| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | USA300TCH1516_ALE | 1,845,295 | A→G | 8.7% | D733D (GAT→GAC) | isdH ← | Iron‑regulated surface determinant protein H |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | USA300TCH1516_ALE | 1,845,295 | 0 | A | G | 8.7% | 622.9 / 35.8 | 213 | D733D (GAT→GAC) | isdH | Iron‑regulated surface determinant protein H |
| Reads supporting (aligned to +/- strand): ref base A (91/103); new base G (3/16); total (94/119) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.36e-02 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.58e-01 | |||||||||||
Only 100 of 232 total aligned reads displayed.
ATCTTTATCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGTTCTATCACATCT > USA300TCH1516_ALE/1845205‑1845385 | aTCTTTATCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACata < 2:3502085/91‑1 (MQ=255)aTCTTTATCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACata < 2:2286063/91‑1 (MQ=255)aTCTTTATCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACata < 1:292476/91‑1 (MQ=255) tCTTTATCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACatat < 2:835672/91‑1 (MQ=255) tttATCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGATATGTCg < 1:947559/91‑1 (MQ=255) tttATCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCg > 1:382992/1‑91 (MQ=255) ttATCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGATATGTCgg < 1:1030503/91‑1 (MQ=255) ttATCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGATATGTCgg < 2:2037816/91‑1 (MQ=255) ttATCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGATATGTCgg < 1:220651/91‑1 (MQ=255) ttATCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCgg < 1:1314242/91‑1 (MQ=255) ttATCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCgg < 2:2389229/91‑1 (MQ=255) ttATCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCgg > 2:2808961/1‑91 (MQ=255) tATCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGa < 1:3391280/91‑1 (MQ=255) tATCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGa < 1:1915577/91‑1 (MQ=255) aTCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGATATGTCGGAt < 1:1816053/91‑1 (MQ=255) tCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATa < 2:1378903/91‑1 (MQ=255) tCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATa > 2:14577/1‑91 (MQ=255) cacaTTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGATATGTCGGATaat < 2:2344804/91‑2 (MQ=255) caTTTCTAGCAGTATCTTTGGCAATTTGAGTATCCATTTCTGTTAAATCATATTTATCGAAGTGATTA‑TTATCCGATATGTCGGATaataa < 2:1423254/91‑4 (MQ=255) aTTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATCATTTATCCGATATGTCGGATaataa < 1:849072/91‑4 (MQ=25) tttCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGAt < 2:1868211/91‑1 (MQ=255) cTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCaa < 2:2191317/91‑1 (MQ=255) tATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAAc < 2:3575294/91‑1 (MQ=255) tATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAAc < 1:466646/91‑1 (MQ=255) tATCAGTATCTTTGGCAATTTGAGTATCCATTCCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAAc > 2:2530389/1‑91 (MQ=255) tCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCGAcat > 1:3298905/1‑91 (MQ=255) tCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAAcat > 1:485958/1‑91 (MQ=255) tCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAAcat < 2:1015615/91‑1 (MQ=255) aTCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGt < 1:2873277/91‑1 (MQ=255) aTCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGt < 2:2434082/91‑1 (MQ=255) cTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTg < 1:3850385/91‑1 (MQ=255) cTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTg < 1:1089322/91‑1 (MQ=255) cTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTg < 1:2074093/91‑1 (MQ=255) ttGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGca > 2:928575/1‑91 (MQ=255) ttGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGACTA‑TTACCCGACATATCGGATAAATGATCAACATCATGTTGca > 2:1278062/1‑91 (MQ=255) ggCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGcaca > 2:716011/1‑91 (MQ=255) ggCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGcaca > 2:3829068/1‑91 (MQ=255) gCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACAt > 2:3305604/1‑91 (MQ=255) gCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACAt > 1:1798663/1‑91 (MQ=255) gCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACAt > 2:745687/1‑91 (MQ=255) cAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATc < 1:1655414/91‑1 (MQ=255) cAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTACACATc > 1:3491012/1‑91 (MQ=255) aTTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCtt > 2:2703632/1‑91 (MQ=255) tttGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCttt > 2:2623953/1‑91 (MQ=255) tttGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCttt > 1:1287103/1‑91 (MQ=255) ttGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTa < 2:2112976/91‑1 (MQ=255) tGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTAt > 1:650590/1‑91 (MQ=255) tGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTAt > 1:2853109/1‑91 (MQ=255) gAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATc < 1:1232921/91‑1 (MQ=255) gAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATc < 2:2961669/91‑1 (MQ=255) gTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCaa < 2:1521314/91‑1 (MQ=255) gTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCaa > 1:1179032/1‑91 (MQ=255) gTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCaa < 2:361057/91‑1 (MQ=255) tATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAat < 2:3136269/91‑1 (MQ=255) ccATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAAtatt < 2:1796980/91‑1 (MQ=255) tttCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAAtattatt < 2:521056/91‑1 (MQ=255) cTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATc > 1:3700189/1‑91 (MQ=255) ttttAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCa < 2:2064496/91‑1 (MQ=255) tttAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAg < 1:374565/91‑1 (MQ=255) tttAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAg > 2:3419685/1‑91 (MQ=255) tttAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAg < 2:599410/91‑1 (MQ=255) tCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCtt < 1:3568205/91‑1 (MQ=255) tCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCtt < 1:1023770/91‑1 (MQ=255) cATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATCTTATTATCAGCATCttt > 1:1131783/1‑91 (MQ=255) atatTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTa > 1:987710/1‑91 (MQ=255) atatTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTa < 1:3424256/91‑1 (MQ=255) tATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCAc < 2:1164098/91‑1 (MQ=255) tATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCAc > 2:1643574/1‑91 (MQ=255) tCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGt < 1:2114047/91‑1 (MQ=255) tCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGt > 1:2566570/1‑91 (MQ=255) tCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGt < 1:3698660/91‑1 (MQ=255) cGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTc > 1:2621815/1‑91 (MQ=255) gAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCa > 2:3583012/1‑91 (MQ=255) gAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCa > 2:3933209/1‑91 (MQ=255) aaGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAg > 1:1479258/1‑91 (MQ=255) aaGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAg < 2:3230645/91‑1 (MQ=255) aGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGa > 1:3814903/1‑91 (MQ=255) gTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGAc > 1:225424/1‑91 (MQ=255) gATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGActc < 2:3819584/91‑1 (MQ=255) gATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGActc < 1:1603304/91‑1 (MQ=255) atta‑ttATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGActct > 1:3748587/1‑91 (MQ=255) atta‑ttATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGActct < 1:2676274/91‑1 (MQ=255) a‑ttatCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGt > 1:806309/1‑91 (MQ=255) tatCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGTTc > 1:2326703/1‑91 (MQ=255) tCCGATATGTCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGTTCTa > 1:1207137/1‑91 (MQ=255) tCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGTTCTa < 2:2947161/91‑1 (MQ=255) ccGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGTTCTAt < 2:2039621/91‑1 (MQ=255) ccGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTACTATCAGCATCTTTAACCACGTCAGACTCTGGTTCTAt < 1:3332633/91‑1 (MQ=255) cGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGTTCTATc < 1:3048231/91‑1 (MQ=255) cGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGTTCTATc > 2:2712520/1‑91 (MQ=255) gACATATCGGATAAATGATCAACATCATGCTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGTTCTATca < 1:3170429/91‑1 (MQ=255) aCATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGTTCTATcac > 1:1532573/1‑91 (MQ=255) aCATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGTTCTATcac < 1:2874594/91‑1 (MQ=255) cATATCGGATAACTGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGCCCCTGGCTCTATcaca > 2:108945/1‑91 (MQ=255) atatCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGTTCTATCACAt < 2:171229/91‑1 (MQ=255) tatCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGTTCTATCACATc < 1:445389/91‑1 (MQ=255) tatCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGTTCTATCACATc < 1:2061771/91‑1 (MQ=255) tatCGGATAAATGATCAACATCATCTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGTTCTATCACATc > 2:1891000/1‑91 (MQ=255) atCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGTTCTATCACATCt > 2:333547/1‑91 (MQ=255) atCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGTTCTATCACATCt > 2:1762201/1‑91 (MQ=255) | ATCTTTATCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTA‑TTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGTTCTATCACATCT > USA300TCH1516_ALE/1845205‑1845385 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |