| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | USA300TCH1516_ALE | 2,517,794 | A→T | 7.0% | A946A (GCT→GCA) | narG ← | Respiratory nitrate reductase 1 alpha chain |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | USA300TCH1516_ALE | 2,517,794 | 0 | A | T | 7.0% | 530.7 / 20.0 | 157 | A946A (GCT→GCA) | narG | Respiratory nitrate reductase 1 alpha chain |
| Reads supporting (aligned to +/- strand): ref base A (79/67); new base T (9/2); total (88/69) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.14e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.58e-01 | |||||||||||
Only 100 of 158 total aligned reads displayed.
AACGGCATTCCAGTTTGTTCTTCGAGATCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCACTCCACGTACCTAACATACTTTTTAAT > USA300TCH1516_ALE/2517705‑2517884 | aaCGGCATTCCAGTTTGTTCTTCGAGATCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAg > 1:291443/1‑91 (MQ=255) aCGGCATTCCAGTTTGTTCTTCGAGATCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGc > 2:147246/1‑91 (MQ=255) tgCATTCCAGTTTGTTCTTCGAGATCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTa > 2:1031553/2‑91 (MQ=255) ggCATTCCAGTTTGTTCTTCGAGATCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTa < 2:2593129/91‑1 (MQ=255) ggCATTCCAGTTTGTTCTTCGAGATCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTa > 1:3295158/1‑91 (MQ=255) ggCATTCCAGTTTGTTCTTCGAGATCATCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTa > 1:1615245/1‑91 (MQ=255) gCATTCCAGTTTGTTCTTCGAGATCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCTGATGCAATACTAAGTATTTCATCTGCTAc < 1:906308/91‑1 (MQ=25) gCATTCCAGTTTGTTCTTCGAGATCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCTGATGCAATACTAAGTATTTCATCTGCTAc < 1:906258/91‑1 (MQ=25) cATTCCAGTTTGTTCTTCGAGATCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACa > 2:3361103/1‑91 (MQ=255) cATTCCAGTTTGTTCTTCGAGATCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACa > 2:2179606/1‑91 (MQ=255) aTTCCAGTTTGTTCTTCGAGATCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACAt > 1:1700113/1‑91 (MQ=255) ttCCAGTTTGTTCTTCGAGATCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACAtt > 1:3423790/1‑91 (MQ=255) ccAGTTTGTTCTTCGAGATCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTAc < 2:1905257/91‑1 (MQ=255) ccAGTTTGTTCTTCGAGATCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTAc > 1:925244/1‑91 (MQ=255) cAGTTTGTTCTTCGAGATCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACg > 2:645123/1‑91 (MQ=255) cAGTTTGTTCTTCGAGATCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACg > 1:594561/1‑91 (MQ=255) aGTTTGTTCTTCGAGATCTTCATATGATTTTTGTGTTATTTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGt > 2:1481574/1‑91 (MQ=255) gTTTGTTCTTCGAGATCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTg < 1:2432913/91‑1 (MQ=255) tttGTTCTTCGAGATCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGc < 2:936215/91‑1 (MQ=255) tttGTTCTTCGAGATCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGc < 1:2349036/91‑1 (MQ=255) ttGTTCTTCGAGATCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCt > 1:1387906/1‑91 (MQ=255) tGTTCTTCGAGATCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTg > 2:1566952/1‑91 (MQ=255) gTTCTTCGAGATCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGc > 2:2680916/1‑76 (MQ=255) gTTCTTCGAGATCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGc < 1:2680916/76‑1 (MQ=255) tcttcGAGATCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTAt < 2:846315/91‑1 (MQ=255) cttcGAGATCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTAc > 2:2763052/1‑81 (MQ=255) cttcGAGATCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATc > 2:2169830/1‑91 (MQ=255) cttcGAGATCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATc < 2:389699/91‑1 (MQ=255) ttcGAGATCTTCATATGATTTTTGTTATTTTTTATCATTTGTAGCAGATTAAATACTTAGTATTTCTTCATCTACATTACGTGCTGTATCa > 2:3620431/1‑91 (MQ=255) ttcGAGATCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCa < 1:102840/91‑1 (MQ=255) ttcGAGATCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCa > 2:3498925/1‑91 (MQ=255) agaTCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATAc < 2:3754042/91‑1 (MQ=255) gaTCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACg < 2:2008346/91‑1 (MQ=255) cTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTAc < 1:2297688/67‑1 (MQ=255) cTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTAc > 2:2297688/1‑67 (MQ=255) cATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACg < 1:745525/91‑1 (MQ=255) cATATAATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACg < 2:173125/91‑1 (MQ=255) atatGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGa > 1:187602/1‑91 (MQ=255) atatGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGa < 1:1661531/91‑1 (MQ=255) tGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTc < 1:190619/91‑1 (MQ=255) tttttGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGct < 1:2686428/91‑1 (MQ=255) tttttGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGct > 1:772216/1‑91 (MQ=255) tttGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGctct > 2:756990/1‑91 (MQ=255) gtgATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTcac > 1:779216/1‑91 (MQ=255) gtgATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTcac < 1:982790/91‑1 (MQ=255) tgATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTcaca > 2:2787411/1‑91 (MQ=255) aTAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGa < 2:299207/91‑1 (MQ=255) tAATTTACCATTCGTAGCAGATGAAATACTTCGTATTGCATGAGCTACATTACGTGCTGTATCAATAGATGGACGATTCACTCTCACAGaa > 2:2953644/1‑91 (MQ=255) tAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAACTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGaa < 1:3882591/91‑1 (MQ=255) aaTTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAat < 1:898643/91‑1 (MQ=255) aTTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAatc > 2:91245/1‑91 (MQ=255) aTTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAatc < 2:1736957/91‑1 (MQ=255) tttACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAatca > 2:3608573/1‑91 (MQ=255) ttACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAatcat < 2:2629801/91‑1 (MQ=255) tACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAatcatc < 2:878240/91‑1 (MQ=255) ccATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATcatcat > 2:2232875/1‑91 (MQ=255) ccATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATcatcat > 2:207829/1‑91 (MQ=255) ccATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATcatcat > 2:780935/1‑91 (MQ=255) ttCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGctct < 1:1016991/74‑1 (MQ=255) ttCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTg < 1:2126599/91‑1 (MQ=255) tgTAGCTGATGCAATACTAAGTATTTCATCTGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTa > 2:2239666/2‑91 (MQ=25) cGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTa < 1:503071/91‑1 (MQ=255) gTAGCTGATGCAATACTAAGTATTTCATCTGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTAt > 2:1144664/1‑91 (MQ=25) tAGCTGATGCAATACTAAGTATTTCATCTGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATc > 2:2540245/1‑91 (MQ=25) agctgATGCAATACTAAGTATTTCATCTGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCa > 2:3402497/5‑91 (MQ=25) agctgATGCAATACTAAGTATTTCATCTGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCa > 1:2749930/5‑91 (MQ=25) aGCTGATGCAATACTAAGTATTTCATCTGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCa > 2:312362/1‑91 (MQ=25) aGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCa > 2:707178/1‑91 (MQ=255) gCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCAc > 1:141054/1‑91 (MQ=255) gCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCAc < 1:1485582/91‑1 (MQ=255) cAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCACt > 2:1074957/1‑91 (MQ=255) aGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCACTc < 1:2502179/91‑1 (MQ=255) gATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCACTcc > 1:472795/1‑91 (MQ=255) aTGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCACTCCa < 1:2827484/91‑1 (MQ=255) gAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCACTCCACg > 1:3855087/1‑91 (MQ=255) gAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCACTCCACg > 1:1384204/1‑91 (MQ=255) aaTACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGCATCATCATTTGTATCACTCCACGTa > 2:3522007/1‑91 (MQ=255) aaTACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCACTCCACGTa < 1:3556926/91‑1 (MQ=255) aaTACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCACTCCACGTa < 2:3352646/91‑1 (MQ=255) aTACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCACTCCACGTAc < 1:960759/91‑1 (MQ=255) aTACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCGCTCACAGAATCATCATTTGTATCACTCCACGTAc < 2:1115981/91‑1 (MQ=255) tACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCACTCCACGTAcc > 1:1165685/1‑91 (MQ=255) tACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCACTCCACGTAcc > 1:1155694/1‑91 (MQ=255) cTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCACTCCACGTACCTa > 1:635816/1‑91 (MQ=255) ttAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCACTCCACGTACCTaa > 1:3801836/1‑91 (MQ=255) ttAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCACTCCACGTACCTaa < 2:3017289/91‑1 (MQ=255) aGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCACTCCACGTACCTAACa < 1:1900512/91‑1 (MQ=255) gTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCACTCCACGTACCTAACAt < 2:3688793/91‑1 (MQ=255) ttGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCACTCCACGTACCTAACATACt > 2:3247351/1‑91 (MQ=255) ttGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCACTCCACGTACCTAACATACt < 1:130497/91‑1 (MQ=255) ttGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCACTCCACGTACCTAACATACt < 2:235711/91‑1 (MQ=255) ttGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCACTCCACGTACCTAACATACt < 1:1284715/91‑1 (MQ=255) gCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCACTCCACGTACCTAACATACttt < 1:1854316/91‑1 (MQ=255) gCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCACTCCACGTACCTAACATACttt > 2:815111/1‑91 (MQ=255) gCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCACTCCACGTACCTAACATACttt > 1:1354073/1‑91 (MQ=255) cATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCACTCCACGTACCt < 2:541101/80‑1 (MQ=255) cATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCACTCCACGTACCTAACATACtttt > 1:3733953/1‑91 (MQ=255) cATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCACTCCACGTACCTAACATACtttt > 1:348016/1‑91 (MQ=255) cATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCACTCCACGTACCTAACATACtttt > 1:682425/1‑91 (MQ=255) aGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCACTCCACGTACCTAACATACTTTTTAAt < 2:2086572/91‑1 (MQ=255) | AACGGCATTCCAGTTTGTTCTTCGAGATCTTCATATGATTTTTGTGATAATTTACCATTCGTAGCAGATGAAATACTTAGTATTGCATCAGCTACATTACGTGCTGTATCAATACGTGGACGATTCGCTCTCACAGAATCATCATTTGTATCACTCCACGTACCTAACATACTTTTTAAT > USA300TCH1516_ALE/2517705‑2517884 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |