File Info

Filename
positive_somatic_control_1.tnseq.orientation_data.tsv
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/08/d89e7dd7fcef9a883a9e4f9e88b07b/positive_somatic_control_1.tnseq.orientation_data.tsv
Size
8.7 KB
Task
DAQ:CONTROL_VARIANT_CALLING:CONTROL_SOMATIC_VC:BAM_VARIANT_CALLING_SOMATIC_TNSEQ:SENTIEON_TNHAPLOTYPER2 (positive_somatic_control_1)
Attempt

Content

View in new tab
#<METADATA>SAMPLE=HCC1395_tumor
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 2.60571e-06 7.45582e-06 2.50816e-06 0 1.52931e-05 1.04809e-05 2.7624e-06 0.99928 0.000118236 0.000482927 7.7705e-05 39893 568
AAC GTT 0 5.76578e-06 8.50452e-06 5.34908e-06 0 6.33999e-06 6.79543e-05 5.35955e-06 0.999016 2.33227e-05 0.000590183 0.000271687 18712 309
AAG CTT 0 1.10976e-05 7.27159e-05 3.64395e-06 0 4.4918e-06 0.000106457 1.33265e-05 0.998655 0.000174541 0.000593072 0.000365207 27455 618
AAT ATT 0 4.49518e-06 5.15133e-05 4.38915e-06 0 4.44611e-06 1.38275e-05 4.33188e-06 0.999237 0.000118114 0.000304188 0.000257256 23710 351
ACA TGT 0.00158757 0 4.39032e-06 1.5466e-05 0.00198583 0 3.79618e-06 1.84751e-05 0.995363 2.93558e-05 0.000838151 0.000153524 26700 1179
ACC GGT 0.00119998 0 6.53275e-06 1.90777e-05 0.00142585 0 5.03446e-06 6.55879e-06 0.995854 0.000531027 0.000698889 0.00025311 20145 794
ACG CGT 0.00281903 0 1.31132e-05 0.000321094 0.00333061 0 1.2502e-05 0.000957243 0.984519 0.00212982 0.00438832 0.0015092 8667 651
ACT AGT 0.000911279 0 5.36535e-06 1.13496e-05 0.00221292 0 5.1396e-06 1.41894e-05 0.995663 0.000272715 0.000549797 0.000354037 20053 781
AGA TCT 6.37562e-05 3.62125e-06 0 0.000824902 2.83936e-05 3.42683e-06 0 0.000764734 0.99721 0.000199454 0.00053276 0.000369093 29438 851
AGC GCT 5.47381e-05 3.9114e-06 0 0.00222224 5.75343e-06 3.82312e-06 0 0.00229009 0.99449 0.000182154 0.000505766 0.000241527 26464 1322
AGG CCT 5.46343e-06 3.85355e-06 0 0.000968171 4.85804e-05 3.41565e-06 0 0.000821462 0.997112 0.000218608 0.000453902 0.000364262 30452 1135
AGT ACT 1.41894e-05 5.1396e-06 0 0.00221292 1.13496e-05 5.36535e-06 0 0.000911279 0.995663 0.000272715 0.000549797 0.000354037 20053 781
ATA TAT 7.29073e-06 9.78774e-06 6.25154e-06 0 5.65171e-06 6.23132e-06 6.42207e-06 0 0.998717 0.00079423 0.000216506 0.000231102 17712 341
ATC GAT 5.94e-06 3.90291e-05 1.74516e-05 0 5.93041e-06 0.000186309 6.19823e-06 0 0.998309 0.000151928 0.000738686 0.000539578 16863 351
ATG CAT 5.321e-06 1.45316e-05 5.36306e-05 0 4.39052e-06 4.35865e-05 7.99347e-06 0 0.997271 0.00030926 0.00136696 0.000923334 22843 481
ATT AAT 4.33188e-06 1.38275e-05 4.44611e-06 0 4.38915e-06 5.15133e-05 4.49518e-06 0 0.999237 0.000118114 0.000304188 0.000257256 23710 351
CAA TTG 0 4.71318e-06 1.5525e-05 4.43771e-06 0 5.70723e-06 0.000241602 5.08015e-06 0.998922 0.000418379 0.00015631 0.00022617 22535 398
CAC GTG 0 4.11373e-06 6.51715e-05 3.92923e-06 0 6.00945e-06 9.79702e-05 4.535e-06 0.997307 0.000768866 0.000805842 0.000936166 25718 552
CAG CTG 0 2.72391e-06 0.000170847 2.62501e-06 0 2.78823e-06 0.000154349 3.23663e-06 0.997777 0.000860439 0.000321662 0.000703852 38485 1073
CAT ATG 0 7.99347e-06 4.35865e-05 4.39052e-06 0 5.36306e-05 1.45316e-05 5.321e-06 0.997271 0.00030926 0.00136696 0.000923334 22843 481
CCA TGG 0.00148012 0 4.31387e-06 7.26903e-05 0.00137457 0 3.72672e-06 5.48045e-06 0.996496 0.000125162 0.000266538 0.000171901 30767 1257
CCC GGG 0.000399865 0 1.42537e-05 4.07347e-06 0.000725365 0 3.55777e-06 4.73804e-06 0.997545 0.000521487 0.000444476 0.000337449 29926 936
CCG CGG 0.0022987 0 8.14248e-06 0.000415937 0.00227477 0 9.1317e-06 1.4734e-05 0.989464 0.00211622 0.00167795 0.00172075 13391 817
CCT AGG 0.000821462 0 3.41565e-06 4.85804e-05 0.000968171 0 3.85355e-06 5.46343e-06 0.997112 0.000218608 0.000453902 0.000364262 30452 1135
CGA TCG 0.00014471 1.61485e-05 0 0.00131316 5.27934e-05 1.55844e-05 0 0.00229743 0.991206 0.00259657 0.000964925 0.0013922 7198 419
CGC GCG 0.000728441 1.20394e-05 0 0.00305947 0.00111017 1.02515e-05 0 0.00404118 0.984395 0.00174614 0.00318679 0.00171083 11596 935
CGG CCG 1.4734e-05 9.1317e-06 0 0.00227477 0.000415937 8.14248e-06 0 0.0022987 0.989464 0.00211622 0.00167795 0.00172075 13391 817
CGT ACG 0.000957243 1.2502e-05 0 0.00333061 0.000321094 1.31132e-05 0 0.00281903 0.984519 0.00212982 0.00438832 0.0015092 8667 651
CTA TAG 1.07112e-05 0.00012064 8.77868e-06 0 7.93882e-06 0.000122304 8.45836e-06 0 0.998559 0.000204466 0.00047378 0.000484023 12599 296
CTC GAG 4.10722e-06 0.000116507 3.71229e-06 0 3.72954e-06 0.000290924 3.73329e-06 0 0.998607 7.62062e-05 0.000604413 0.000289707 27873 731
CTG CAG 3.23663e-06 0.000154349 2.78823e-06 0 2.62501e-06 0.000170847 2.72391e-06 0 0.997777 0.000860439 0.000321662 0.000703852 38485 1073
CTT AAG 1.33265e-05 0.000106457 4.4918e-06 0 3.64395e-06 7.27159e-05 1.10976e-05 0 0.998655 0.000174541 0.000593072 0.000365207 27455 618
GAA TTC 0 4.07121e-06 4.42423e-05 3.70855e-06 0 4.0586e-05 5.3372e-05 4.26679e-06 0.99921 0.000108539 0.000413726 0.000117789 26994 416
GAC GTC 0 5.83925e-06 0.000121037 5.80282e-06 0 3.36462e-05 1.83628e-05 5.69874e-06 0.998526 0.00015848 0.000609194 0.000515823 17582 313
GAG CTC 0 3.73329e-06 0.000290924 3.72954e-06 0 3.71229e-06 0.000116507 4.10722e-06 0.998607 7.62062e-05 0.000604413 0.000289707 27873 731
GAT ATC 0 6.19823e-06 0.000186309 5.93041e-06 0 1.74516e-05 3.90291e-05 5.94e-06 0.998309 0.000151928 0.000738686 0.000539578 16863 351
GCA TGC 0.00232135 0 3.88426e-06 0.000102484 0.00307524 0 3.88178e-06 0.000133637 0.993525 0.000113043 0.000566413 0.000155469 26363 1393
GCC GGC 0.00185255 0 4.34519e-06 9.13086e-05 0.0029917 0 1.66641e-05 0.000173912 0.993985 4.83125e-05 0.000579075 0.000257566 27564 1390
GCG CGC 0.00404118 0 1.02515e-05 0.00111017 0.00305947 0 1.20394e-05 0.000728441 0.984395 0.00174614 0.00318679 0.00171083 11596 935
GCT AGC 0.00229009 0 3.82312e-06 5.75343e-06 0.00222224 0 3.9114e-06 5.47381e-05 0.99449 0.000182154 0.000505766 0.000241527 26464 1322
GGA TCC 5.26725e-06 3.86307e-06 0 0.000862214 3.14012e-05 4.91526e-06 0 0.000754778 0.997494 0.000383458 0.00023318 0.000226697 26905 798
GGC GCC 0.000173912 1.66641e-05 0 0.0029917 9.13086e-05 4.34519e-06 0 0.00185255 0.993985 4.83125e-05 0.000579075 0.000257566 27564 1390
GGG CCC 4.73804e-06 3.55777e-06 0 0.000725365 4.07347e-06 1.42537e-05 0 0.000399865 0.997545 0.000521487 0.000444476 0.000337449 29926 936
GGT ACC 6.55879e-06 5.03446e-06 0 0.00142585 1.90777e-05 6.53275e-06 0 0.00119998 0.995854 0.000531027 0.000698889 0.00025311 20145 794
GTA TAC 8.51004e-06 1.02019e-05 8.04747e-05 0 7.38271e-06 0.000131958 8.02577e-06 0 0.998107 0.000655946 0.000614556 0.000376262 13546 288
GTC GAC 5.69874e-06 1.83628e-05 3.36462e-05 0 5.80282e-06 0.000121037 5.83925e-06 0 0.998526 0.00015848 0.000609194 0.000515823 17582 313
GTG CAC 4.535e-06 9.79702e-05 6.00945e-06 0 3.92923e-06 6.51715e-05 4.11373e-06 0 0.997307 0.000768866 0.000805842 0.000936166 25718 552
GTT AAC 5.35955e-06 6.79543e-05 6.33999e-06 0 5.34908e-06 8.50452e-06 5.76578e-06 0 0.999016 2.33227e-05 0.000590183 0.000271687 18712 309
TAA TTA 0 4.44272e-05 5.88479e-06 1.70433e-05 0 5.48892e-06 4.75399e-05 2.8663e-05 0.9985 0.000131123 0.000969687 0.000250194 20379 350
TAC GTA 0 8.02577e-06 0.000131958 7.38271e-06 0 8.04747e-05 1.02019e-05 8.51004e-06 0.998107 0.000655946 0.000614556 0.000376262 13546 288
TAG CTA 0 8.45836e-06 0.000122304 7.93882e-06 0 8.77868e-06 0.00012064 1.07112e-05 0.998559 0.000204466 0.00047378 0.000484023 12599 296
TAT ATA 0 6.42207e-06 6.23132e-06 5.65171e-06 0 6.25154e-06 9.78774e-06 7.29073e-06 0.998717 0.00079423 0.000216506 0.000231102 17712 341
TCA TGA 0.0016271 0 3.96887e-06 3.50893e-05 0.00159331 0 4.33897e-06 1.46723e-05 0.995888 0.000159856 0.000398575 0.000275346 25744 915
TCC GGA 0.000754778 0 4.91526e-06 3.14012e-05 0.000862214 0 3.86307e-06 5.26725e-06 0.997494 0.000383458 0.00023318 0.000226697 26905 798
TCG CGA 0.00229743 0 1.55844e-05 5.27934e-05 0.00131316 0 1.61485e-05 0.00014471 0.991206 0.00259657 0.000964925 0.0013922 7198 419
TCT AGA 0.000764734 0 3.42683e-06 2.83936e-05 0.000824902 0 3.62125e-06 6.37562e-05 0.99721 0.000199454 0.00053276 0.000369093 29438 851
TGA TCA 1.46723e-05 4.33897e-06 0 0.00159331 3.50893e-05 3.96887e-06 0 0.0016271 0.995888 0.000159856 0.000398575 0.000275346 25744 915
TGC GCA 0.000133637 3.88178e-06 0 0.00307524 0.000102484 3.88426e-06 0 0.00232135 0.993525 0.000113043 0.000566413 0.000155469 26363 1393
TGG CCA 5.48045e-06 3.72672e-06 0 0.00137457 7.26903e-05 4.31387e-06 0 0.00148012 0.996496 0.000125162 0.000266538 0.000171901 30767 1257
TGT ACA 1.84751e-05 3.79618e-06 0 0.00198583 1.5466e-05 4.39032e-06 0 0.00158757 0.995363 2.93558e-05 0.000838151 0.000153524 26700 1179
TTA TAA 2.8663e-05 4.75399e-05 5.48892e-06 0 1.70433e-05 5.88479e-06 4.44272e-05 0 0.9985 0.000131123 0.000969687 0.000250194 20379 350
TTC GAA 4.26679e-06 5.3372e-05 4.0586e-05 0 3.70855e-06 4.42423e-05 4.07121e-06 0 0.99921 0.000108539 0.000413726 0.000117789 26994 416
TTG CAA 5.08015e-06 0.000241602 5.70723e-06 0 4.43771e-06 1.5525e-05 4.71318e-06 0 0.998922 0.000418379 0.00015631 0.00022617 22535 398
TTT AAA 2.7624e-06 1.04809e-05 1.52931e-05 0 2.50816e-06 7.45582e-06 2.60571e-06 0 0.99928 0.000118236 0.000482927 7.7705e-05 39893 568
66 rows