| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | USA300TCH1516_ALE | 1,845,292 | C→T | 7.8% | M734I (ATG→ATA) | 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 | 1,845,292 | 0 | C | T | 7.8% | 644.4 / 29.7 | 205 | M734I (ATG→ATA) | isdH | Iron‑regulated surface determinant protein H |
| Reads supporting (aligned to +/- strand): ref base C (104/85); new base T (3/13); total (107/98) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 7.56e-03 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.71e-01 | |||||||||||
Only 100 of 208 total aligned reads displayed.
GGCATCTTTATCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGTTCTATCACA > USA300TCH1516_ALE/1845202‑1845382 | cATCTTTATCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACat < 2:1610987/91‑1 (MQ=255) aTCTTTATCCACTTTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAGATCATATTTATCGAAGTGATTATTATCCGACata < 2:1078889/91‑1 (MQ=255) cTTTATCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATc < 2:2238973/91‑1 (MQ=255) ttATCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGATATGTCgg < 1:2992126/91‑1 (MQ=255) ttATCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCgg > 1:1144377/1‑91 (MQ=255) tATCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGa < 2:851480/91‑1 (MQ=255) tATCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGa < 1:1402779/91‑1 (MQ=255) aTCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGATATGTCGGAt < 2:95060/91‑1 (MQ=255) aTCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGAt > 1:1628329/1‑91 (MQ=255) aTCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGAt > 2:2150372/1‑91 (MQ=255) aTCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGAt > 1:3227335/1‑91 (MQ=255) tCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATa > 2:3657097/1‑91 (MQ=255) ccACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGATATGTCGGATaa < 1:3701737/91‑1 (MQ=255) cacaTTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGATATGTCGGATaat < 1:703909/91‑2 (MQ=255) cacaTTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGATATGTCGGATaat < 1:3138712/91‑2 (MQ=255) cacaTTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGATATGTCGGATaat < 1:2732954/91‑2 (MQ=255) aTTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGa > 2:3115047/1‑91 (MQ=255) aTTTCTATCAGTATCTTTGGCAATTTGAGTAACCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGa > 1:3211208/1‑91 (MQ=255) aTTTCTATCAGGATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGa < 1:3510486/91‑1 (MQ=255) ttCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATc < 1:1866911/91‑1 (MQ=255) ttCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATc < 1:1867974/91‑1 (MQ=255) cTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAGGTGATTATTATCCGACATATCGGATAAATGATCaa < 2:1902458/91‑1 (MQ=255) cTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCaa > 1:2978940/1‑91 (MQ=255) tATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAAc > 1:3648834/1‑91 (MQ=255) tCAGTATCTTTGGCAATTTTAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAAcat < 2:826154/91‑1 (MQ=255) tCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAAcat > 2:542515/1‑91 (MQ=255) tCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAAcat > 2:2875659/1‑91 (MQ=255) tCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAAcat > 2:1487614/1‑91 (MQ=255) tCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAAcat > 2:2336819/1‑91 (MQ=255) tCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAAcat > 1:3168640/1‑91 (MQ=255) cAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAAcatc < 1:1719556/91‑1 (MQ=255) aGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAAcatca < 1:916808/91‑1 (MQ=255) aGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAAcatca > 1:2454832/1‑91 (MQ=255) aGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAAcatca > 1:1535147/1‑91 (MQ=255) aTCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGt < 1:2161881/91‑1 (MQ=255) aTCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGt < 2:573917/91‑1 (MQ=255) aTCTTTGGCAATTAGAGTATCCATTTCTTTTAAATCATATTTAGCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGt < 1:3882201/91‑1 (MQ=255) tCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGtt > 1:2875739/1‑91 (MQ=255) cTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTg > 2:2121375/1‑91 (MQ=255) cTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTg > 2:3140670/1‑91 (MQ=255) tttGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGc > 2:448956/1‑91 (MQ=255) ttGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGca < 1:2249597/91‑1 (MQ=255) gCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACAt < 1:1644238/91‑1 (MQ=255) aaTTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCt < 1:2829286/91‑1 (MQ=255) aTTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCtt > 2:256578/1‑91 (MQ=255) ttGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTa > 2:3008161/1‑91 (MQ=255) ttGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTa > 1:819019/1‑91 (MQ=255) ttGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTa < 2:3694505/91‑1 (MQ=255) ttGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTa > 1:1435893/1‑91 (MQ=255) tGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTAt > 2:3337823/1‑91 (MQ=255) tGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTAt > 2:1400266/1‑91 (MQ=255) aGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCa > 1:3568728/1‑91 (MQ=255) gTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCaa > 2:3236713/1‑91 (MQ=255) gTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCaa > 2:2451881/1‑91 (MQ=255) aTCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATAATGTTGCACATCTTTATCAata > 2:1648041/1‑91 (MQ=255) tCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAatat > 2:3565327/1‑91 (MQ=255) ccATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAAtatt < 2:2038659/91‑1 (MQ=255) aTTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAAtattat < 1:1024338/91‑1 (MQ=255) tttCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAAtattatt < 2:1674259/91‑1 (MQ=255) tttCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAAtattatt > 1:861143/1‑91 (MQ=255) ttCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAAtattatta > 2:807191/1‑91 (MQ=255) ttCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAAtattatta < 1:676978/91‑1 (MQ=255) cTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATc < 1:346067/91‑1 (MQ=255) ttttAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCa < 1:2595988/91‑1 (MQ=255) tttAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAg > 2:2763554/1‑91 (MQ=255) ttAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGc < 2:292758/91‑1 (MQ=255) tAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCa > 1:883267/1‑91 (MQ=255) aaTCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATc > 1:2232732/1‑91 (MQ=255) aaTCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATc < 1:971581/91‑1 (MQ=255) cATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCttt < 2:1550332/91‑1 (MQ=255) cATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCttt < 2:2040816/91‑1 (MQ=255) tatTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTaa > 1:645503/1‑91 (MQ=255) atTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAAc < 1:462930/91‑1 (MQ=255) tttATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAAcc < 2:747121/91‑1 (MQ=255) tttATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAAcc > 1:3104450/1‑91 (MQ=255) tATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCAc < 2:2651400/91‑1 (MQ=255) tATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCAc > 2:48457/1‑91 (MQ=255) tCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGt > 1:1328643/1‑91 (MQ=255) cGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTc < 2:3433083/91‑1 (MQ=255) aaGTGATTATTATCCGACATATCGGAAAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAg > 1:1250997/1‑91 (MQ=255) tGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGAct < 2:676709/91‑1 (MQ=255) gATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTGTCAGCATCTTTAACCACGTCAGActc < 2:2213576/91‑1 (MQ=255) gATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGActc < 1:384839/91‑1 (MQ=255) gATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGActc < 2:2903708/91‑1 (MQ=255) ttattaTCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTg > 1:697752/1‑91 (MQ=255) tattatCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTgg < 1:330050/91‑1 (MQ=255) attatCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGt > 1:724369/1‑91 (MQ=255) ttatCCGATATGTCGGATAAATGATCAACATCACGTTGCACATCTTAATCAATATTATTATCAGCATCTTTAACCACGTCTGACTCTGGtt > 1:3091838/1‑91 (MQ=255) ttatCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGtt > 1:1158350/1‑91 (MQ=255) ttatCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGtt < 1:2189323/91‑1 (MQ=255) ttatCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGtt > 2:3164951/1‑91 (MQ=255) ttatCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGtt < 2:1824977/91‑1 (MQ=255) tatCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGTTc < 1:2121375/91‑1 (MQ=255) cGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGTTCTATc > 1:566343/1‑91 (MQ=255) cGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGTTCTATc > 2:3391840/1‑91 (MQ=255) cGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCCGGTTCTATc > 1:3715556/1‑91 (MQ=255) gACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGTTCTATca < 1:1746768/91‑1 (MQ=255) gACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGGCAGACTCTGGTTCTATca < 2:3739339/91‑1 (MQ=255) aCATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGTTCTATcac > 2:2540543/1‑91 (MQ=255) cATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGTTCTATcaca > 1:1351259/1‑91 (MQ=255) | GGCATCTTTATCCACATTTCTATCAGTATCTTTGGCAATTTGAGTATCCATTTCTTTTAAATCATATTTATCGAAGTGATTATTATCCGACATATCGGATAAATGATCAACATCATGTTGCACATCTTTATCAATATTATTATCAGCATCTTTAACCACGTCAGACTCTGGTTCTATCACA > USA300TCH1516_ALE/1845202‑1845382 |
| 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: ‑ |