter_chr NaN 11 0 0 0 26_samples:0 65095039 65095207 169 26 41338108 41338278 171 21 TECRL IGR: 49Kb before TECRL(-) CYP2A6 IGR: 11Kb before CYP2A6(-) - 0 0 1.000000e-02 0 3 1 6 0 -1.719012e+00 -1.994720e+00 8.888889e-01 9.777778e+00 1 9.777778e+00 1 65095207 41338278 1 65095206 -1 41338363 85 13 9.660018e-01 0 1 69 0 27 1 -1 -65095208 -1 -41338279 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 46 23 0 8288408 23 1 31667543 long_range 23379121 20 0 0 0 26_samples:0 8288102 8288413 312 74 31667534 31667888 355 88 VCX3B IGR: 144Kb before VCX3B(+) DMD Intron of DMD(-): 9Kb after exon 54 - 0 0 1.000000e-02 4.000000e-02 3 0 3 0 1.084482e+00 2.043097e+00 4.681145e-01 9.362290e+00 1 9.362290e+00 1 8288413 31667534 1 8288408 -5 31667543 9 20 9.925250e-01 0 7 76 0 37 1 8288616 203 31667601 67 1 7.501731e-01 0 2 85 0 3 1 1.233333e+01 TCGA-60-2719 93 1 0 95737721 10 0 6922652 inter_chr NaN 9 0 0 0 26_samples:0 95737428 95737727 300 62 6922368 6922649 282 58 RWDD3 IGR: 38Kb before RWDD3(+) SFMBT2 IGR: 282Kb before SFMBT2(-) - 0 0 0 0 2 0 2 0 2.723429e-01 6.585763e-02 1 9 1 9 1 95737727 6922649 1 95737721 -6 6922652 3 7 9.725956e-01 0 2 75 0 12 1 -1 -95737728 -1 -6922650 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 97 6 1 134514229 6 0 134818309 tandem_dup 304022 9 0 0 0 26_samples:0 134514257 134514500 244 52 134818038 134818279 242 66 SGK1 Intron of SGK1(-): 14Kb after exon 3 SGK1 IGR: 328Kb before SGK1(-) - 0 0 1.000000e-02 0 1 1 2 0 -2.438703e-01 4.788281e-01 1 9 1 9 1 134514257 134818279 1 134514229 -28 134818309 30 6 9.033082e-01 1 2 73 0 14 1 -1 -134514258 -1 -134818280 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 98 7 1 69999149 7 0 70125388 tandem_dup 126218 9 0 0 0 26_samples:0 69999161 69999427 267 57 70125124 70125379 256 47 AUTS2 Intron of AUTS2(+): 98Kb after exon 5 AUTS2 Intron of AUTS2(+): 38Kb before exon 6 Duplication within intron 0 7.000000e-02 2.000000e-02 3.000000e-02 2 0 2 1 1.423631e-02 -5.019768e-01 1 9 1 9 1 69999161 70125379 1 69999149 -12 70125388 9 9 9.933567e-01 1 0 76 0 12 1 -1 -69999162 -1 -70125380 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 99 10 1 6737938 10 1 6739769 inversion 1834 9 0 0 0 26_samples:0 6737944 6738236 293 56 6739778 6740024 247 59 PRKCQ IGR: 269Kb before PRKCQ(-) PRKCQ IGR: 271Kb before PRKCQ(-) - 0 0 0 0 0 0 0 0 -3.738500e-02 1.174789e-01 1 9 1 9 1 6737944 6739778 1 6737938 -6 6739769 -9 2 1 1 4 73 0 3 1 -1 -6737945 -1 -6739779 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 101 14 0 61047822 14 0 61058311 inversion 10438 9 0 0 0 26_samples:0 61047564 61047799 236 46 61058073 61058237 165 38 SIX1 IGR: 64Kb before SIX1(-) SIX1 IGR: 53Kb before SIX1(-) - 0 0 0 0 1 0 1 1 -5.535982e-01 -9.665687e-01 1 9 1 9 1 61047799 61058237 1 61047822 23 61058311 74 20 9.896491e-01 0 0 73 0 28 1 -1 -61047800 -1 -61058238 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 64 17 0 26700395 17 0 26704925 inversion 4534 15 0 0 0 26_samples:0 26699982 26700396 415 88 26704662 26704930 269 57 SARM1 Intron of SARM1(+): 875bp after exon 1 SARM1 Intron of SARM1(+): 3Kb before exon 2 Antisense fusion 0 0 2.000000e-02 5.000000e-02 2 0 3 1 1.894344e+00 -5.108243e-02 5.829742e-01 8.744612e+00 1 8.744612e+00 1 26700396 26704930 1 26700395 -1 26704925 -5 8 8.648991e-01 0 1 79 2 AA 25 1 -1 -26700397 -1 -26704931 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 80 23 0 3592797 23 0 8289634 long_range 4696844 12 0 0 0 26_samples:0 3592516 3592789 274 49 8289326 8289633 308 57 PRKX Exon 2 of PRKX(-) VCX3B IGR: 143Kb before VCX3B(+) - 2.800000e-01 2.400000e-01 0 0 7 0 2 0 -4.996321e-01 -2.838160e-02 6.933130e-01 8.319756e+00 1 8.319756e+00 1 3592789 8289633 1 3592797 8 8289634 1 14 9.927377e-01 0 2 75 0 30 1 -1 -3592790 -1 -8289634 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 113 8 1 102377930 8 0 102479308 tandem_dup 101330 8 0 0 0 26_samples:0 102377932 102378134 203 44 102479025 102479262 238 49 NACAP1 IGR: 3Kb before NACAP1(+) GRHL2 IGR: 25Kb before GRHL2(+) - 0 0 0 0 2 1 3 0 -6.568408e-01 -3.987342e-01 1 8 1 8 1 102377932 102479262 1 102377930 -2 102479308 46 5 9.695937e-01 1 1 66 2 GT 8 1 -1 -102377933 -1 -102479263 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 116 15 0 74262729 15 1 74265700 deletion 2968 8 0 0 0 26_samples:0 74262493 74262735 243 51 74265703 74265981 279 58 STOML1 IGR: 13Kb before STOML1(-) STOML1 IGR: 10Kb before STOML1(-) - 6.000000e-02 0 1.000000e-02 6.000000e-02 2 0 0 0 -2.954916e-01 6.585763e-02 1 8 1 8 1 74262735 74265703 1 74262729 -6 74265700 -3 10 9.400561e-01 0 1 71 0 15 1 -1 -74262736 -1 -74265704 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 119 23 1 3592942 23 1 31669213 long_range 28076271 8 0 0 0 26_samples:0 3592942 3593189 248 49 31669213 31669381 169 33 PRKX Intron of PRKX(-): 135bp before exon 2 DMD Intron of DMD(-): 7Kb after exon 54 Antisense fusion 0 0 0 0 4 1 3 0 -3.987342e-01 -1.224675e+00 1 8 1 8 1 3592942 31669213 1 -1 -3592943 -1 -31669214 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -3592943 -1 -31669214 -1 -1 -1 -1 -1 -1 failed 0 0 NaN TCGA-60-2719 120 23 0 7071214 23 0 8289908 long_range 1218806 8 0 0 0 26_samples:0 7070929 7071100 172 23 8289761 8289906 146 17 HDHD1A IGR: 5Kb after HDHD1A(-) VCX3B IGR: 143Kb before VCX3B(+) - 0 0 0 0 4 0 2 0 -1.740888e+00 -2.050616e+00 1 8 1 8 1 7071100 8289906 1 7071214 114 8289908 2 10 9.973638e-01 0 3 68 0 15 1 -1 -7071101 -1 -8289907 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 110 6 1 134599952 6 0 134992978 tandem_dup 392966 8 0 0 0 26_samples:0 134600018 134600220 203 41 134992765 134992984 220 45 SGK1 Intron of SGK1(-): 17Kb before exon 2 ALDH8A1 IGR: 246Kb before ALDH8A1(-) - 0 0 1.000000e-02 3.000000e-02 3 0 5 0 -8.117047e-01 -6.052195e-01 9.846154e-01 7.876923e+00 1 7.876923e+00 1 134600018 134992984 1 134599952 -66 134992978 -6 7 9.945644e-01 1 1 74 0 11 1 -1 -134600019 -1 -134992985 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 126 3 1 172314853 3 0 172458182 tandem_dup 143328 7 0 0 0 26_samples:0 172314859 172315034 176 37 172457947 172458187 241 47 NCEH1 IGR: 34Kb before NCEH1(-) ECT2 IGR: 14Kb before ECT2(+) - 0 0 0 0 2 1 2 1 -8.703639e-01 -4.113871e-01 1 7 1 7 1 172314859 172458187 1 172314853 -6 172458182 -5 8 9.787263e-01 1 2 79 0 17 1 -1 -172314860 -1 -172458188 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 127 3 0 189173233 6 1 52486403 inter_chr NaN 7 0 0 0 26_samples:0 189172946 189173150 205 33 52486401 52486584 184 33 TP63 IGR: 176Kb before TP63(+) LOC730101 IGR: 43Kb before LOC730101(+) - 0 0 0 0 1 0 1 1 -1.053955e+00 -1.053955e+00 1 7 1 7 1 189173150 52486401 1 189173233 83 52486403 2 3 1 0 4 80 0 15 1 -1 -189173151 -1 -52486402 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 131 4 1 151883994 4 0 152064087 tandem_dup 179984 7 0 0 0 26_samples:0 151883992 151884131 140 14 152063833 152063976 144 21 LRBA Intron of LRBA(-): 34Kb before exon 3 SH3D19 Intron of SH3D19(-): 1Kb after exon 5 Protein fusion: in frame (LRBA-SH3D19) 7.000000e-02 0 0 0 2 0 4 0 -1.926011e+00 -1.604727e+00 1 7 1 7 1 151883992 152063976 1 151883994 2 152064087 111 2 9.600164e-01 1 3 64 0 8 1 151883894 -98 152064185 209 1 7.981020e-01 1 8 116 0 5 1 1.600000e+00 TCGA-60-2719 143 13 0 67293236 13 1 67406911 deletion 113713 7 0 0 0 26_samples:0 67292866 67293195 330 67 67406908 67407212 305 76 PCDH9 Intron of PCDH9(-): 88Kb before exon 4 PCDH9 Intron of PCDH9(-): 71Kb after exon 3 Deletion within intron 0 0 0 0 2 0 1 0 5.065666e-01 9.196458e-01 1 7 1 7 1 67293195 67406908 1 67293236 41 67406911 3 5 9.671926e-01 0 0 74 0 10 1 -1 -67293196 -1 -67406909 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 148 23 1 3592941 23 0 8236037 long_range 4643013 7 0 0 0 26_samples:0 3593022 3593222 201 37 8235921 8236035 115 13 PRKX Intron of PRKX(-): 215bp before exon 2 VCX2 IGR: 98Kb before VCX2(-) - 0 0 0 0 4 1 3 1 -8.703639e-01 -1.971908e+00 1 7 1 7 1 3593022 8236035 1 3592941 -81 8236037 2 8 9.967943e-01 1 2 62 0 31 1 -1 -3593023 -1 -8236036 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 121 23 1 8237138 23 1 31666793 long_range 23429594 8 0 0 0 26_samples:0 8237200 8237449 250 52 31666794 31667019 226 40 VCX2 IGR: 99Kb before VCX2(-) DMD Intron of DMD(-): 9Kb after exon 54 - 3.200000e-01 2.700000e-01 0 0 5 2 6 2 -2.438703e-01 -8.633260e-01 8.064243e-01 6.451394e+00 1 6.451394e+00 1 8237200 31666794 1 8237138 -62 31666793 -1 12 9.779784e-01 1 0 62 0 16 1 -1 -8237201 -1 -31666795 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 151 1 1 159823812 1 0 159874800 tandem_dup 50877 6 0 0 0 26_samples:0 159823806 159824000 195 36 159874495 159874683 189 57 C1orf204 Intron of C1orf204(-): 741bp after exon 2 CCDC19 IGR: 5Kb after CCDC19(-) - 0 0 0 0 1 0 2 0 -9.162616e-01 4.758979e-02 1 6 1 6 1 159823806 159874683 1 159823812 6 159874800 117 2 8.730942e-01 1 1 76 0 14 1 -1 -159823807 -1 -159874684 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 179 5 1 9565729 5 1 9571856 inversion 6127 6 0 0 0 26_samples:0 9565729 9565893 165 23 9571856 9572044 189 38 SNORD123 IGR: 17Kb before SNORD123(+) SNORD123 IGR: 23Kb before SNORD123(+) - 0 0 0 0 0 0 1 0 -1.512932e+00 -8.244662e-01 1 6 1 6 1 9565729 9571856 1 -1 -9565730 -1 -9571857 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -9565730 -1 -9571857 -1 -1 -1 -1 -1 -1 failed 0 0 NaN TCGA-60-2719 184 6 1 90043669 6 0 91605804 long_range 1562125 6 0 0 0 26_samples:0 90043671 90043888 218 52 91605590 91605796 207 44 UBE2J1 Intron of UBE2J1(-): 747bp before exon 7 MAP3K7 IGR: 380Kb before MAP3K7(-) - 1.100000e-01 1.700000e-01 0 0 4 1 1 0 -1.818986e-01 -5.490801e-01 1 6 1 6 1 90043671 91605796 1 90043669 -2 91605804 8 15 9.962218e-01 1 1 75 0 26 1 -1 -90043672 -1 -91605797 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 191 9 0 29094484 19 0 22221536 inter_chr NaN 6 0 0 0 26_samples:0 29094243 29094474 232 45 22221265 22221515 251 59 MIR873 IGR: 206Kb before MIR873(-) ZNF257 IGR: 14Kb before ZNF257(+) - 0 0 1.000000e-02 5.000000e-02 1 0 2 1 -5.031824e-01 1.393852e-01 1 6 1 6 1 29094474 22221515 1 29094484 10 22221536 21 6 1 0 4 78 0 11 1 -1 -29094475 -1 -22221516 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 197 14 0 102844040 14 1 102847248 deletion 3286 6 0 0 0 26_samples:0 102843803 102844030 228 51 102847316 102847471 156 36 TECPR2 Intron of TECPR2(+): 753bp after exon 2 TECPR2 Intron of TECPR2(+): 4Kb after exon 2 Deletion within intron 3.000000e-02 5.000000e-02 3.000000e-02 0 1 0 2 1 -2.277963e-01 -9.162616e-01 1 6 1 6 1 102844030 102847316 1 102844040 10 102847248 -68 2 9.951633e-01 0 2 65 0 7 1 -1 -102844031 -1 -102847317 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 69 23 0 3592474 23 0 31670287 long_range 28077813 15 0 0 0 26_samples:0 3592181 3592474 294 50 31669834 31670287 454 92 PRKX Intron of PRKX(-): 165bp after exon 2 DMD Intron of DMD(-): 6Kb after exon 54 - 1.800000e-01 2.300000e-01 0 0 4 0 4 0 -4.903722e-01 2.145367e+00 3.995898e-01 5.993848e+00 1 5.993848e+00 1 3592474 31670287 1 3592474 0 31670287 0 12 9.993316e-01 0 4 67 0 30 1 -1 -3592475 -1 -31670288 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 159 1 0 84517609 18 0 49915910 inter_chr NaN 6 0 0 0 26_samples:0 84517431 84517568 138 38 49915604 49915913 310 76 PRKACB IGR: 26Kb before PRKACB(+) DCC Intron of DCC(+): 49Kb after exon 1 - 0 0 0 0 6 1 2 0 -8.244662e-01 9.196458e-01 8.888889e-01 5.333333e+00 1 5.333333e+00 1 84517568 49915913 1 84517609 41 49915910 -3 4 9.610488e-01 0 1 76 0 10 1 -1 -84517569 -1 -49915914 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 92 23 0 3519390 23 1 3592157 deletion 72830 10 0 0 0 26_samples:0 3519152 3519334 183 40 3592164 3592380 217 49 PRKX IGR: 3Kb before PRKX(-) PRKX Intron of PRKX(-): 475bp after exon 2 - 1.000000e-02 0 1.800000e-01 2.300000e-01 8 0 4 0 -9.470312e-01 -4.507576e-01 5.000000e-01 5 1 5 1 3519334 3592164 1 3519390 56 3592157 -7 3 9.329242e-01 0 1 75 48 CATATTTCTGACAACCTATCCTATTATCCCCAGTGTCACAAAGTGGTA 35 1 -1 -3519335 -1 -3592165 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 205 1 1 224282054 1 0 224453829 tandem_dup 171775 5 0 0 0 26_samples:0 224282054 224282237 184 44 224453609 224453829 221 46 FBXO28 IGR: 20Kb before FBXO28(+) NVL Intron of NVL(-): 2Kb after exon 17 - 0 0 0 0 2 2 3 0 -4.820275e-01 -3.961931e-01 1 5 1 5 1 224282054 224453829 1 224282020 -34 224453857 28 1 9.758058e-01 1 2 72 0 5 1 -1 -224282055 -1 -224453830 -1 -1 -1 -1 -1 -1 failed 0 0 Inf TCGA-60-2719 279 9 1 29124845 23 0 40530268 inter_chr NaN 5 0 0 0 26_samples:0 29124878 29125062 185 38 40530034 40530227 194 38 MIR873 IGR: 236Kb before MIR873(-) MED14 Intron of MED14(-): 886bp after exon 23 - 1.000000e-02 4.000000e-02 3.000000e-02 6.000000e-02 1 1 3 2 -7.395305e-01 -7.395305e-01 1 5 1 5 1 29124878 40530227 1 29124845 -33 40530268 41 7 9.016269e-01 1 0 77 0 11 1 -1 -29124879 -1 -40530228 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 280 10 1 122710224 10 0 123311409 tandem_dup 601107 5 0 0 0 26_samples:0 122710260 122710456 197 52 123311191 123311367 177 32 WDR11 IGR: 41Kb after WDR11(+) FGFR2 Intron of FGFR2(-): 394bp before exon 4 - 0 0 0 0 2 0 1 0 -1.386901e-01 -9.970335e-01 1 5 1 5 1 122710260 123311367 1 122710224 -36 123311409 42 7 9.952110e-01 1 1 65 0 10 1 -1 -122710261 -1 -123311368 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 281 10 1 123112667 10 0 123115742 tandem_dup 3046 5 0 0 0 26_samples:0 123112688 123112944 257 68 123115472 123115734 263 68 FGFR2 IGR: 125Kb before FGFR2(-) FGFR2 IGR: 122Kb before FGFR2(-) - 0 0 0 0 1 1 1 1 5.479846e-01 5.479846e-01 1 5 1 5 1 123112688 123115734 1 123112667 -21 123115742 8 7 9.819328e-01 1 2 72 0 11 1 123112667 -21 123115742 8 1 9.569932e-01 1 2 72 0 6 1 1.833333e+00 TCGA-60-2719 297 13 1 73836851 13 0 74080986 tandem_dup 244044 5 0 0 0 26_samples:0 73836862 73837094 233 71 74080724 74080906 183 42 KLF5 IGR: 204Kb before KLF5(+) KLF12 IGR: 179Kb before KLF12(-) - 2.000000e-02 0 0 5.000000e-02 1 1 2 1 6.767361e-01 -5.678618e-01 1 5 1 5 1 73836862 74080906 1 73836851 -11 74080986 80 12 9.918931e-01 1 2 78 0 15 1 -1 -73836863 -1 -74080907 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 304 15 1 22925881 15 0 22955862 tandem_dup 29989 5 0 0 0 26_samples:0 22925877 22926144 268 60 22955612 22955866 255 67 CYFIP1 Exon 2 of CYFIP1(+) CYFIP1 Intron of CYFIP1(+): 572bp before exon 16 Duplication within transcript: mid-exon 0 0 0 0 2 1 2 0 2.046473e-01 5.050674e-01 1 5 1 5 1 22925877 22955866 1 22925881 4 22955862 -4 7 9.597176e-01 1 0 83 9 TCTGGAAAG 20 1 -1 -22925878 -1 -22955867 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 321 23 0 8289017 23 1 31668826 long_range 23379809 5 0 0 0 26_samples:0 8288817 8289017 201 37 31668826 31668988 163 28 VCX3B IGR: 144Kb before VCX3B(+) DMD Intron of DMD(-): 7Kb after exon 54 - 0 0 0 0 3 0 4 1 -7.824477e-01 -1.168702e+00 1 5 1 5 1 8289017 31668826 1 -1 -8289018 -1 -31668827 -1 -1 -1 -1 -1 -1 failed 0 1 -1 -8289018 -1 -31668827 -1 -1 -1 -1 -1 -1 failed 0 0 NaN TCGA-60-2719 150 1 1 69631949 1 0 69637212 tandem_dup 5147 6 0 0 0 26_samples:0 69631949 69632073 125 11 69636759 69637096 338 92 LRRC7 IGR: 594Kb before LRRC7(+) LRRC7 IGR: 589Kb before LRRC7(+) - 0 0 1.000000e-02 3.000000e-02 1 0 1 1 -2.063704e+00 1.654009e+00 7.814102e-01 4.688461e+00 1 4.688461e+00 1 69631949 69637096 1 69631949 0 69637212 116 3 9.673138e-01 1 1 75 0 3 1 -1 -69631950 -1 -69637097 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 320 23 0 3695936 23 1 31528318 long_range 27832415 5 0 0 0 26_samples:0 3695687 3695909 223 71 31528324 31528626 303 87 PRKX IGR: 174Kb before PRKX(-) DMD Intron of DMD(-): 3Kb before exon 56 - 5.000000e-02 0 0 0 5 0 5 1 6.767361e-01 1.363411e+00 9.250690e-01 4.625345e+00 1 4.625345e+00 1 3695909 31528324 1 3695936 27 31528318 -6 20 9.466315e-01 0 4 76 0 48 1 -1 -3695910 -1 -31528325 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 52 23 0 7070897 23 0 7329626 inversion 258731 19 0 0 0 26_samples:0 7070586 7070900 315 72 7329163 7329631 469 96 HDHD1A IGR: 5Kb after HDHD1A(-) STS IGR: 57Kb after STS(+) - 0 0 0 0 6 0 2 0 8.902529e-01 2.396389e+00 2.387673e-01 4.536579e+00 1 4.536579e+00 1 7070900 7329631 1 7070897 -3 7329626 -5 13 9.612781e-01 0 5 79 0 28 1 -1 -7070901 -1 -7329632 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 204 1 0 48051319 1 1 48053007 deletion 1735 5 0 0 0 26_samples:0 48050992 48051280 289 90 48053015 48053249 235 78 FOXD2 IGR: 150Kb before FOXD2(+) FOXD2 IGR: 151Kb before FOXD2(+) - 0 0 3.000000e-02 0 0 1 1 0 1.492162e+00 9.771563e-01 8.934846e-01 4.467423e+00 1 4.467423e+00 1 48051280 48053015 1 48051319 39 48053007 -8 12 9.943508e-01 0 1 76 0 18 1 -1 -48051281 -1 -48053016 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 389 3 1 139717429 7 0 32729006 inter_chr NaN 4 0 0 0 26_samples:0 139717429 139717536 108 3 32728895 32729006 112 6 CLSTN2 Intron of CLSTN2(+): 63Kb after exon 1 LOC441208 IGR: 39Kb before LOC441208(+) - 1.000000e-02 0 3.000000e-02 6.000000e-02 2 0 2 0 -1.999254e+00 -1.882077e+00 1 4 1 4 1 139717429 32729006 1 139717245 -184 32728791 -215 2 9.361342e-01 1 0 116 0 43 1 139717245 -184 32728791 -215 1 9.067965e-01 1 0 116 0 20 0 2.150000e+00 TCGA-60-2719 523 12 0 91309153 12 1 92189167 deletion 880169 4 0 0 0 26_samples:0 91308918 91309037 120 24 92189206 92189386 181 66 C12orf12 IGR: 37Kb before C12orf12(-) BTG1 IGR: 345Kb before BTG1(-) - 0 0 0 0 1 0 2 0 -1.179016e+00 4.614609e-01 1 4 1 4 1 91309037 92189206 1 91309153 116 92189167 -39 5 9.052317e-01 0 1 76 2 AA 8 1 -1 -91309038 -1 -92189207 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 549 17 1 32456962 17 1 32487534 inversion 30596 4 0 0 0 26_samples:0 32456970 32457143 174 35 32487566 32487750 185 47 ACCN1 Intron of ACCN1(-): 26Kb after exon 1 ACCN1 IGR: 4Kb after ACCN1(-) - 0 0 0 0 1 0 1 0 -7.493670e-01 -2.806595e-01 1 4 1 4 1 32456970 32487566 1 32456962 -8 32487534 -32 4 9.973178e-01 1 0 63 0 9 1 -1 -32456971 -1 -32487567 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 556 18 1 28357574 18 0 28361530 tandem_dup 3958 4 0 0 0 26_samples:0 28357572 28357822 251 73 28361242 28361530 289 78 DSC3 IGR: 212Kb before DSC3(-) DSC3 IGR: 209Kb before DSC3(-) - 0 0 1.000000e-02 3.000000e-02 0 0 0 1 7.348737e-01 9.301685e-01 1 4 1 4 1 28357572 28361530 1 28357574 2 28361530 0 2 1 1 1 68 0 8 1 -1 -28357573 -1 -28361531 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 572 23 1 8235909 23 1 31669209 long_range 23433397 4 0 0 0 26_samples:0 8235920 8236038 119 9 31669317 31669458 142 22 VCX2 IGR: 98Kb before VCX2(-) DMD Intron of DMD(-): 7Kb after exon 54 - 0 0 0 0 3 1 3 1 -1.764900e+00 -1.257134e+00 1 4 1 4 1 8235920 31669317 1 8235909 -11 31669209 -108 11 8.753829e-01 1 0 75 0 19 1 -1 -8235921 -1 -31669318 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 573 23 1 8234244 23 0 31705969 long_range 23471585 4 0 0 0 26_samples:0 8234246 8234359 114 6 31705694 31705831 138 17 VCX2 IGR: 96Kb before VCX2(-) DMD Intron of DMD(-): 8Kb before exon 53 - 0 0 1.000000e-02 0 1 0 1 0 -1.882077e+00 -1.452428e+00 1 4 1 4 1 8234246 31705831 1 8234244 -2 31705969 138 12 9.436352e-01 1 0 75 3 CAA 19 1 -1 -8234247 -1 -31705832 -1 -1 -1 -1 -1 -1 failed 0 1 Inf TCGA-60-2719 575 23 1 7070886 23 0 8288124 long_range 1217200 4 0 0 0 26_samples:0 7070914 7071087 174 33 8287971 8288114 144 18 HDHD1A IGR: 5Kb after HDHD1A(-) VCX3B IGR: 145Kb before VCX3B(+) - 0 0 0 0 4 0 3 0 -8.274850e-01 -1.413369e+00 1 4 1 4 1 7070914 8288114 1 7070886 -28 8288124 10 4 9.014703e-01 1 0 80 39 AATGACCCTCCCCACACAAAACAAAATGTGTCATGTGTC 23 1 -1 -7070915 -1 -8288115 -1 -1 -1 -1 -1 -1 failed 0 1 Inf