| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 1,460,839 | T→G | 5.3% | pseudogene (1191/2513 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 | 1,460,839 | 0 | T | G | 5.3% | 1531.7 / 6.2 | 595 | pseudogene (1191/2513 nt) | ydbA | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| Reads supporting (aligned to +/- strand): ref base T (309/208); new base G (38/2); total (383/212) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.68e-06 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
Only 100 of 678 total aligned reads displayed.
ACAAGGGCACCATGACCGTCACCGATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACGGTGGCACCGGCACGCAGATTAACGGTGATGACG > CP009273/1460772‑1460906 | aCAAGGGCACCATGACCGTCACCGATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGgtt > 1:19269235/1‑68 (MQ=255)aCAAGGGCACCATGACCGTCACCGATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGgtt > 1:23008700/1‑68 (MQ=255)aCAAGGGCACCATGACCGTCACCGATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGgtt > 1:27006496/1‑68 (MQ=255)aCAAGGGCACCATGACCGTCACCGATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGgtt > 1:6328588/1‑68 (MQ=255) aaGGGCACCATGACCGTCACCGATCCGGAGTCCATCGGTATCCAGGTTGCCGGCGACCAGGAGgtcgt > 1:13020712/1‑68 (MQ=11) aaGGGCACCATGACCGTCACCGATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGgttgt < 1:6908599/68‑1 (MQ=255) aaGGGCACCATGACCGTCACCGATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGgttgt < 1:13865223/68‑1 (MQ=255) aaGGGCACCATGACCGTCACCGATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGgttgt < 1:13435479/68‑1 (MQ=255) aGGGCACCATGACCGTCACCGATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGgttgtt > 1:29064003/1‑68 (MQ=255) gggCACCATGACCGTCACCGATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTAGTTa > 1:22596761/1‑68 (MQ=255) ggCACCATGACCGTCACCGATCCGGAGTCCATGGGTATCCAGGTAGACGGAGACAAGGCGgttgtaa > 1:16177224/1‑65 (MQ=11) cACCATGATCCGCACCTTTCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTTaaca < 1:31702611/68‑1 (MQ=17) cACCATGACCGTCACCGATCCGGAGTCCATCGGTATCCAGCTTGACGGCGACCAGGCGGTTGTCaaca > 1:24761142/1‑68 (MQ=255) aCCATGACCGTCACCGATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTTaaca < 1:2132617/67‑1 (MQ=255) aCCATGACCGTCACCGATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTTaaca > 1:33327813/1‑67 (MQ=255) aCCATGACCGTCACCGATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTTaaca < 1:34477361/67‑1 (MQ=255) ccATGACCGTCACCGATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTTaacaac < 1:11499077/68‑1 (MQ=255) aTGACCGTCACCGATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTGGTGAAAAACGa > 1:14182060/1‑68 (MQ=14) tGACCGTCACCGATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTGGTTAAGAACGaa > 1:10749912/1‑68 (MQ=255) aCCGTCACCGATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCCGTTGTGAAAAACGAAg > 1:36596754/1‑67 (MQ=14) ccGTCACCGATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAgg < 1:29183216/67‑1 (MQ=255) ccGTCACCGATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGc < 1:37310102/68‑1 (MQ=255) ccGTCACCGATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTAGTTAACAACGAAGGc > 1:32513923/1‑68 (MQ=255) cGTCACCGATCCGGAGTCCATCGGTATCCATGTTGACGGCGACCAGGCGGTTGTGAACAACGAAGGCg > 1:15779609/1‑68 (MQ=18) cGTCACCGATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCg > 1:37032234/1‑68 (MQ=255) cGTCACCGATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTGAACAACGAAGGCg > 1:11388850/1‑68 (MQ=255) aCCGATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTTAAGAACGAAGGCgaga > 1:10372052/1‑67 (MQ=255) aCCGATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCgaga > 1:35990691/1‑67 (MQ=255) aCCGATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTGAAGAACGAAGGCgaga > 1:494013/1‑67 (MQ=255) aCCGATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTGGTAAAGAACGAAGGCgaga > 1:3972692/1‑67 (MQ=14) ccGATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTGAAAAACGAAGGCGAGAgc > 1:13705583/1‑68 (MQ=255) cGATCCGTAGTCCATCGTTATCCAGGTTGACGGCGAACAGGCGGTTGTTAACAACGAAGGCGAGAgcg < 1:34728556/68‑1 (MQ=18) cGATCCGGAGTCCATCGGTATCCAGGGTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAgcg < 1:22064692/68‑1 (MQ=255) gATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAgcgc < 1:33518261/68‑1 (MQ=255) gATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAgcgc < 1:38542211/68‑1 (MQ=255) gATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAgcgc < 1:12635270/68‑1 (MQ=255) tCCGGAGTCCATGGGTATCCAGGTTGACGGCGACCAGGCGGTTGTTaacaa > 1:9564008/1‑51 (MQ=255) tCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTTAAAAACGAAGGCGAGAgcgcaa > 1:27714489/1‑66 (MQ=255) tCCGGAGTCCATCGGTATCCAGCTTGACGGCGACCAGGCCGTAGTTAAAAACGAAGGCGAGAgcgcaa > 1:19007688/1‑66 (MQ=14) ccGGAGTCCATCGGTATCCAGTTTGACGGCGACAAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCAt < 1:34996706/68‑1 (MQ=255) ccGGAGTCCATCGGTATCCAGGTTGACGGCGCCCAGGCCGTAGTTAAAAACGAAGGCGAGAGCGCCa > 1:29589645/1‑67 (MQ=17) ccGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCAt < 1:10045411/68‑1 (MQ=255) ccGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCAt < 1:18645023/68‑1 (MQ=255) ggAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCa < 1:4430461/68‑1 (MQ=255) ggAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCa < 1:32012787/68‑1 (MQ=255) ggAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCAATc > 1:25132187/1‑67 (MQ=255) ggAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTCGTGAAAAACGAAGGCGAGCGCACGATc > 1:38867733/1‑67 (MQ=11) aGTCCATGGGTATCCAGGTAGACGGCGACAAGGCCCTTGTTAAAAACGAAGGc > 1:25721087/1‑53 (MQ=11) aGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCAcc > 1:30580507/1‑68 (MQ=255) aGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCAcc > 1:5795037/1‑68 (MQ=255) aGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCAc < 1:32826625/67‑1 (MQ=255) aGTCCATCGGTATCCAGGTTGACGGCGACCAGGCCGTAGTTAAAAACGAAGGCGAGAGCCCAATCAcc > 1:24327010/1‑68 (MQ=14) aGTCCATCGGTATCCAGGTTGACGGCGACCAGGCCCTTGTTAAAAACGAAGGCGAGAGCGCCATCAcc > 1:35551308/1‑68 (MQ=17) gTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCa > 1:15416540/1‑68 (MQ=255) gTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCAATCACCa > 1:28133960/1‑68 (MQ=255) gTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTAAAGAACGAAGGCGAGAGCGCCATCACCa > 1:29794339/1‑68 (MQ=255) cATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACg < 1:26083376/68‑1 (MQ=255) cATCGGTATCCAGGTTGACGGCGACAAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACg < 1:20693553/68‑1 (MQ=255) tCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACGGt > 1:9243859/1‑68 (MQ=255) tCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTTAAAAACGAAGGCGAGAGCGCAATCACCAAAggg > 1:14850721/1‑67 (MQ=18) ggTATCCAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCGATCACCAAAggcg > 1:21047724/1‑65 (MQ=18) ggTATCCAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACGGTg > 1:38002546/1‑67 (MQ=255) ggTATCCAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACGGTg > 1:8646796/1‑67 (MQ=255) ggTATCCAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACGGTg > 1:19638394/1‑67 (MQ=255) tCCAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACGGTGGCAcc < 1:17801427/68‑1 (MQ=255) tCCAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACGGTGGCAcc < 1:34245405/68‑1 (MQ=255) ccAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACGGTGGCACCg > 1:23148130/1‑68 (MQ=255) ccAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACGGTGGCACCg > 1:2554018/1‑68 (MQ=255) ccAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAAAGGTGGCACCg > 1:31317662/1‑68 (MQ=255) ccAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCAATCACCAAAGGCGGCACCg > 1:4551418/1‑68 (MQ=18) ccAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCAATCACCAAAGGCGGCACCg > 1:27368386/1‑68 (MQ=18) ccAGGTTGACGGCGACCAGGCGGTAGTTAACAACGAAGGCGAGAGCGCAATCACCAACGGGGGCACCg > 1:16577660/1‑68 (MQ=21) ccAGGTTGACGGCGACCAGGCCGTGGTTAACAACGAAGGCGAGAGCGCAATCACCAAAGGAGGCACCg > 1:3304267/1‑68 (MQ=17) aGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACGGTGGCACCGGc > 1:2665806/1‑68 (MQ=255) ggTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACGGTGGCACCGGc > 1:11940918/1‑67 (MQ=255) ggTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACGGTGGCACCGGc > 1:36323171/1‑67 (MQ=255) ggTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACGGTGGCACCGGc > 1:23537507/1‑67 (MQ=255) ggTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAAAGGTGGCACCGGc > 1:8154848/1‑67 (MQ=255) ttGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACGGTGGCACCGGCAc > 1:36767420/1‑67 (MQ=255) ttGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACGGTGGCACCGGCAc > 1:20316076/1‑67 (MQ=255) ttGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACGGTGGCACCGGCAc < 1:1806964/67‑1 (MQ=255) ttGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCAATCACCAAAGGTGGCACCGGCAc > 1:17018304/1‑67 (MQ=255) gACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACGGTGGCACCGGCACGCa < 1:23956074/68‑1 (MQ=255) gACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACGGTGGCACCGGCACGCa < 1:14523019/68‑1 (MQ=255) gACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACGGTGGCACCGGCACGCa < 1:18342392/68‑1 (MQ=255) gACGGCGACCAGGCGGGGGTTAACAACGAAGGCGAGAGCGCCATCACCAACGGTGGCACCGGCACGCa < 1:37499365/68‑1 (MQ=255) cGGGGACAAGGCGGTTGTTAACAACGAAGGCGAGAGCTCCATCACCAACGGTGGCACCGGCACGCAGa < 1:30304422/68‑1 (MQ=18) cGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACGGTGGCACCGGCACGCAGa < 1:761887/68‑1 (MQ=255) cGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACGGTGGCACCGGCACGCAGa < 1:23749302/68‑1 (MQ=255) cGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACGGTGGCACCGGCACGCAGa < 1:16663712/68‑1 (MQ=255) cGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACGGTGGCACCGGCACGCAGa < 1:6091115/68‑1 (MQ=255) cGGCGACCAGGCGGTTGTTAACAACCAAGGCGAGAGCGCCATCACCAACGGTGGCACCGGCACGCAGa < 1:7174506/68‑1 (MQ=255) cGGAGACAAGGCGGTTGTTATTAACGAAGGCGAGAGCGCCATCACCAACGGTGGCACCGGCACGCAGa < 1:21554147/68‑1 (MQ=17) ggCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACGGTGGCACCGGCACGCAGAt > 1:5244617/1‑68 (MQ=255) ccAGGCGTTTGTTAAAAACGAAGGCGAGAGCTCCATCACCAACGGTGGCACCGGCACGCAGATTAACg < 1:1101646/68‑1 (MQ=18) aGGCGTTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACGGTGGCACCGGCACGCAGATTAACGGt < 1:30989036/68‑1 (MQ=255) cGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACGGTGGCACCGGCACGCAGATTAACGGtg < 1:28808479/66‑1 (MQ=255) cGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACGGTGGCACCGGCACGCAGATTAACGGtg < 1:33708033/66‑1 (MQ=255) cGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACGGAGGCACCGGCACGCAGATAAACGGtaaa > 1:19891282/1‑65 (MQ=21) cGGTTGTTAACAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACGCAGATTAACGGtg < 1:17417943/66‑1 (MQ=255) | ACAAGGGCACCATGACCGTCACCGATCCGGAGTCCATCGGTATCCAGGTTGACGGCGACCAGGCGGTTGTTAACAACGAAGGCGAGAGCGCCATCACCAACGGTGGCACCGGCACGCAGATTAACGGTGATGACG > CP009273/1460772‑1460906 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |