File Info
- Filename
- HCC1395_BL.tnseq_tumor_only.orientation_data.tsv
- Full Path
- s3://natera-rnd-pltf-dev-s3-gitlab-results/sarek/build2812375/baseline-run/63946235/variant_calling/chip_variants/HCC1395_BL/somatic_normal/HCC1395_BL.tnseq_tumor_only.orientation_data.tsv
- Size
- 8.8 KB
- Workflow Run
- gitlab-sarek-build2812375-baseline-run-63946235
- Published
- Jun 08, 2026 8:03 PM
Content
View in new tab| #<METADATA>SAMPLE=HCC1395_BL | |||||||||||||||
| 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 | 2.99369e-06 | 2.87044e-06 | 2.69199e-06 | 0 | 1.69054e-05 | 9.8886e-06 | 2.81229e-06 | 0.999264 | 0.000361207 | 0.000258451 | 7.77741e-05 | 39858 | 1129 |
| AAC | GTT | 0 | 6.6931e-06 | 0.000144486 | 5.35363e-06 | 0 | 1.93863e-05 | 4.98274e-05 | 5.37892e-06 | 0.998957 | 4.77854e-05 | 0.000491286 | 0.000272755 | 18697 | 636 |
| AAG | CTT | 0 | 4.07544e-06 | 0.000117009 | 3.68513e-06 | 0 | 3.96582e-05 | 4.05895e-05 | 3.92991e-06 | 0.998714 | 0.000228216 | 0.00051684 | 0.000331927 | 27411 | 1108 |
| AAT | ATT | 0 | 4.45981e-06 | 9.00602e-06 | 4.22588e-06 | 0 | 5.10764e-05 | 5.53158e-06 | 4.24316e-06 | 0.999167 | 0.000266173 | 0.000230856 | 0.000257477 | 23682 | 740 |
| ACA | TGT | 0.00117592 | 0 | 4.06928e-06 | 7.31807e-06 | 0.00170644 | 0 | 5.01922e-06 | 1.61614e-05 | 0.996045 | 9.21006e-05 | 0.000831933 | 0.00011615 | 26688 | 2020 |
| ACC | GGT | 0.000306831 | 0 | 5.14451e-06 | 2.74222e-05 | 0.000228153 | 0 | 5.80451e-06 | 7.4757e-06 | 0.998077 | 0.000801531 | 0.000336937 | 0.000203989 | 20098 | 1373 |
| ACG | CGT | 0.000637854 | 0 | 1.18651e-05 | 0.000337754 | 0.00220037 | 0 | 1.24172e-05 | 5.77504e-05 | 0.989924 | 0.00387331 | 0.00154618 | 0.00139806 | 8652 | 975 |
| ACT | AGT | 0.000849715 | 0 | 5.71655e-06 | 1.24551e-05 | 0.000891587 | 0 | 5.07512e-06 | 6.65696e-06 | 0.997092 | 0.000300047 | 0.000482168 | 0.000354344 | 20036 | 1374 |
| AGA | TCT | 7.61285e-05 | 3.46119e-06 | 0 | 0.000365995 | 0.000101374 | 3.475e-06 | 0 | 0.000463189 | 0.99778 | 0.000203689 | 0.000628092 | 0.000374507 | 29410 | 1512 |
| AGC | GCT | 6.29483e-06 | 3.87344e-06 | 0 | 0.00148543 | 2.53268e-05 | 4.6335e-06 | 0 | 0.00153427 | 0.995984 | 8.83675e-05 | 0.000608399 | 0.000259126 | 26412 | 2137 |
| AGG | CCT | 5.61254e-06 | 4.69616e-06 | 0 | 0.000296153 | 4.30283e-05 | 3.41991e-06 | 0 | 0.000478858 | 0.998086 | 0.000259203 | 0.000457089 | 0.00036554 | 30364 | 2072 |
| AGT | ACT | 6.65696e-06 | 5.07512e-06 | 0 | 0.000891587 | 1.24551e-05 | 5.71655e-06 | 0 | 0.000849715 | 0.997092 | 0.000300047 | 0.000482168 | 0.000354344 | 20036 | 1374 |
| ATA | TAT | 6.08865e-06 | 1.07597e-05 | 6.34189e-06 | 0 | 5.65963e-06 | 8.26784e-05 | 0.000124589 | 0 | 0.998311 | 0.000523736 | 0.000697212 | 0.000231533 | 17706 | 649 |
| ATC | GAT | 5.97892e-06 | 3.36885e-05 | 2.64394e-05 | 0 | 5.95487e-06 | 0.000128399 | 6.27166e-06 | 0 | 0.99836 | 0.000122069 | 0.000770122 | 0.000540765 | 16827 | 624 |
| ATG | CAT | 1.69882e-05 | 7.64408e-05 | 6.7822e-06 | 0 | 4.5787e-06 | 5.49095e-06 | 7.16612e-06 | 0 | 0.997116 | 0.000426161 | 0.00141531 | 0.000924948 | 22811 | 871 |
| ATT | AAT | 4.24316e-06 | 5.53158e-06 | 5.10764e-05 | 0 | 4.22588e-06 | 9.00602e-06 | 4.45981e-06 | 0 | 0.999167 | 0.000266173 | 0.000230856 | 0.000257477 | 23682 | 740 |
| CAA | TTG | 0 | 4.60181e-06 | 5.34867e-06 | 4.44757e-06 | 0 | 5.01023e-05 | 5.08821e-06 | 4.73385e-06 | 0.999096 | 0.000483283 | 0.000119831 | 0.000226666 | 22499 | 764 |
| CAC | GTG | 0 | 3.23702e-05 | 9.33189e-05 | 4.33577e-06 | 0 | 7.50504e-05 | 8.10457e-05 | 1.23876e-05 | 0.997014 | 0.00061125 | 0.00118653 | 0.000889873 | 25685 | 1100 |
| CAG | CTG | 0 | 2.74596e-06 | 0.000102295 | 2.99356e-06 | 0 | 3.10959e-06 | 0.000195237 | 3.5047e-06 | 0.997655 | 0.000763368 | 0.00054708 | 0.00072417 | 38412 | 1957 |
| CAT | ATG | 0 | 7.16612e-06 | 5.49095e-06 | 4.5787e-06 | 0 | 6.7822e-06 | 7.64408e-05 | 1.69882e-05 | 0.997116 | 0.000426161 | 0.00141531 | 0.000924948 | 22811 | 871 |
| CCA | TGG | 0.000265965 | 0 | 3.41322e-06 | 1.34354e-05 | 0.000930818 | 0 | 3.61291e-06 | 5.46834e-05 | 0.998179 | 0.000284263 | 0.000102156 | 0.000162842 | 30684 | 2165 |
| CCC | GGG | 9.24159e-05 | 0 | 3.40516e-06 | 4.52643e-06 | 7.11428e-05 | 0 | 3.53882e-06 | 3.62545e-06 | 0.998495 | 0.000491179 | 0.000495538 | 0.000339345 | 29762 | 1611 |
| CCG | CGG | 0.000923158 | 0 | 9.30518e-06 | 3.82552e-05 | 0.00125638 | 0 | 8.44291e-06 | 0.000304532 | 0.991736 | 0.00222149 | 0.00177326 | 0.00172908 | 13353 | 1389 |
| CCT | AGG | 0.000478858 | 0 | 3.41991e-06 | 4.30283e-05 | 0.000296153 | 0 | 4.69616e-06 | 5.61254e-06 | 0.998086 | 0.000259203 | 0.000457089 | 0.00036554 | 30364 | 2072 |
| CGA | TCG | 0.000187275 | 1.65369e-05 | 0 | 0.00152941 | 2.21176e-05 | 1.40978e-05 | 0 | 0.000956028 | 0.991822 | 0.00264978 | 0.00139811 | 0.00140467 | 7188 | 587 |
| CGC | GCG | 0.000640667 | 8.84702e-06 | 0 | 0.00321291 | 0.000342219 | 0.000154472 | 0 | 0.0012667 | 0.987929 | 0.00291398 | 0.00187995 | 0.00165104 | 11567 | 1322 |
| CGG | CCG | 0.000304532 | 8.44291e-06 | 0 | 0.00125638 | 3.82552e-05 | 9.30518e-06 | 0 | 0.000923158 | 0.991736 | 0.00222149 | 0.00177326 | 0.00172908 | 13353 | 1389 |
| CGT | ACG | 5.77504e-05 | 1.24172e-05 | 0 | 0.00220037 | 0.000337754 | 1.18651e-05 | 0 | 0.000637854 | 0.989924 | 0.00387331 | 0.00154618 | 0.00139806 | 8652 | 975 |
| CTA | TAG | 1.27159e-05 | 6.42975e-05 | 1.09686e-05 | 0 | 8.04703e-06 | 0.000308289 | 8.32134e-06 | 0 | 0.998247 | 0.000169539 | 0.000685906 | 0.000484813 | 12581 | 543 |
| CTC | GAG | 3.70124e-06 | 5.65567e-05 | 3.97577e-06 | 0 | 3.69936e-06 | 0.000199751 | 3.70849e-06 | 0 | 0.998571 | 6.37094e-05 | 0.000838474 | 0.000255166 | 27824 | 1369 |
| CTG | CAG | 3.5047e-06 | 0.000195237 | 3.10959e-06 | 0 | 2.99356e-06 | 0.000102295 | 2.74596e-06 | 0 | 0.997655 | 0.000763368 | 0.00054708 | 0.00072417 | 38412 | 1957 |
| CTT | AAG | 3.92991e-06 | 4.05895e-05 | 3.96582e-05 | 0 | 3.68513e-06 | 0.000117009 | 4.07544e-06 | 0 | 0.998714 | 0.000228216 | 0.00051684 | 0.000331927 | 27411 | 1108 |
| GAA | TTC | 0 | 3.82266e-06 | 6.69567e-05 | 3.71202e-06 | 0 | 3.80314e-06 | 5.61657e-06 | 3.71854e-06 | 0.999324 | 0.000214306 | 0.000259232 | 0.00011509 | 26961 | 864 |
| GAC | GTC | 0 | 6.02391e-06 | 8.61461e-05 | 5.69944e-06 | 0 | 1.97212e-05 | 6.1632e-05 | 5.94817e-06 | 0.998406 | 7.35288e-05 | 0.000874061 | 0.000461509 | 17550 | 686 |
| GAG | CTC | 0 | 3.70849e-06 | 0.000199751 | 3.69936e-06 | 0 | 3.97577e-06 | 5.65567e-05 | 3.70124e-06 | 0.998571 | 6.37094e-05 | 0.000838474 | 0.000255166 | 27824 | 1369 |
| GAT | ATC | 0 | 6.27166e-06 | 0.000128399 | 5.95487e-06 | 0 | 2.64394e-05 | 3.36885e-05 | 5.97892e-06 | 0.99836 | 0.000122069 | 0.000770122 | 0.000540765 | 16827 | 624 |
| GCA | TGC | 0.00187736 | 0 | 3.9364e-06 | 4.94373e-05 | 0.00252889 | 0 | 3.81905e-06 | 0.000218995 | 0.994577 | 0.000274751 | 0.000309712 | 0.000155879 | 26300 | 2393 |
| GCC | GGC | 0.00158738 | 0 | 4.31065e-06 | 3.78071e-05 | 0.00138931 | 0 | 3.84874e-06 | 2.27224e-05 | 0.996083 | 0.000127443 | 0.000457601 | 0.000286652 | 27476 | 2220 |
| GCG | CGC | 0.0012667 | 0 | 0.000154472 | 0.000342219 | 0.00321291 | 0 | 8.84702e-06 | 0.000640667 | 0.987929 | 0.00291398 | 0.00187995 | 0.00165104 | 11567 | 1322 |
| GCT | AGC | 0.00153427 | 0 | 4.6335e-06 | 2.53268e-05 | 0.00148543 | 0 | 3.87344e-06 | 6.29483e-06 | 0.995984 | 8.83675e-05 | 0.000608399 | 0.000259126 | 26412 | 2137 |
| GGA | TCC | 4.14245e-06 | 4.02721e-06 | 0 | 0.000159059 | 3.9965e-05 | 3.61907e-05 | 0 | 0.000241554 | 0.998633 | 0.000418544 | 0.00023645 | 0.0002275 | 26812 | 1237 |
| GGC | GCC | 2.27224e-05 | 3.84874e-06 | 0 | 0.00138931 | 3.78071e-05 | 4.31065e-06 | 0 | 0.00158738 | 0.996083 | 0.000127443 | 0.000457601 | 0.000286652 | 27476 | 2220 |
| GGG | CCC | 3.62545e-06 | 3.53882e-06 | 0 | 7.11428e-05 | 4.52643e-06 | 3.40516e-06 | 0 | 9.24159e-05 | 0.998495 | 0.000491179 | 0.000495538 | 0.000339345 | 29762 | 1611 |
| GGT | ACC | 7.4757e-06 | 5.80451e-06 | 0 | 0.000228153 | 2.74222e-05 | 5.14451e-06 | 0 | 0.000306831 | 0.998077 | 0.000801531 | 0.000336937 | 0.000203989 | 20098 | 1373 |
| GTA | TAC | 9.29441e-06 | 1.24343e-05 | 0.000119059 | 0 | 7.39604e-06 | 2.25968e-05 | 8.02833e-06 | 0 | 0.997943 | 0.000400138 | 0.00110167 | 0.00037677 | 13535 | 577 |
| GTC | GAC | 5.94817e-06 | 6.1632e-05 | 1.97212e-05 | 0 | 5.69944e-06 | 8.61461e-05 | 6.02391e-06 | 0 | 0.998406 | 7.35288e-05 | 0.000874061 | 0.000461509 | 17550 | 686 |
| GTG | CAC | 1.23876e-05 | 8.10457e-05 | 7.50504e-05 | 0 | 4.33577e-06 | 9.33189e-05 | 3.23702e-05 | 0 | 0.997014 | 0.00061125 | 0.00118653 | 0.000889873 | 25685 | 1100 |
| GTT | AAC | 5.37892e-06 | 4.98274e-05 | 1.93863e-05 | 0 | 5.35363e-06 | 0.000144486 | 6.6931e-06 | 0 | 0.998957 | 4.77854e-05 | 0.000491286 | 0.000272755 | 18697 | 636 |
| TAA | TTA | 0 | 8.55805e-06 | 4.48605e-05 | 5.93961e-06 | 0 | 1.02053e-05 | 5.11276e-06 | 1.12118e-05 | 0.998483 | 0.000243505 | 0.000888273 | 0.00029922 | 20355 | 638 |
| TAC | GTA | 0 | 8.02833e-06 | 2.25968e-05 | 7.39604e-06 | 0 | 0.000119059 | 1.24343e-05 | 9.29441e-06 | 0.997943 | 0.000400138 | 0.00110167 | 0.00037677 | 13535 | 577 |
| TAG | CTA | 0 | 8.32134e-06 | 0.000308289 | 8.04703e-06 | 0 | 1.09686e-05 | 6.42975e-05 | 1.27159e-05 | 0.998247 | 0.000169539 | 0.000685906 | 0.000484813 | 12581 | 543 |
| TAT | ATA | 0 | 0.000124589 | 8.26784e-05 | 5.65963e-06 | 0 | 6.34189e-06 | 1.07597e-05 | 6.08865e-06 | 0.998311 | 0.000523736 | 0.000697212 | 0.000231533 | 17706 | 649 |
| TCA | TGA | 0.00148346 | 0 | 3.98029e-06 | 5.33578e-06 | 0.00145946 | 0 | 4.27762e-06 | 5.47418e-06 | 0.996329 | 0.00028229 | 0.00015123 | 0.000275955 | 25726 | 1532 |
| TCC | GGA | 0.000241554 | 0 | 3.61907e-05 | 3.9965e-05 | 0.000159059 | 0 | 4.02721e-06 | 4.14245e-06 | 0.998633 | 0.000418544 | 0.00023645 | 0.0002275 | 26812 | 1237 |
| TCG | CGA | 0.000956028 | 0 | 1.40978e-05 | 2.21176e-05 | 0.00152941 | 0 | 1.65369e-05 | 0.000187275 | 0.991822 | 0.00264978 | 0.00139811 | 0.00140467 | 7188 | 587 |
| TCT | AGA | 0.000463189 | 0 | 3.475e-06 | 0.000101374 | 0.000365995 | 0 | 3.46119e-06 | 7.61285e-05 | 0.99778 | 0.000203689 | 0.000628092 | 0.000374507 | 29410 | 1512 |
| TGA | TCA | 5.47418e-06 | 4.27762e-06 | 0 | 0.00145946 | 5.33578e-06 | 3.98029e-06 | 0 | 0.00148346 | 0.996329 | 0.00028229 | 0.00015123 | 0.000275955 | 25726 | 1532 |
| TGC | GCA | 0.000218995 | 3.81905e-06 | 0 | 0.00252889 | 4.94373e-05 | 3.9364e-06 | 0 | 0.00187736 | 0.994577 | 0.000274751 | 0.000309712 | 0.000155879 | 26300 | 2393 |
| TGG | CCA | 5.46834e-05 | 3.61291e-06 | 0 | 0.000930818 | 1.34354e-05 | 3.41322e-06 | 0 | 0.000265965 | 0.998179 | 0.000284263 | 0.000102156 | 0.000162842 | 30684 | 2165 |
| TGT | ACA | 1.61614e-05 | 5.01922e-06 | 0 | 0.00170644 | 7.31807e-06 | 4.06928e-06 | 0 | 0.00117592 | 0.996045 | 9.21006e-05 | 0.000831933 | 0.00011615 | 26688 | 2020 |
| TTA | TAA | 1.12118e-05 | 5.11276e-06 | 1.02053e-05 | 0 | 5.93961e-06 | 4.48605e-05 | 8.55805e-06 | 0 | 0.998483 | 0.000243505 | 0.000888273 | 0.00029922 | 20355 | 638 |
| TTC | GAA | 3.71854e-06 | 5.61657e-06 | 3.80314e-06 | 0 | 3.71202e-06 | 6.69567e-05 | 3.82266e-06 | 0 | 0.999324 | 0.000214306 | 0.000259232 | 0.00011509 | 26961 | 864 |
| TTG | CAA | 4.73385e-06 | 5.08821e-06 | 5.01023e-05 | 0 | 4.44757e-06 | 5.34867e-06 | 4.60181e-06 | 0 | 0.999096 | 0.000483283 | 0.000119831 | 0.000226666 | 22499 | 764 |
| TTT | AAA | 2.81229e-06 | 9.8886e-06 | 1.69054e-05 | 0 | 2.69199e-06 | 2.87044e-06 | 2.99369e-06 | 0 | 0.999264 | 0.000361207 | 0.000258451 | 7.77741e-05 | 39858 | 1129 |
66 rows