| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | USA300TCH1516_ALE | 2,436,416 | A→G | 10.2% | L28P (CTT→CCT) | yifK ← | putative transport protein YifK |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | USA300TCH1516_ALE | 2,436,416 | 0 | A | G | 10.2% | 143.7 / 10.6 | 61 | L28P (CTT→CCT) | yifK | putative transport protein YifK |
| Reads supporting (aligned to +/- strand): ref base A (29/24); new base G (3/3); total (34/27) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.06e-01 | |||||||||||
GATCCTGTTGTAGGGTTTAAATAAATCATTTCCCCCATTGCTCTCATGATTAAAAATAAAAAGATACCCGCAATTAAATATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCATTGTTCTCCATAACTTCTTACCCCATCTCTGATTGATACTAAATAAATCCATAAAAAAACTTATTGCCG > USA300TCH1516_ALE/2436281‑2436556 | gATCCTGTTGTAGGGTTTAAATAAATCATTTCCCCCATTGCTCTCATGATTAAAAATAAAAAGATACCCGCAATTAAATATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCACACCCATGAAAAGcccc > 2:338683/1‑141 (MQ=255) aTCCTGTTGTAGGGTTTAAATAAATCATTTCCCCCATTGCTCTCATGATTAAAAATAAAAAGATACCCGCAATTAAATATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGccccc > 2:303689/1‑140 (MQ=255) tCCTGTTGTAGGGTTTAAATAAATCATTTCCCCCATTGCTCTCATGATTAAAAATAAAAAGATACCCGCAATTAAATATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCAc < 1:205386/141‑1 (MQ=255) ccTGATGTAGGGTTTAAATAAATCATTTCCCACATTGCTCTCATGATTAAAAATAAAAAGATACCCGCAATTAAATATGCAAGGATAACTGATGGGCCAGTCCATTTAATTGTACTTGTAGCACCCATGAAATGCCCCACg > 2:91824/1‑141 (MQ=255) tgttgtAGGGTATAAATAAATCATTTCCCCCATTGCTCTAATGATTAAAAATAAAAAGATAGCCTCAATTAAATATGCAAGGATAACTGATGTGCCTGTCCATTTAATTGTACTTGTCGAACCCATGAAAAGCCCCACGcc > 2:597884/1‑141 (MQ=255) tgtAGGGTTTAAATAAATCATTTCCCCCATTGCTCTCATGATTAAAAATAAAAAGATACCCGCAATTAAATATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAAt < 2:695165/141‑1 (MQ=255) tgtAGGGTTTAAATAAATCATTTCCCCCATTGCTCTCATGATTAAAAATAAAAAGATACCCGCAATTAAATATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAAt < 2:530777/141‑1 (MQ=255) gtAGGGTTTAAATAAATCATTTCCCCCATTGCTCTCATGATTAAAAATAAAAAGATACCCGCAATTAAATATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAACGCCCCGCGCCCATc > 1:224109/1‑141 (MQ=255) tttAAATAAATCATTTCCCCCATTGCTCTCATGATTAAAAATAAAAAGATACCCGCAATTAAATATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTaccc > 1:422294/1‑140 (MQ=255) ttAAATAAATCATTTCCCCCATTGCTCTCATGATTAAAAATAAAAAGATACCCGCAATTAAATATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTacccc > 2:52526/1‑139 (MQ=255) ttAAATAAATCATTTCCCCCATTGCTCTCATGATTAAAAATAAAAAGATACCCGCAATTAAATATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTaccac > 2:52471/1‑141 (MQ=255) ttAAATAAATCATTTCCCCCATTGCTCTCATGATTAAAAATAAAAAGATACCCGCAATTAAATATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTaccac > 1:390559/1‑141 (MQ=255) taaatCATTTCCCCCATTGCTCTCATGATTAAAAATAAAAAGATACCCGCAATTAAATATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGt < 1:242275/141‑1 (MQ=255) aaatCATTCTCCCCACTGCTTTCATGATTAAAAATAAAAATATCCCCGCAATTAAATCTTCACGCATAACTGAGGCTCCTTCGCATTTCATTGCATTTGTCGCACCCATGAACAGCCCCACGCCAATCGTACCACCAAGTg < 2:16609/141‑1 (MQ=255) tCATTTCCCCCATTGCTCTCATGATTAAAAATAAAAAGATACCCGCAATTAAATATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCaa < 1:400391/141‑1 (MQ=255) ttCCCCCATTGCTCTCATGATTAAAAATACAAAGATACCCGCAATTAAATATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCat > 2:328290/1‑141 (MQ=255) tCCCCCATTGCTCTCATGATTAAAAATAAAAAGATACCCGCAATTAAATATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCCCCAAGTGCAATCatt > 1:665462/1‑141 (MQ=255) cccccATTGCTCTCATGATTAAAAATAAAAAGATACCCGCAATTAAATATGCAAGGATAACTGATGGGCCTGTACATTTAATTGTACTTGTCGCACCAATGAAAAGCCCCACGACAATCGTACTACCAAGTGCAATCattt > 1:50796/1‑141 (MQ=255) ttGCTCTCAAGAATAAAAAGAAAAAGCTACCCCAAATTAACGATGCAAGGATAACTGATGGGCCTGTCCACTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCatttgaattt < 1:39118/141‑1 (MQ=255) gCTCTCATGATTAAAAATAAAAAGATACCCGCAATTAAATATGCAAGGATAACTGTAAATCCTTGCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCatttgaatttga < 1:774465/141‑1 (MQ=255) tGATTAAAAATAAAAAGCTACCCGCAATTAAATATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCAc < 1:508861/141‑1 (MQ=255) taaaaataaaaaGATACCCGCAATTAAATATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGCCGGGCACTCaa > 1:557877/1‑141 (MQ=255) aaaaaataaaaaGATACCCGCAATTAAATATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCAACCATGAAAAGCCCCACGCCAATCGCACCACCAAGTGCAATCAGTTGAATGTTACGGGCACTCaa < 2:545077/140‑1 (MQ=255) aaaaataaaaaGATACCCGCAATTAAATATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAAt > 1:466591/1‑141 (MQ=255) aaaaataaaaaGATACCCGAAATTAAATATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAAt > 1:419695/1‑141 (MQ=255) taaaaaGATACCCGCAATTAAATATGCAAGGATAACTGAAGGGCCTGTCCATGTAATTGTAATTGTCGAACCCATGAAAAGCCCCAAGCAAATCGAACCACAAATAGCGAACATTTAAATTTCTAGGACACTCCATcccat > 2:41257/1‑139 (MQ=255) aaaaaGATACCCGCAATTAAATATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCtt < 2:373748/141‑1 (MQ=255) aGATACCCGCAATTAAATATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTa > 1:467972/1‑141 (MQ=255) ccGCAATTAAATATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCAt > 1:344291/1‑141 (MQ=255) cGCAATTAAATATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAGGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCAtt > 2:671733/1‑141 (MQ=255) cGCAATTAAATATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAGGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCAtt > 2:323884/1‑141 (MQ=255) cGCAATTAAATATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAGGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCAtt > 2:323347/1‑141 (MQ=255) cGCAATTAAATATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCAtt > 1:464112/1‑141 (MQ=255) gCAATTAAATATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCAttt > 1:623664/1‑140 (MQ=255) gCAATTAAATATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCAttt > 1:201050/1‑140 (MQ=255) aaaTATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCCCGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCATTGTTCTcc < 1:342660/141‑1 (MQ=255) agatGCACGGATCCCTGCTGGGCCTGTCTATTTAATTGGACTTTTCGCACCCATTAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCATTGTTCTCCAt < 2:743450/139‑1 (MQ=255) aGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCATTGTTCTCCATAActtct < 1:594508/141‑1 (MQ=255) tAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCATTGTTCTCCATAACTTCTTAcc > 1:201407/1‑141 (MQ=255) tAACGGATGGGCGTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTGAATCCCCTTTGTAGTTCATTGTTCTCCATAACTTCTTAcc > 1:557308/1‑141 (MQ=255) aCTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCATTGTTCTCCATAACTTCTTAcccc > 1:389879/1‑141 (MQ=255) aCTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCATTGTTCTCCATAACTTCTTAcccc > 2:493051/1‑141 (MQ=255) cTGATGCGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCATTGTTCTCCATAACTTCTTACCCCa < 1:564262/141‑1 (MQ=255) taTGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTCACGGGCACTCAATCCCCTTTGTAGTTCATTGTTCTCCATAACTTCTTTCCCCAtc < 2:336165/140‑1 (MQ=255) gaggggCCTGTCCAATTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACTGGCACTCAATCCCCTTTGTAGTTCATTGTTCTCCATAACTTCTTACCCCAtc < 2:509712/138‑1 (MQ=255) gATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCATTGTTCTCCATAACTTCTTACCACAtc > 1:751854/1‑141 (MQ=255) tGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCATTGTTCTCCATAACTTCTTACCCCAtctc > 1:769420/1‑141 (MQ=255) gCCTGTCCATTTAATTGTACTTGTCGCACCCATGAACAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATATGATTCATATTTATGCCGCCTTGTAGTCCATTGTTCTCCATACCTTCTTAACCCTTCTCtga < 2:556325/141‑1 (MQ=255) cTGTCCATTTAATTGTACTTGTCGCACCCATGAAAGGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCATTGTTCTCCATAACTTCTTACCCCATCTCtgatt < 1:671733/141‑1 (MQ=255) cTGTCCATTTAATTGTACTTGTCGCACCCATGAAAGGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCATTGTTCTCCATAACTTCTTACCCCATCTCtgatt < 1:323347/141‑1 (MQ=255) cTGTCCATTTAATTGTACTTGTCGCACCCATGAAAGGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCATTGTTCTCCATAACTTCTTACCCCATCTCtgatt < 1:323884/141‑1 (MQ=255) tCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCATTGTTCTCCATAACTTCTTACCCCATCTCtgattgat > 1:261314/1‑141 (MQ=255) cATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCATTGTTCTCCATAACTTCTTACCCCATCTCTGATTGATAc < 1:303689/141‑1 (MQ=255) cATTTAAGTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCATTGTTCTCCATAACTTCTTACCCCATCTCTGATTGATAc < 1:528780/141‑1 (MQ=255) tttAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCATTGTTCTCCATAACTTCTTACCCCATCTCTGATTGATACta > 1:744603/1‑141 (MQ=255) ttAATTGTACTTGTCACACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCATTGTTCTCCATAACTTCTCACCCCATCTCCGATTGATACtaa < 2:383339/141‑1 (MQ=255) aattGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCATGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCATTGTTCTCCATAACTTCTTACCCCATCTCTGATTGATACTAAATAAATcc < 2:523734/139‑1 (MQ=255) cTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCATTGTTCTCCATAACTTCTTACCCCATCTCTGATTGATACTAAATAAATCCa < 1:328290/141‑1 (MQ=255) cGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCATTGTTCTCCATAACTTCTTACCCCATCTCTGATTGATACTAAATAAATCCATaaaa > 1:327834/1‑141 (MQ=255) aCCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCATTGTTCTCCATAACTTCTTACCCCATCTCTGATTGATACTAAATAAATCCATaaaaaaa < 1:757941/141‑1 (MQ=255) tcATGAAAAGCCCAACGCCAATCGTACCACCAAGTGCAATCATATGAATTTGACGGGCACTCAATACCCTTTGTGGTTCATTGTTCTGCATAACTTATTACCCCAACTCCGATTGCGACGAATTCAATCCATAAAAAAACt > 2:161788/2‑141 (MQ=255) aaaGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCATTGTTCTCCATAACTTCTTACCCCATCTCTGATTGATACTAAATAAATCCATAAAAAAACTTATTGc > 1:542562/1‑141 (MQ=255) aGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCATTGTTCTCCATAACTTCTTACCCCATCTCTGATTGATACTAAATAAATCCATAAAAAAACTTATTGCCg < 2:654035/141‑1 (MQ=255) | GATCCTGTTGTAGGGTTTAAATAAATCATTTCCCCCATTGCTCTCATGATTAAAAATAAAAAGATACCCGCAATTAAATATGCAAGGATAACTGATGGGCCTGTCCATTTAATTGTACTTGTCGCACCCATGAAAAGCCCCACGCCAATCGTACCACCAAGTGCAATCATTTGAATTTGACGGGCACTCAATCCCCTTTGTAGTTCATTGTTCTCCATAACTTCTTACCCCATCTCTGATTGATACTAAATAAATCCATAAAAAAACTTATTGCCG > USA300TCH1516_ALE/2436281‑2436556 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |