| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 1,461,166 | T→C | 5.7% | pseudogene (1518/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 1,461,166 | 0 | T | C | 5.7% | 1562.2 / 37.6 | 461 | pseudogene (1518/2513 nt) | ydbA | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| Reads supporting (aligned to +/- strand): ref base T (208/219); new base C (18/8); total (234/227) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.54e-02 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
Only 100 of 463 total aligned reads displayed.
CATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGTTG > CP009273/1461100‑1461233 | cATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATg < 1:18941525/68‑1 (MQ=255)cATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATg < 1:2629189/68‑1 (MQ=255) tCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGACGGCGAGAGCACTATCACCAATggc > 1:16194121/1‑68 (MQ=255) ggTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATggcg > 1:10569751/1‑67 (MQ=255) ggTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATggcg > 1:5011134/1‑67 (MQ=255) ggTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATggcg > 1:471893/1‑67 (MQ=255) ggTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATggcg > 1:23245058/1‑67 (MQ=255) tATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATggcggc > 1:3002936/1‑67 (MQ=255) aTCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggca > 1:16303843/1‑67 (MQ=255) aTCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggca > 1:19296658/1‑67 (MQ=255) tCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcacc < 1:15955654/68‑1 (MQ=255) tCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAACGGtggcacc < 1:23111472/68‑1 (MQ=255) ccAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccg > 1:6920292/1‑68 (MQ=255) ccAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccg > 1:22745908/1‑68 (MQ=255) gATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc > 1:25485548/1‑67 (MQ=255) gATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc > 1:27985809/1‑67 (MQ=255) gATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc > 1:29251723/1‑67 (MQ=255) gATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc > 1:4548625/1‑67 (MQ=255) ttGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggcac < 1:12686234/67‑1 (MQ=255) ttGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc < 1:23378490/65‑1 (MQ=255) ttGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc < 1:25973968/65‑1 (MQ=255) ttGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc < 1:22362886/65‑1 (MQ=255) ttGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc < 1:10361396/65‑1 (MQ=255) gACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCa < 1:7508827/68‑1 (MQ=255) gACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCa < 1:28863453/68‑1 (MQ=255) gACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCa < 1:19540658/68‑1 (MQ=255) cGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGa < 1:15594023/68‑1 (MQ=255) ggCGCCCAGGCCATCGTCATTAACGAAGGCGAGAGCTCTATCACCAATGGCGGCACCGGCACTCAGa > 1:7267032/1‑67 (MQ=18) ggCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGa > 1:22147512/1‑67 (MQ=255) ggCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGa > 1:28302238/1‑67 (MQ=255) ccAGGCGGTTGTTAACAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACg < 1:14007008/68‑1 (MQ=11) ccAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACg > 1:4177663/1‑68 (MQ=255) cAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACgg < 1:24173188/68‑1 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAac > 1:18517749/1‑68 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGAAac > 1:7915940/1‑68 (MQ=255) cATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAacg < 1:28632437/68‑1 (MQ=255) tCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAacgac < 1:20518492/68‑1 (MQ=255) gTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAacgacg > 1:10022769/1‑67 (MQ=255) gTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAacgacg > 1:1725708/1‑67 (MQ=255) aaTAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCAc < 1:27460742/68‑1 (MQ=255) aTAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCAcc > 1:24568016/1‑68 (MQ=255) tAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCAcc > 1:14993974/1‑67 (MQ=255) aaCGACGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACCCCACcgc < 1:6581448/68‑1 (MQ=255) aaCGAAGGCGAGAGCACTTTCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:13407775/68‑1 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc > 1:8906642/1‑68 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:25334432/68‑1 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:16878869/68‑1 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:26999541/68‑1 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:21968781/68‑1 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:7725095/68‑1 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:17852714/68‑1 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:18725732/68‑1 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:1127727/68‑1 (MQ=255) aCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgcg > 1:25897963/1‑68 (MQ=255) aCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgcg > 1:10853538/1‑68 (MQ=255) cGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGa > 1:9815908/1‑68 (MQ=255) cGAAGGCGAGAGCACCATCACCAACGGGGGCACCGGCACACAGATAAACGGTAACGACGCCACCGCGa > 1:24375031/1‑68 (MQ=14) gAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGaa > 1:2655010/1‑68 (MQ=255) aaGGCGAGAGCGCCATCACCAACGGTGGCACCGGCACTCAGATAAACGGTAACGACGCCACCGCGAAt > 1:17619822/1‑68 (MQ=11) aGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATa < 1:250893/68‑1 (MQ=255) aGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATa < 1:11468603/68‑1 (MQ=255) ggCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATa > 1:25649961/1‑67 (MQ=255) cGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAAc < 1:28501332/67‑1 (MQ=255) cGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAAc < 1:17118369/67‑1 (MQ=255) cGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAAc < 1:5295795/67‑1 (MQ=255) gagaGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACa < 1:8198615/67‑1 (MQ=255) gagaGCACCATCACCAACGGGGGCACCGGCACTCAGATAAACGGTTAAGACGCCACCGCGAATAACAg > 1:24984420/1‑68 (MQ=17) gCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTg < 1:20235634/66‑1 (MQ=255) gCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTg < 1:23713102/66‑1 (MQ=255) gCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTg < 1:13901712/66‑1 (MQ=255) gCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTg < 1:21674634/66‑1 (MQ=255) gCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGa > 1:20010038/1‑68 (MQ=255) gCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGa > 1:14456382/1‑68 (MQ=255) gCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGa > 1:9378950/1‑68 (MQ=255) gCACCATCACCAACGGTGGCACCGGCACGCAGATAAACGGTAACGACGCCACCGCGAATAACAGTGGa > 1:22539200/1‑68 (MQ=17) accaTCACCAACGGTGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGaa < 1:26133850/64‑1 (MQ=18) aCTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGaaa > 1:16499443/1‑68 (MQ=255) tATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGaaaaa < 1:352415/68‑1 (MQ=255) tATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGaaaaa < 1:24822808/68‑1 (MQ=255) aTCACCAATGGCGGCACCGGCACTCAGATAAACGGTAACGACGCCACCGCGAATAACAGTGGaaaaa > 1:21407687/1‑67 (MQ=255) tCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAAcc < 1:12411620/68‑1 (MQ=255) tCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAAcc < 1:379139/68‑1 (MQ=255) tCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAAcc < 1:13039671/68‑1 (MQ=255) aCCAACGGTGGCACCGGCACGCAGATTAAAGGTAAAGACGCCACCGCGAAAAACAGAGGAAAAACCAc > 1:20911027/1‑68 (MQ=11) ccAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAAcc > 1:12914000/1‑65 (MQ=255) ccAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAAcc > 1:1513160/1‑65 (MQ=255) ccAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACt < 1:4078936/68‑1 (MQ=255) cAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAAcc > 1:27811983/1‑64 (MQ=255) cAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAAcc > 1:20685727/1‑64 (MQ=255) cAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAAcc > 1:10668495/1‑64 (MQ=255) aaTGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGt < 1:15646136/68‑1 (MQ=255) aaTGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGt < 1:18230847/68‑1 (MQ=255) aaTGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGt < 1:640121/68‑1 (MQ=255) aTGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGtt > 1:12073564/1‑68 (MQ=255) aTGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGtt > 1:17481951/1‑68 (MQ=255) aTGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGtt > 1:5550712/1‑68 (MQ=255) aTGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGtt > 1:21131570/1‑68 (MQ=255) aTGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGtt > 1:2727813/1‑68 (MQ=255) aTGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGtt > 1:14847473/1‑68 (MQ=255) aTGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGtt > 1:23966305/1‑68 (MQ=255) | CATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGTTG > CP009273/1461100‑1461233 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |