File Info
- Filename
- HCC1395_tumor_vs_HCC1395_BL.tnseq.orientation_data.tsv
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- s3://natera-rnd-pltf-dev-nextflow-data-01/users/mipeters/semiproductionize/sarek/698115e9/test_regression_dev_b0193075/variant_calling/tnseq/HCC1395_tumor_vs_HCC1395_BL/HCC1395_tumor_vs_HCC1395_BL.tnseq.orientation_data.tsv
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- mipeters-regression-dev-698115e9
- Published
- Feb 02, 2026 1:37 PM
Content
View in new tab| #<METADATA>SAMPLE=HCC1395_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 | 7.38256e-06 | 8.0781e-06 | 7.17448e-06 | 0 | 1.97581e-05 | 7.76009e-06 | 7.21718e-06 | 0.999289 | 0.00025589 | 0.000247212 | 0.000150172 | 13983 | 1184 |
| AAC | GTT | 0 | 1.20258e-05 | 2.9632e-05 | 1.17398e-05 | 0 | 1.19683e-05 | 5.90589e-05 | 1.17842e-05 | 0.998867 | 2.12333e-05 | 0.000730624 | 0.00024467 | 8582 | 784 |
| AAG | CTT | 0 | 7.16374e-05 | 0.000127891 | 7.50587e-06 | 0 | 6.39502e-05 | 4.35774e-05 | 2.69296e-05 | 0.998386 | 0.000136285 | 0.000904989 | 0.000231464 | 13392 | 1426 |
| AAT | ATT | 0 | 1.13131e-05 | 0.000137666 | 1.30916e-05 | 0 | 2.5847e-05 | 1.30738e-05 | 1.11398e-05 | 0.99899 | 0.000220663 | 0.000456755 | 0.000120852 | 9101 | 756 |
| ACA | TGT | 0.000664727 | 0 | 8.95043e-05 | 0.000101518 | 0.00149813 | 0 | 8.5121e-06 | 1.0161e-05 | 0.996156 | 1.52087e-05 | 0.00127965 | 0.000176367 | 11906 | 2771 |
| ACC | GGT | 0.000247291 | 0 | 1.02539e-05 | 1.10144e-05 | 0.00101925 | 0 | 1.12535e-05 | 4.39859e-05 | 0.997249 | 0.000406531 | 0.000787645 | 0.000213436 | 9838 | 2012 |
| ACG | CGT | 0.000982175 | 0 | 2.87089e-05 | 3.21741e-05 | 0.00163814 | 0 | 2.05295e-05 | 0.000133351 | 0.989679 | 0.0021625 | 0.00448267 | 0.000840298 | 4962 | 1421 |
| ACT | AGT | 0.000156677 | 0 | 1.08325e-05 | 9.88079e-05 | 0.00132436 | 0 | 1.08458e-05 | 1.262e-05 | 0.997314 | 4.53777e-05 | 0.000801805 | 0.000225129 | 9327 | 1764 |
| AGA | TCT | 8.12114e-06 | 7.3406e-06 | 0 | 0.000100887 | 9.14567e-05 | 7.09386e-06 | 0 | 1.39826e-05 | 0.998475 | 0.000149136 | 0.000728838 | 0.000418117 | 14269 | 1917 |
| AGC | GCT | 9.64025e-06 | 6.83792e-06 | 0 | 0.00126349 | 7.963e-06 | 6.88041e-06 | 0 | 0.000896594 | 0.997074 | 7.0886e-05 | 0.000656626 | 6.77966e-06 | 14749 | 3264 |
| AGG | CCT | 7.44652e-06 | 6.61083e-06 | 0 | 0.000336311 | 0.000193718 | 6.63625e-06 | 0 | 5.89806e-05 | 0.998418 | 0.000303983 | 0.000336119 | 0.000332659 | 15330 | 2853 |
| AGT | ACT | 1.262e-05 | 1.08458e-05 | 0 | 0.00132436 | 9.88079e-05 | 1.08325e-05 | 0 | 0.000156677 | 0.997314 | 4.53777e-05 | 0.000801805 | 0.000225129 | 9327 | 1764 |
| ATA | TAT | 1.61227e-05 | 2.96141e-05 | 3.97542e-05 | 0 | 1.57597e-05 | 0.000687601 | 1.80376e-05 | 0 | 0.99777 | 0.000626327 | 0.000466452 | 0.000330085 | 6361 | 643 |
| ATC | GAT | 1.08497e-05 | 1.97312e-05 | 0.000205577 | 0 | 1.08021e-05 | 0.000123624 | 1.10291e-05 | 0 | 0.998442 | 0.000137522 | 0.000489392 | 0.000549628 | 9278 | 814 |
| ATG | CAT | 8.88778e-06 | 9.75191e-06 | 0.000184815 | 0 | 8.84452e-06 | 0.000228804 | 9.07623e-06 | 0 | 0.996966 | 8.67372e-05 | 0.00143337 | 0.00106383 | 11373 | 1009 |
| ATT | AAT | 1.11398e-05 | 1.30738e-05 | 2.5847e-05 | 0 | 1.30916e-05 | 0.000137666 | 1.13131e-05 | 0 | 0.99899 | 0.000220663 | 0.000456755 | 0.000120852 | 9101 | 756 |
| CAA | TTG | 0 | 9.29871e-06 | 1.03622e-05 | 9.01506e-06 | 0 | 0.00019833 | 1.10231e-05 | 9.15871e-06 | 0.999067 | 0.000263101 | 0.000144719 | 0.000278401 | 11134 | 1030 |
| CAC | GTG | 0 | 1.34758e-05 | 1.76097e-05 | 8.13484e-06 | 0 | 1.286e-05 | 0.000150624 | 8.34255e-06 | 0.99687 | 0.000503903 | 0.00176984 | 0.000645624 | 12545 | 1234 |
| CAG | CTG | 0 | 5.13327e-06 | 0.00028451 | 4.87497e-06 | 0 | 5.16884e-06 | 0.000122036 | 5.40229e-06 | 0.99799 | 0.000331899 | 0.000822803 | 0.000427859 | 20688 | 2493 |
| CAT | ATG | 0 | 9.07623e-06 | 0.000228804 | 8.84452e-06 | 0 | 0.000184815 | 9.75191e-06 | 8.88778e-06 | 0.996966 | 8.67372e-05 | 0.00143337 | 0.00106383 | 11373 | 1009 |
| CCA | TGG | 0.000297813 | 0 | 6.0284e-06 | 7.45351e-06 | 0.000366346 | 0 | 6.17871e-06 | 1.38579e-05 | 0.998769 | 2.64662e-05 | 0.000441385 | 6.58367e-05 | 16707 | 3105 |
| CCC | GGG | 2.3191e-05 | 0 | 7.79484e-06 | 9.67081e-06 | 0.000176787 | 0 | 8.65982e-06 | 8.05096e-06 | 0.998541 | 2.89605e-05 | 0.000962156 | 0.000233363 | 13283 | 2207 |
| CCG | CGG | 0.000358252 | 0 | 1.35614e-05 | 0.000101864 | 0.000835465 | 0 | 6.76003e-05 | 1.84268e-05 | 0.992938 | 0.000789282 | 0.00339465 | 0.00148284 | 7526 | 1888 |
| CCT | AGG | 5.89806e-05 | 0 | 6.63625e-06 | 0.000193718 | 0.000336311 | 0 | 6.61083e-06 | 7.44652e-06 | 0.998418 | 0.000303983 | 0.000336119 | 0.000332659 | 15330 | 2853 |
