| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | W3110S.gb | 3,211,677 | C→T | 41.2% | intergenic (+169/‑26) | dnaG → / → rpoD | DNA primase/RNA polymerase, sigma 70 (sigma D) factor |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | W3110S.gb | 3,211,677 | 0 | C | T | 41.2% | 51.3 / 94.2 | 80 | intergenic (+169/‑26) | dnaG/rpoD | DNA primase/RNA polymerase, sigma 70 (sigma D) factor |
| Reads supporting (aligned to +/- strand): ref base C (19/28); new base T (14/19); total (33/47) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
GTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGTGTGGATACCGTCTTATGGAGCAAAACCCGCAGTCACAGCTGAAACTTCTTGTCACCCG > W3110S.gb/3211610‑3211746 | gTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCAt > 1:4047924/1‑70 (MQ=255) aaaCAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTTATGa > 1:3221886/1‑70 (MQ=255) aaaCAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTTATGa > 1:1693607/1‑70 (MQ=255) aaaCAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTTATGa > 1:1425243/1‑70 (MQ=255) aacaacCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTTATGaaa < 1:1307734/71‑1 (MQ=255) aacaacCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTTATGaaa > 1:249210/1‑71 (MQ=255) acaacCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAAt < 1:3980714/71‑1 (MQ=255) acaacCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAAt < 1:1505456/71‑1 (MQ=255) caacCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTTATGAAATa < 1:2381720/71‑1 (MQ=255) caacCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAAt > 1:991787/1‑70 (MQ=255) caacCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAAt > 1:3029764/1‑70 (MQ=255) acCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTTATGAAATAAg < 1:3993434/71‑1 (MQ=255) ccGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTTATGAAATAAgt < 1:417399/71‑1 (MQ=255) cGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAgtg < 1:2521666/71‑1 (MQ=255) cGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAgtg < 1:1122992/71‑1 (MQ=255) ttGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTTATGAAATAAGtgtg < 1:2271682/71‑1 (MQ=255) ttGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTTATGAAATAAGtgtg < 1:2036103/71‑1 (MQ=255) ttGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGtgtg < 1:507127/71‑1 (MQ=255) ttGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGtgtg < 1:3035011/71‑1 (MQ=255) ttGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGtgtg < 1:2014347/71‑1 (MQ=255) ggATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGTGTGGa > 1:2125241/1‑71 (MQ=255) ttCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGTGTGGa > 1:3946802/1‑67 (MQ=255) ttCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGTGTGGa > 1:2852968/1‑67 (MQ=255) ttCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGTGTGGa > 1:2272574/1‑67 (MQ=255) ttCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGTGTGGa > 1:3797212/1‑67 (MQ=255) ttCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGTGTGGATAcc > 1:844597/1‑71 (MQ=255) gCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTTATGAAATAAGTGTGGATACCGTCt > 1:1437764/1‑71 (MQ=255) gCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTTATGAAATAAGTGTGGATACCGTCt > 1:2618710/1‑71 (MQ=255) gCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTTATGAAATAAGTGTGGATACCGTCt > 1:247752/1‑71 (MQ=255) cGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTTATGAAATAAGTGTGGATACCGTCt < 1:807406/70‑1 (MQ=255) gTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGTGTGGATACCGTCTTa < 1:829391/71‑1 (MQ=255) gTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGTGTGGATACCGTCTTa < 1:1722/71‑1 (MQ=255) ttAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAAt < 1:623302/51‑1 (MQ=255) ttAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATa < 1:3657449/52‑1 (MQ=255) ttAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATa < 1:2125196/52‑1 (MQ=255) ttAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATa < 1:2957706/52‑1 (MQ=255) ttAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATa < 1:3499320/52‑1 (MQ=255) ttAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAg < 1:2369927/54‑1 (MQ=255) ttAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAg < 1:1177603/54‑1 (MQ=255) ttAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAg < 1:2216098/54‑1 (MQ=255) ttAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAg < 1:2163256/54‑1 (MQ=255) ttAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGTGTGGATACCGTCTTAt > 1:1738077/1‑71 (MQ=255) ggACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGtgtg < 1:1215071/46‑1 (MQ=255) ggACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGtgtg < 1:2678449/46‑1 (MQ=255) ggACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGtgtg < 1:1966607/46‑1 (MQ=255) cATCGGGTCAATCGCCCAACACCAACCTTATGAAATAAGTGTGGATACCGTCTTATGGAGCAAAACCCg > 1:2412127/1‑69 (MQ=255) cATCGGGTCAATCGCCCAACACCAACCTTATGAAATAAGTGTGGATACCGTCTTATGGAGCAAAACCCg > 1:432819/1‑69 (MQ=255) cATCGGGTCAATCGCCCAACACCAACCTTATGAAATAAGTGTGGATACCGTCTTATGGAGCAAAACCCg > 1:975012/1‑69 (MQ=255) aTCGGGTCAATCGCCCAACACCAACCTTATGAAATAAGtgtg < 1:2810544/42‑1 (MQ=255) tCGGGTCAATCGCCCAACACCAACCTTATGAAATa < 1:535896/35‑1 (MQ=255) tCGGGTCAATCGCCCAACACCAACCTTATGAAATa < 1:321020/35‑1 (MQ=255) gggTCAATCGCCCAACACCAACCTCATGAAATAAGTGTGGATACCGTCTTATGGAGCAAAACCCGCAGTca > 1:1838462/1‑71 (MQ=255) gggTCAATCGCCCAACACCAACCTCATGAAATAAGTGTGGATACCGTCTTATGGAGCAAAACCCGCAGTca > 1:3250288/1‑71 (MQ=255) tCAATCGCCCAACACCAACCTTATGAAATAAGTGTGGATACCGTCTTATGGAGCAAAACCCGCAGTcac < 1:1374129/69‑1 (MQ=255) tCAATCGCCCAACACCAACCTTATGAAATAAGTGTGGATACCGTCTTATGGAGCAAAACCCGCAGTcac < 1:3614207/69‑1 (MQ=255) tCAATCGCCCAACACCAACCTCATGAAATAAGTGTGGATACCGTCTTATgg < 1:1141288/51‑1 (MQ=255) aTCGCCCAACACCAACCTTATGAAATAAGTGTGGATACCGTCTTa < 1:2724570/45‑1 (MQ=255) aTCGCCCAACACCAACCTTATGAAATAAGTGTGGATACCGTCTTa < 1:2233591/45‑1 (MQ=255) tCGCCCAACACCAACCTTATGAAATAAGTGTGGATACCGTCTTATGGAGCAAAACCCGCAGTCACAGCTGa < 1:1706179/71‑1 (MQ=255) gCCCAACACCAACCTTATGAAATAAGTGTGGATACCGTCTTATGGAGCaaaa > 1:1075477/1‑52 (MQ=255) gCCCAACACCAACCTTATGAAATAAGTGTGGATACCGTCTTATGGAGCaaaa > 1:3203965/1‑52 (MQ=255) gCCCAACACCAACCTTATGAAATAAGTGTGGATACCGTCTTATGGAGCaaaa > 1:3114640/1‑52 (MQ=255) ccAACACCAACCTTATGAAATAAGTGTGGATACCGTCTTATGGAGCAAAACCCGCAGTCACAGCTGAAAc < 1:3065094/70‑1 (MQ=255) cAACACCAACCTCATGAAATAAGTGTGGATACCGTCTTATGGAGCAAAACCCGCAGTCACAGCTGAAActt < 1:983455/71‑1 (MQ=255) aaCACCAACCTCATGAAATAAGTGTGGATACCGTCTTa < 1:128751/38‑1 (MQ=255) aaCACCAACCTCATGAAATAAGTGTGGATACCGTCTTa < 1:1414577/38‑1 (MQ=255) aaCACCAACCTCATGAAATAAGTGTGGATACCGTCTTa < 1:104501/38‑1 (MQ=255) aaCACCAACCTCATGAAATAAGTGTGGATACCGTCTTa < 1:2754299/38‑1 (MQ=255) aaCACCAACCTCATGAAATAAGTGTGGATACCGTCTTATGGAGCAAAACCCGCAGTCACAGCTGAAActtc > 1:768888/1‑71 (MQ=255) aaCACCAACCTCATGAAATAAGTGTGGATACCGTCTTATGGAGCAAAACCCGCAGTCACAGCTGAAActtc > 1:3959441/1‑71 (MQ=255) aaCACCAACCTCATGAAATAAGTGTGGATACCGTCTTATGGAGCAAAACCCGCAGTCACAGCTGAAActtc < 1:3428388/71‑1 (MQ=255) acCAACCTTATGAAATAAGTGTGGATACCGTCTTATGGAGCAAAACCCGCAGTCACAGCTGAAACTTCTTg > 1:2850800/1‑71 (MQ=255) ccAACCTTATGAAATAAGTGTGGATACCGTCTTATGGAGCAAAACCCGCAGTCACAGCTGAAACTTCTTGt < 1:3979375/71‑1 (MQ=255) ccAACCTTATGAAATAAGTGTGGATACCGTCTTATGGAGCAAAACCCGCAGTCACAGCTGAAACTTCTTGt < 1:1376299/71‑1 (MQ=255) ccAACCTTATGAAATAAGTGTGGATACCGTCTTATGGAGCAAAACCCGCAGTCACAGCTGAAACTTCTTGt < 1:2278224/71‑1 (MQ=255) cTCATGAAATAAGTGTGGATACCGTCTTATGGAGCAAAACCCGCAGTCACAGCTGAAACTTCTTGTCAccc > 1:2406211/1‑71 (MQ=255) cTCATGAAATAAGTGTGGATACCGTCTTATGGAGCAAAACCCGCAGTCACAGCTGAAACTTCTTGTCAccc > 1:1918279/1‑71 (MQ=255) cTCATGAAATAAGTGTGGATACCGTCTTATGGAGCAAAACCCGCAGTCACAGCTGAAACTTCTTGTCAccc > 1:1657395/1‑71 (MQ=255) tCATGAAATAAGTGTGGATACCGTCTTATGGAGCAAAACCCGCAGTCACAGCTGAAACTTCTTGTCACCCg > 1:1299082/1‑71 (MQ=255) tCATGAAATAAGTGTGGATACCGTCTTATGGAGCAAAACCCGCAGTCACAGCTGAAACTTCTTGTCACCCg > 1:1663129/1‑71 (MQ=255) | GTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATGAAATAAGTGTGGATACCGTCTTATGGAGCAAAACCCGCAGTCACAGCTGAAACTTCTTGTCACCCG > W3110S.gb/3211610‑3211746 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |