| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 1,461,157 | T→C | 5.4% | pseudogene (1509/2513 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 | 1,461,157 | 0 | T | C | 5.4% | 2303.0 / 47.7 | 685 | pseudogene (1509/2513 nt) | ydbA | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| Reads supporting (aligned to +/- strand): ref base T (317/311); new base C (32/4); total (365/320) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 3.19e-06 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
Only 100 of 723 total aligned reads displayed.
ATCCGGAGTCCATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAA > CP009273/1461090‑1461224 | tCCGGAGTCCATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACt < 1:39469884/67‑1 (MQ=255) tCCGGAGTCCATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACt < 1:35415149/67‑1 (MQ=255) tCCGGAGTCCATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACt < 1:25800824/67‑1 (MQ=255) tCCGGAGTCCATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACt < 1:12982079/67‑1 (MQ=255) ccGGAGTCCATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTa > 1:9670918/1‑67 (MQ=255) ccGGAGTCCATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTa > 1:1754606/1‑67 (MQ=255) ccGGAGTCCATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTAt < 1:29114543/68‑1 (MQ=255) ccGGAGTCCATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTAt < 1:7599265/68‑1 (MQ=255) ccGGAGTCCATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTAt < 1:43342704/68‑1 (MQ=255) ccGGAGTCCATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTAt < 1:38804926/68‑1 (MQ=255) ccGGAGTCCATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTAt < 1:26254139/68‑1 (MQ=255) ccGGAGTCCATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTAt < 1:17051197/68‑1 (MQ=255) ccGGAGTCCATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTAt < 1:12609467/68‑1 (MQ=255) ggAGTCCATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATc > 1:11603920/1‑67 (MQ=255) ggAGTCCATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCa < 1:9128865/68‑1 (MQ=255) ggAGTCCATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCa < 1:10669473/68‑1 (MQ=255) ggAGTCCATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCa < 1:19671731/68‑1 (MQ=255) ggAGTCCATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCa < 1:42133067/68‑1 (MQ=255) aGTCCATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCAcc > 1:39247609/1‑68 (MQ=255) aGTCCATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCAcc > 1:31831373/1‑68 (MQ=255) aGTCCATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCAcc > 1:41563769/1‑68 (MQ=255) gTCCATCGGTATCCAGTTTGACGGCGACCAGGCCATTGTAAAAAACGAAGCCGAGAGCCCAATCACCa > 1:1124688/1‑68 (MQ=11) gTCCATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGCGCACTATCACCa > 1:34479460/1‑68 (MQ=255) gTCCATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCa > 1:29609135/1‑68 (MQ=255) gTCCATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCa > 1:16883505/1‑68 (MQ=255) gTCCATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCa > 1:16555341/1‑68 (MQ=255) gTCCATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCa > 1:30896587/1‑68 (MQ=255) gTCCATCGGTATCCAGATTGACGGCGACCACCCCATCGTCAAAAACGAAGGCGAGCGCACTATCACCa > 1:17343806/1‑68 (MQ=21) ccATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCa < 1:1246578/66‑1 (MQ=255) cGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATggcg < 1:26493703/68‑1 (MQ=255) ggTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATggcg > 1:30602366/1‑67 (MQ=255) ggTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATggcg > 1:33226651/1‑67 (MQ=255) aTCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggca < 1:14498852/67‑1 (MQ=255) tCCAGTTTGACGGCGACCAGGCCATCGTAAATAACGACGGCGAGAGCACTATCACCAATGGcggcacc < 1:20583538/68‑1 (MQ=21) tCCAGATTGACGGCGACCAGGCCATCGTCAATAACTAAGGCGAGAGCACTATCACCAATGGcggcacc < 1:41840480/68‑1 (MQ=255) tCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcacc < 1:10135886/68‑1 (MQ=255) ccAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggccccg > 1:42901273/1‑68 (MQ=255) ccAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccg > 1:15005580/1‑68 (MQ=255) ccAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccg > 1:27940586/1‑68 (MQ=255) ccAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccg > 1:2759611/1‑68 (MQ=255) ccAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccg > 1:6727545/1‑68 (MQ=255) ccAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccg > 1:23539273/1‑68 (MQ=255) gATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc > 1:35057023/1‑67 (MQ=255) gATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc > 1:36872225/1‑67 (MQ=255) gATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc > 1:37981171/1‑67 (MQ=255) gATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc > 1:38526317/1‑67 (MQ=255) gATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc > 1:39644881/1‑67 (MQ=255) gATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc > 1:20270176/1‑67 (MQ=255) gATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaacggc > 1:18774877/1‑67 (MQ=255) ttGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggcac > 1:3419582/1‑67 (MQ=255) ttGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggcac > 1:19077108/1‑67 (MQ=255) ttGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc < 1:25050295/65‑1 (MQ=255) ttGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc < 1:22380978/65‑1 (MQ=255) ttGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc < 1:4827172/65‑1 (MQ=255) ttGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc < 1:13826725/65‑1 (MQ=255) gACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCa < 1:28565789/68‑1 (MQ=255) cGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGa < 1:29830699/68‑1 (MQ=255) cGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGa < 1:32600038/68‑1 (MQ=255) ggCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGa > 1:21011380/1‑67 (MQ=255) ggCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGa > 1:35834123/1‑67 (MQ=255) tgACAAGGCCATCGTCAATAACGAAGGCGAGAGCACAATCACCAATGGAGGCACCGGCACTCAGATCa > 1:17746458/2‑68 (MQ=11) aCCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAAc > 1:13279/1‑68 (MQ=255) aCCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAAc > 1:10400478/1‑68 (MQ=255) ccAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACg < 1:778004/68‑1 (MQ=255) ccAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACg > 1:5218834/1‑68 (MQ=255) ccAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACg < 1:23830736/68‑1 (MQ=255) caaGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAAAGGCGGCACCGGCACTCAGATCAACg > 1:9498943/3‑68 (MQ=14) cAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACgg < 1:2184173/68‑1 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGt < 1:8290569/65‑1 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGAGGCACCGGCACTCAGATAAACGGTAac > 1:2453356/1‑68 (MQ=11) gTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGCTCAACGGTAacgacg > 1:24795833/1‑67 (MQ=255) gTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAacgacg > 1:33769256/1‑67 (MQ=255) gTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAacgacg > 1:32307258/1‑67 (MQ=255) gTCAATAACGAAGGCGAGAGCACCATCACCAACGGGGGCACCGGCACACAGATCAAAGGTAacgacg > 1:15686342/1‑67 (MQ=11) tCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGcc > 1:43518648/1‑68 (MQ=255) tCAATAACGAAGGCGAGAGCACCATCACCAACGGAGGCACCGGCACGCAGATAAACGGTAACGACGcc > 1:21416170/1‑68 (MQ=11) cAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGcc < 1:31440904/67‑1 (MQ=255) aaTAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCAc < 1:28263897/68‑1 (MQ=255) aTAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCAcc < 1:25625282/68‑1 (MQ=255) aTAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCAcc > 1:32911150/1‑68 (MQ=255) aTAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACTCAGATAAACGGTAACGACGCCAcc > 1:37805199/1‑68 (MQ=11) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:28755799/68‑1 (MQ=255) aCGAAGGCGAGAGCGCCATCACCAACGGTGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgcg > 1:6290266/1‑68 (MQ=11) aCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgcg > 1:1199649/1‑68 (MQ=255) aCGAAGGCGAGAGCACAATCACCAAAGGAGGCACCGGCACTCAGATCa > 1:16103935/1‑48 (MQ=14) cGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGa > 1:40299982/1‑68 (MQ=255) cGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGa > 1:10870235/1‑68 (MQ=17) gAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGaa > 1:8816165/1‑68 (MQ=255) gAAGGCGAGAGCACAATCACCAACGGAGGCACCGGCACACAGATAAACGGTTAAGACGCCACCGCGaa > 1:37446543/1‑68 (MQ=14) ggCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATa > 1:23189543/1‑67 (MQ=255) cGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAAc < 1:22789129/67‑1 (MQ=255) cGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAAc < 1:7246141/67‑1 (MQ=255) cGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACa > 1:26961552/1‑68 (MQ=255) cGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACa > 1:41033820/1‑68 (MQ=255) gCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTgg < 1:4557805/67‑1 (MQ=255) gCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTgg < 1:18270512/67‑1 (MQ=255) gCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGa > 1:5828508/1‑68 (MQ=255) gCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGa > 1:24257737/1‑68 (MQ=255) tATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGaaaaa < 1:40119809/68‑1 (MQ=255) tATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGaaaaa < 1:36440161/68‑1 (MQ=255) | ATCCGGAGTCCATCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAA > CP009273/1461090‑1461224 |
| 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: ‑ |