| CGA | TCG | 0.000209553 | 2.35221e-05 | 0 | 0.000770321 | 2.6711e-05 | 2.18158e-05 | 0 | 0.00092822 | 0.994689 | 0.00121649 | 0.00144145 | 0.000672451 | 4609 | 955 |
| CGC | GCG | 0.000510031 | 1.60024e-05 | 0 | 0.00170143 | 0.000333234 | 1.78862e-05 | 0 | 0.000499245 | 0.990673 | 0.00149531 | 0.00333829 | 0.00141584 | 6426 | 1944 |
| CGG | CCG | 1.84268e-05 | 6.76003e-05 | 0 | 0.000835465 | 0.000101864 | 1.35614e-05 | 0 | 0.000358252 | 0.992938 | 0.000789282 | 0.00339465 | 0.00148284 | 7526 | 1888 |
| CGT | ACG | 0.000133351 | 2.05295e-05 | 0 | 0.00163814 | 3.21741e-05 | 2.87089e-05 | 0 | 0.000982175 | 0.989679 | 0.0021625 | 0.00448267 | 0.000840298 | 4962 | 1421 |
| CTA | TAG | 1.91706e-05 | 2.18292e-05 | 2.90348e-05 | 0 | 1.89088e-05 | 4.31412e-05 | 1.97109e-05 | 0 | 0.997651 | 6.22329e-05 | 0.00155249 | 0.000582707 | 5319 | 577 |
| CTC | GAG | 7.047e-06 | 6.28554e-05 | 7.31893e-06 | 0 | 7.14074e-06 | 0.000251824 | 7.28449e-06 | 0 | 0.997919 | 2.42834e-05 | 0.0014296 | 0.000283188 | 14477 | 1731 |
| CTG | CAG | 5.40229e-06 | 0.000122036 | 5.16884e-06 | 0 | 4.87497e-06 | 0.00028451 | 5.13327e-06 | 0 | 0.99799 | 0.000331899 | 0.000822803 | 0.000427859 | 20688 | 2493 |
| CTT | AAG | 2.69296e-05 | 4.35774e-05 | 6.39502e-05 | 0 | 7.50587e-06 | 0.000127891 | 7.16374e-05 | 0 | 0.998386 | 0.000136285 | 0.000904989 | 0.000231464 | 13392 | 1426 |
| GAA | TTC | 0 | 7.74816e-06 | 8.20345e-06 | 7.33421e-06 | 0 | 0.000182391 | 8.10748e-06 | 7.41738e-06 | 0.999437 | 2.59164e-05 | 0.000235753 | 8.0533e-05 | 13658 | 1116 |
| GAC | GTC | 0 | 1.09671e-05 | 0.000196559 | 1.07082e-05 | 0 | 0.000185638 | 1.16427e-05 | 1.09016e-05 | 0.998162 | 1.78037e-05 | 0.00106254 | 0.000331126 | 9361 | 848 |
| GAG | CTC | 0 | 7.28449e-06 | 0.000251824 | 7.14074e-06 | 0 | 7.31893e-06 | 6.28554e-05 | 7.047e-06 | 0.997919 | 2.42834e-05 | 0.0014296 | 0.000283188 | 14477 | 1731 |
| GAT | ATC | 0 | 1.10291e-05 | 0.000123624 | 1.08021e-05 | 0 | 0.000205577 | 1.97312e-05 | 1.08497e-05 | 0.998442 | 0.000137522 | 0.000489392 | 0.000549628 | 9278 | 814 |
| GCA | TGC | 0.00088565 | 0 | 7.10905e-06 | 0.000106901 | 0.00111839 | 0 | 7.24622e-06 | 9.01028e-06 | 0.997088 | 6.87648e-05 | 0.000561657 | 0.000146801 | 14151 | 3263 |
| GCC | GGC | 0.000411956 | 0 | 1.26732e-05 | 7.6209e-06 | 0.00259683 | 0 | 6.94703e-06 | 0.000135863 | 0.995914 | 5.18073e-05 | 0.000649673 | 0.000213102 | 14546 | 3226 |
| GCG | CGC | 0.000499245 | 0 | 1.78862e-05 | 0.000333234 | 0.00170143 | 0 | 1.60024e-05 | 0.000510031 | 0.990673 | 0.00149531 | 0.00333829 | 0.00141584 | 6426 | 1944 |
| GCT | AGC | 0.000896594 | 0 | 6.88041e-06 | 7.963e-06 | 0.00126349 | 0 | 6.83792e-06 | 9.64025e-06 | 0.997074 | 7.0886e-05 | 0.000656626 | 6.77966e-06 | 14749 | 3264 |
| GGA | TCC | 7.2883e-06 | 6.89296e-06 | 0 | 0.000148953 | 7.12172e-06 | 9.38303e-05 | 0 | 1.91658e-05 | 0.999137 | 0.000204157 | 0.000163736 | 0.000211832 | 14631 | 1866 |
| GGC | GCC | 0.000135863 | 6.94703e-06 | 0 | 0.00259683 | 7.6209e-06 | 1.26732e-05 | 0 | 0.000411956 | 0.995914 | 5.18073e-05 | 0.000649673 | 0.000213102 | 14546 | 3226 |
| GGG | CCC | 8.05096e-06 | 8.65982e-06 | 0 | 0.000176787 | 9.67081e-06 | 7.79484e-06 | 0 | 2.3191e-05 | 0.998541 | 2.89605e-05 | 0.000962156 | 0.000233363 | 13283 | 2207 |
| GGT | ACC | 4.39859e-05 | 1.12535e-05 | 0 | 0.00101925 | 1.10144e-05 | 1.02539e-05 | 0 | 0.000247291 | 0.997249 | 0.000406531 | 0.000787645 | 0.000213436 | 9838 | 2012 |
| GTA | TAC | 1.77626e-05 | 4.59362e-05 | 4.50524e-05 | 0 | 1.74512e-05 | 4.24988e-05 | 1.94609e-05 | 0 | 0.998202 | 4.7642e-05 | 0.00102293 | 0.000538893 | 5751 | 554 |
| GTC | GAC | 1.09016e-05 | 1.16427e-05 | 0.000185638 | 0 | 1.07082e-05 | 0.000196559 | 1.09671e-05 | 0 | 0.998162 | 1.78037e-05 | 0.00106254 | 0.000331126 | 9361 | 848 |
| GTG | CAC | 8.34255e-06 | 0.000150624 | 1.286e-05 | 0 | 8.13484e-06 | 1.76097e-05 | 1.34758e-05 | 0 | 0.99687 | 0.000503903 | 0.00176984 | 0.000645624 | 12545 | 1234 |
| GTT | AAC | 1.17842e-05 | 5.90589e-05 | 1.19683e-05 | 0 | 1.17398e-05 | 2.9632e-05 | 1.20258e-05 | 0 | 0.998867 | 2.12333e-05 | 0.000730624 | 0.00024467 | 8582 | 784 |
| TAA | TTA | 0 | 0.000177428 | 1.65217e-05 | 1.59789e-05 | 0 | 1.64868e-05 | 1.68172e-05 | 1.60951e-05 | 0.998496 | 0.000308587 | 0.000761887 | 0.000174628 | 6298 | 563 |
| TAC | GTA | 0 | 1.94609e-05 | 4.24988e-05 | 1.74512e-05 | 0 | 4.50524e-05 | 4.59362e-05 | 1.77626e-05 | 0.998202 | 4.7642e-05 | 0.00102293 | 0.000538893 | 5751 | 554 |
| TAG | CTA | 0 | 1.97109e-05 | 4.31412e-05 | 1.89088e-05 | 0 | 2.90348e-05 | 2.18292e-05 | 1.91706e-05 | 0.997651 | 6.22329e-05 | 0.00155249 | 0.000582707 | 5319 | 577 |
