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Filename
1029_0W2.tnseq.orientation_data.tsv
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/48/4facfc0f86a62f5b4281d81846b920/1029_0W2.tnseq.orientation_data.tsv
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9.0 KB
Task
NFCORE_SAREK:SAREK:BAM_VARIANT_CALLING_SOMATIC_ALL:BAM_VARIANT_CALLING_SOMATIC_TNSEQ:SENTIEON_TNHAPLOTYPER2 (1029_0W2)
Attempt

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#<METADATA>SAMPLE=1029_0W2-T1-TDNA-1_A23KCGYLT4_1
context rev_comp f1r2_a f1r2_c f1r2_g f1r2_t f2r1_a f2r1_c f2r1_g f2r1_t hom_ref germline_het somatic_het hom_var num_examples num_alt_examples
AAA TTT 0 1.7514e-05 0.000124323 1.05306e-05 0 1.36006e-05 4.07759e-05 1.02875e-05 0.998953 9.01393e-05 0.000591004 0.000148957 1450589 172203
AAC GTT 0 9.8337e-06 0.000249196 6.16134e-06 0 1.83224e-05 2.9069e-05 1.02894e-05 0.998227 0.000128493 0.000998081 0.000323397 877797 103584
AAG CTT 0 3.06825e-06 0.000155801 8.25798e-06 0 7.75846e-06 6.43978e-05 1.23208e-05 0.998707 0.00013985 0.000670832 0.000230785 1422427 211138
AAT ATT 0 8.49442e-06 0.00039053 1.42353e-05 0 3.95083e-05 5.3641e-05 1.64079e-05 0.998093 0.000195869 0.000927767 0.00026078 989609 113981
ACA TGT 0.000153353 0 2.3101e-05 0.0176254 2.29786e-05 0 8.30158e-06 0.000543762 0.979874 6.14819e-05 0.00143543 0.000252058 1225641 419993
ACC GGT 3.10766e-05 0 7.54628e-05 0.0164635 3.51214e-06 0 3.89201e-06 0.000205431 0.981794 0.000141115 0.00109098 0.000191448 1018536 338992
ACG CGT 1.82333e-05 0 6.88333e-06 0.114585 3.83233e-06 0 5.01383e-07 0.000956139 0.877244 0.00147095 0.00439461 0.00131979 431968 228139
ACT AGT 4.66199e-05 0 8.14945e-05 0.0168156 1.84531e-05 0 6.8797e-06 0.000453315 0.980963 0.000166893 0.00112661 0.000321381 989073 329285
AGA TCT 0.000516482 3.27675e-06 0 1.03164e-05 0.00551791 2.6754e-05 0 1.71273e-05 0.992764 8.7813e-05 0.000906489 0.000149785 1474629 396943
AGC GCT 0.000242218 2.1709e-06 0 3.31333e-06 0.0151964 2.79039e-05 0 1.9138e-05 0.9832 5.57012e-05 0.00109604 0.000157097 1445281 493919
AGG CCT 0.000278337 2.68557e-06 0 1.05204e-05 0.0107254 5.48743e-05 0 3.41527e-05 0.987716 0.000147459 0.000856409 0.000173738 1574726 495714
AGT ACT 0.000453315 6.8797e-06 0 1.84531e-05 0.0168156 8.14945e-05 0 4.66199e-05 0.980963 0.000166893 0.00112661 0.000321381 989073 329285
ATA TAT 9.83699e-05 7.23514e-05 0.000241161 0 1.7424e-05 0.000482644 9.27962e-06 0 0.99646 9.21378e-05 0.00213208 0.000394816 697214 93527
ATC GAT 8.16265e-06 5.23434e-05 3.48999e-05 0 7.18122e-06 0.000514574 7.25201e-06 0 0.998176 5.75299e-05 0.000909147 0.00023268 997287 120190
ATG CAT 1.67077e-05 3.63921e-05 0.000121567 0 8.45436e-06 0.000347684 1.0481e-05 0 0.997256 0.00033932 0.00126831 0.00059486 1248475 148505
ATT AAT 1.64079e-05 5.3641e-05 3.95083e-05 0 1.42353e-05 0.00039053 8.49442e-06 0 0.998093 0.000195869 0.000927767 0.00026078 989609 113981
CAA TTG 0 4.45272e-06 0.000102343 6.32203e-06 0 1.59389e-05 4.14831e-05 4.99036e-06 0.998639 0.000180061 0.000644084 0.000361568 1195793 154341
CAC GTG 0 1.20328e-05 0.000175024 1.41221e-05 0 5.20671e-05 6.93034e-05 2.51884e-05 0.997865 0.00018602 0.00112604 0.000475607 1251129 160568
CAG CTG 0 6.57169e-06 0.00010123 6.43025e-06 0 8.85934e-06 8.12625e-05 8.67906e-06 0.998322 0.000233168 0.000764057 0.00046736 2038962 350314
CAT ATG 0 1.0481e-05 0.000347684 8.45436e-06 0 0.000121567 3.63921e-05 1.67077e-05 0.997256 0.00033932 0.00126831 0.00059486 1248475 148505
CCA TGG 7.32253e-05 0 2.66297e-06 0.00650433 2.66638e-06 0 1.55561e-06 0.00021235 0.992313 5.5473e-05 0.000722461 0.000112585 1741792 521712
CCC GGG 1.54399e-05 0 3.6803e-05 0.0102064 8.03106e-06 0 1.43071e-06 0.000102674 0.98837 0.00012412 0.000946298 0.000189126 1394101 443542
CCG CGG 5.26563e-06 0 5.43867e-06 0.0736624 1.60876e-05 0 3.51219e-06 0.00025999 0.921274 0.00136557 0.00256357 0.000844111 744519 358892
CCT AGG 3.41527e-05 0 5.48743e-05 0.0107254 1.05204e-05 0 2.68557e-06 0.000278337 0.987716 0.000147459 0.000856409 0.000173738 1574726 495714
CGA TCG 0.000346259 4.75504e-06 0 9.8344e-07 0.102173 4.24559e-06 0 8.8909e-06 0.893558 0.000784349 0.00247811 0.000641304 454191 218120
CGC GCG 0.00196266 9.81996e-07 0 4.72933e-06 0.0420172 2.07372e-06 0 1.31483e-06 0.951407 0.000589334 0.00337138 0.000643322 637432 304597
CGG CCG 0.00025999 3.51219e-06 0 1.60876e-05 0.0736624 5.43867e-06 0 5.26563e-06 0.921274 0.00136557 0.00256357 0.000844111 744519 358892
CGT ACG 0.000956139 5.01383e-07 0 3.83233e-06 0.114585 6.88333e-06 0 1.82333e-05 0.877244 0.00147095 0.00439461 0.00131979 431968 228139
CTA TAG 1.91442e-05 9.07051e-05 1.26678e-05 0 1.77674e-05 0.000335424 4.08859e-06 0 0.997761 7.32635e-05 0.001317 0.000368747 569673 90935
CTC GAG 1.67291e-05 0.00010096 1.01863e-05 0 1.19285e-05 0.000201476 4.34173e-06 0 0.998504 3.45007e-05 0.000877566 0.000238189 1474700 243912
CTG CAG 8.67906e-06 8.12625e-05 8.85934e-06 0 6.43025e-06 0.00010123 6.57169e-06 0 0.998322 0.000233168 0.000764057 0.00046736 2038962 350314
CTT AAG 1.23208e-05 6.43978e-05 7.75846e-06 0 8.25798e-06 0.000155801 3.06825e-06 0 0.998707 0.00013985 0.000670832 0.000230785 1422427 211138
GAA TTC 0 4.3402e-06 0.000136692 9.05591e-06 0 1.79929e-05 2.20609e-05 9.49035e-06 0.999016 5.85588e-05 0.000556101 0.000169554 1427342 172629
GAC GTC 0 8.91086e-06 0.000292422 1.29662e-06 0 2.0931e-05 5.17484e-05 4.78385e-06 0.998497 8.87252e-05 0.000753303 0.000281347 936695 121418
GAG CTC 0 4.34173e-06 0.000201476 1.19285e-05 0 1.01863e-05 0.00010096 1.67291e-05 0.998504 3.45007e-05 0.000877566 0.000238189 1474700 243912
GAT ATC 0 7.25201e-06 0.000514574 7.18122e-06 0 3.48999e-05 5.23434e-05 8.16265e-06 0.998176 5.75299e-05 0.000909147 0.00023268 997287 120190
GCA TGC 4.27088e-05 0 9.59409e-06 0.00425447 3.15066e-06 0 3.68574e-06 0.000612921 0.994011 9.7889e-05 0.000786436 0.000178233 1375732 428034
GCC GGC 1.64953e-05 0 4.22058e-05 0.0100356 8.87566e-07 0 8.27258e-06 0.000274771 0.988587 0.000126515 0.000748664 0.000159566 1498442 498467
GCG CGC 1.31483e-06 0 2.07372e-06 0.0420172 4.72933e-06 0 9.81996e-07 0.00196266 0.951407 0.000589334 0.00337138 0.000643322 637432 304597
GCT AGC 1.9138e-05 0 2.79039e-05 0.0151964 3.31333e-06 0 2.1709e-06 0.000242218 0.9832 5.57012e-05 0.00109604 0.000157097 1445281 493919
GGA TCC 0.000289573 2.43586e-06 0 3.25529e-06 0.00166831 2.4978e-05 0 8.28927e-06 0.997093 0.000127149 0.000671019 0.000112222 1489213 351757
GGC GCC 0.000274771 8.27258e-06 0 8.87566e-07 0.0100356 4.22058e-05 0 1.64953e-05 0.988587 0.000126515 0.000748664 0.000159566 1498442 498467
GGG CCC 0.000102674 1.43071e-06 0 8.03106e-06 0.0102064 3.6803e-05 0 1.54399e-05 0.98837 0.00012412 0.000946298 0.000189126 1394101 443542
GGT ACC 0.000205431 3.89201e-06 0 3.51214e-06 0.0164635 7.54628e-05 0 3.10766e-05 0.981794 0.000141115 0.00109098 0.000191448 1018536 338992
GTA TAC 2.1149e-05 4.29945e-05 0.000109976 0 2.53182e-06 0.000159409 1.90023e-05 0 0.998057 5.84775e-05 0.00121846 0.000310562 620547 84989
GTC GAC 4.78385e-06 5.17484e-05 2.0931e-05 0 1.29662e-06 0.000292422 8.91086e-06 0 0.998497 8.87252e-05 0.000753303 0.000281347 936695 121418
GTG CAC 2.51884e-05 6.93034e-05 5.20671e-05 0 1.41221e-05 0.000175024 1.20328e-05 0 0.997865 0.00018602 0.00112604 0.000475607 1251129 160568
GTT AAC 1.02894e-05 2.9069e-05 1.83224e-05 0 6.16134e-06 0.000249196 9.8337e-06 0 0.998227 0.000128493 0.000998081 0.000323397 877797 103584
TAA TTA 0 1.57215e-05 0.000180217 1.7789e-05 0 1.42003e-05 5.45085e-05 1.44205e-05 0.998367 6.3041e-05 0.00102994 0.000243375 668065 93175
TAC GTA 0 1.90023e-05 0.000159409 2.53182e-06 0 0.000109976 4.29945e-05 2.1149e-05 0.998057 5.84775e-05 0.00121846 0.000310562 620547 84989
TAG CTA 0 4.08859e-06 0.000335424 1.77674e-05 0 1.26678e-05 9.07051e-05 1.91442e-05 0.997761 7.32635e-05 0.001317 0.000368747 569673 90935
TAT ATA 0 9.27962e-06 0.000482644 1.7424e-05 0 0.000241161 7.23514e-05 9.83699e-05 0.99646 9.21378e-05 0.00213208 0.000394816 697214 93527
TCA TGA 4.56262e-05 0 1.11256e-05 0.0025062 1.14862e-05 0 7.06531e-06 0.000495621 0.996063 7.33176e-05 0.000672774 0.000113884 1370690 352399
TCC GGA 8.28927e-06 0 2.4978e-05 0.00166831 3.25529e-06 0 2.43586e-06 0.000289573 0.997093 0.000127149 0.000671019 0.000112222 1489213 351757
TCG CGA 8.8909e-06 0 4.24559e-06 0.102173 9.8344e-07 0 4.75504e-06 0.000346259 0.893558 0.000784349 0.00247811 0.000641304 454191 218120
TCT AGA 1.71273e-05 0 2.6754e-05 0.00551791 1.03164e-05 0 3.27675e-06 0.000516482 0.992764 8.7813e-05 0.000906489 0.000149785 1474629 396943
TGA TCA 0.000495621 7.06531e-06 0 1.14862e-05 0.0025062 1.11256e-05 0 4.56262e-05 0.996063 7.33176e-05 0.000672774 0.000113884 1370690 352399
TGC GCA 0.000612921 3.68574e-06 0 3.15066e-06 0.00425447 9.59409e-06 0 4.27088e-05 0.994011 9.7889e-05 0.000786436 0.000178233 1375732 428034
TGG CCA 0.00021235 1.55561e-06 0 2.66638e-06 0.00650433 2.66297e-06 0 7.32253e-05 0.992313 5.5473e-05 0.000722461 0.000112585 1741792 521712
TGT ACA 0.000543762 8.30158e-06 0 2.29786e-05 0.0176254 2.3101e-05 0 0.000153353 0.979874 6.14819e-05 0.00143543 0.000252058 1225641 419993
TTA TAA 1.44205e-05 5.45085e-05 1.42003e-05 0 1.7789e-05 0.000180217 1.57215e-05 0 0.998367 6.3041e-05 0.00102994 0.000243375 668065 93175
TTC GAA 9.49035e-06 2.20609e-05 1.79929e-05 0 9.05591e-06 0.000136692 4.3402e-06 0 0.999016 5.85588e-05 0.000556101 0.000169554 1427342 172629
TTG CAA 4.99036e-06 4.14831e-05 1.59389e-05 0 6.32203e-06 0.000102343 4.45272e-06 0 0.998639 0.000180061 0.000644084 0.000361568 1195793 154341
TTT AAA 1.02875e-05 4.07759e-05 1.36006e-05 0 1.05306e-05 0.000124323 1.7514e-05 0 0.998953 9.01393e-05 0.000591004 0.000148957 1450589 172203
66 rows