| TAT | ATA | 0 | 1.80376e-05 | 0.000687601 | 1.57597e-05 | 0 | 3.97542e-05 | 2.96141e-05 | 1.61227e-05 | 0.99777 | 0.000626327 | 0.000466452 | 0.000330085 | 6361 | 643 |
| TCA | TGA | 0.000305112 | 0 | 8.00028e-06 | 8.299e-06 | 0.00102583 | 0 | 7.99863e-06 | 8.18031e-06 | 0.997964 | 0.000257909 | 9.37286e-05 | 0.000321015 | 12771 | 2199 |
| TCC | GGA | 1.91658e-05 | 0 | 9.38303e-05 | 7.12172e-06 | 0.000148953 | 0 | 6.89296e-06 | 7.2883e-06 | 0.999137 | 0.000204157 | 0.000163736 | 0.000211832 | 14631 | 1866 |
| TCG | CGA | 0.00092822 | 0 | 2.18158e-05 | 2.6711e-05 | 0.000770321 | 0 | 2.35221e-05 | 0.000209553 | 0.994689 | 0.00121649 | 0.00144145 | 0.000672451 | 4609 | 955 |
| TCT | AGA | 1.39826e-05 | 0 | 7.09386e-06 | 9.14567e-05 | 0.000100887 | 0 | 7.3406e-06 | 8.12114e-06 | 0.998475 | 0.000149136 | 0.000728838 | 0.000418117 | 14269 | 1917 |
| TGA | TCA | 8.18031e-06 | 7.99863e-06 | 0 | 0.00102583 | 8.299e-06 | 8.00028e-06 | 0 | 0.000305112 | 0.997964 | 0.000257909 | 9.37286e-05 | 0.000321015 | 12771 | 2199 |
| TGC | GCA | 9.01028e-06 | 7.24622e-06 | 0 | 0.00111839 | 0.000106901 | 7.10905e-06 | 0 | 0.00088565 | 0.997088 | 6.87648e-05 | 0.000561657 | 0.000146801 | 14151 | 3263 |
| TGG | CCA | 1.38579e-05 | 6.17871e-06 | 0 | 0.000366346 | 7.45351e-06 | 6.0284e-06 | 0 | 0.000297813 | 0.998769 | 2.64662e-05 | 0.000441385 | 6.58367e-05 | 16707 | 3105 |
| TGT | ACA | 1.0161e-05 | 8.5121e-06 | 0 | 0.00149813 | 0.000101518 | 8.95043e-05 | 0 | 0.000664727 | 0.996156 | 1.52087e-05 | 0.00127965 | 0.000176367 | 11906 | 2771 |
| TTA | TAA | 1.60951e-05 | 1.68172e-05 | 1.64868e-05 | 0 | 1.59789e-05 | 1.65217e-05 | 0.000177428 | 0 | 0.998496 | 0.000308587 | 0.000761887 | 0.000174628 | 6298 | 563 |
| TTC | GAA | 7.41738e-06 | 8.10748e-06 | 0.000182391 | 0 | 7.33421e-06 | 8.20345e-06 | 7.74816e-06 | 0 | 0.999437 | 2.59164e-05 | 0.000235753 | 8.0533e-05 | 13658 | 1116 |
| TTG | CAA | 9.15871e-06 | 1.10231e-05 | 0.00019833 | 0 | 9.01506e-06 | 1.03622e-05 | 9.29871e-06 | 0 | 0.999067 | 0.000263101 | 0.000144719 | 0.000278401 | 11134 | 1030 |
| TTT | AAA | 7.21718e-06 | 7.76009e-06 | 1.97581e-05 | 0 | 7.17448e-06 | 8.0781e-06 | 7.38256e-06 | 0 | 0.999289 | 0.00025589 | 0.000247212 | 0.000150172 | 13983 | 1184 |
66 rows