| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 1,460,356 | T→C | 9.6% | pseudogene (708/2513 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 | 1,460,356 | 0 | T | C | 9.6% | 3212.4 / 196.4 | 1069 | pseudogene (708/2513 nt) | ydbA | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| Reads supporting (aligned to +/- strand): ref base T (640/301); new base C (8/92); total (673/396) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 6.32e-33 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.05e-01 | |||||||||||
Only 100 of 1142 total aligned reads displayed.
ACGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACGGCGATCTGGAT > CP009273/1460289‑1460422 | aCGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGt > 1:9395975/1‑68 (MQ=255)aCGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGt > 1:8707497/1‑68 (MQ=255)aCGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGt > 1:36695641/1‑68 (MQ=255)aCGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGt > 1:20548595/1‑68 (MQ=255)aCGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGt > 1:49585625/1‑68 (MQ=255)aCGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGt < 1:51861916/68‑1 (MQ=255)aCGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGt > 1:1672859/1‑68 (MQ=255) cGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTa > 1:46308985/1‑68 (MQ=255) cGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTa < 1:4676355/68‑1 (MQ=255) ggTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAGAACCACCGT‑TGACGGTaa > 1:19399759/1‑68 (MQ=255) ggTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTaa > 1:32778735/1‑68 (MQ=255) ggTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTaa > 1:19935736/1‑68 (MQ=255) ggTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTaa > 1:18853037/1‑68 (MQ=255) ggTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTaa > 1:32158382/1‑68 (MQ=255) ggTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGACAAAACCACCGT‑TGACGGTaa > 1:56328792/1‑68 (MQ=255) gAGCTTGTTATTACGGGTGATTATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGCaagg < 1:28733257/67‑3 (MQ=21) gAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAg < 1:25715228/67‑1 (MQ=255) gAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGCAAGGa < 1:31450956/68‑1 (MQ=255) gCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGAt > 1:50850315/1‑67 (MQ=255) gCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGAt > 1:17628381/1‑67 (MQ=255) gCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGAt > 1:48871409/1‑67 (MQ=255) gCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGAt > 1:55747409/1‑67 (MQ=255) gCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGAt > 1:38873916/1‑67 (MQ=255) gCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGAt > 1:24311562/1‑67 (MQ=255) gCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAAAGGCAAAACCACCGT‑TGACGGCAAGGAtt < 1:13972867/68‑1 (MQ=18) ttGTTATTACGGGTGATTAAGCCACTGTAAACAACAATGGCAAAACCACCGT‑TGACGGCAAGGAtt < 1:48366431/66‑1 (MQ=17) ttGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGAtt < 1:22714611/66‑1 (MQ=255) ttattaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCAcc > 1:37340015/1‑68 (MQ=255) ttattaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCAcc > 1:3482484/1‑68 (MQ=255) tattaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCAcc < 1:41055291/67‑1 (MQ=255) attaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCgg > 1:55305181/1‑68 (MQ=255) attaCGGGTGATAATGCCACAGTAAACAACAACGGCAAAACCACCGT‑TGACGGCAAGGATTCCACCgg < 1:27825134/68‑1 (MQ=14) ttaCGGGTGATTATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGCAAGGATTCCACCGGt < 1:10044789/68‑1 (MQ=17) ttaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGt < 1:42298913/68‑1 (MQ=255) ttaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGt < 1:57320230/68‑1 (MQ=255) ttaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGt < 1:30832658/68‑1 (MQ=255) ttaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGCAAGGATTCCACCGGt < 1:15929349/68‑1 (MQ=255) ttaCGGGTGATAAAGCCACAGCAAACAACAATGGCAAAACCACCGT‑TGACGGCAAGGATTCCACCGGt < 1:43820249/68‑1 (MQ=14) taCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGt > 1:6267404/1‑67 (MQ=255) taCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACAACCGT‑TGACGGTAAAGATTCCACCGGt > 1:1198336/1‑67 (MQ=255) aCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTAc > 1:45830526/1‑68 (MQ=255) aCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTAc > 1:30041593/1‑68 (MQ=255) aCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTAc > 1:47313809/1‑68 (MQ=255) aCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTAc > 1:22375135/1‑68 (MQ=255) aCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACAACCGT‑TGACGGTAAAGATTCGACCGGTa > 1:23429638/1‑67 (MQ=255) cGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACg > 1:29669785/1‑68 (MQ=255) gTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGaa > 1:35409408/1‑68 (MQ=255) gATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGaaa < 1:1043382/67‑1 (MQ=255) gATAAAGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGCAAGGATTCCACCGGTACGGaaa < 1:21433056/67‑1 (MQ=14) tAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCa > 1:52768884/1‑68 (MQ=255) aaTGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCa > 1:53190458/1‑67 (MQ=255) aaTGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCa > 1:40174292/1‑67 (MQ=255) aTGCCACAGTAAACAACAATGGCAAAACCACGGT‑TGACGGAAAAGATTCCACCGGTACCCAAATccag > 1:7252980/1‑65 (MQ=17) aTGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCAAc < 1:2184774/68‑1 (MQ=255) aTGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCAAc > 1:27172635/1‑68 (MQ=255) ccACAGTAAACAACAATGGCAAAACCAGAGTGTTATGG‑AAATATTCCACCCCTCCGGAAATCAAAgga > 1:28219113/1‑67 (MQ=255) ccACAGTAAACAACAATGGCAAAACCACCGT‑TGACTGTAAAGATTCCACCGGTACGGAATTCAACGGt > 1:5411300/1‑68 (MQ=255) ccACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCaa > 1:41997845/1‑64 (MQ=255) ccACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCAACGGt > 1:25414481/1‑68 (MQ=255) ccACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCAACGGt > 1:44299491/1‑68 (MQ=255) ccACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCAACGGt > 1:17250624/1‑68 (MQ=255) ccACAGTAAACAACAATGGCAAAACAACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCACCGGt > 1:47768753/1‑68 (MQ=255) cacaGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCAACGGt < 1:7662917/67‑1 (MQ=255) cacaGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCAACGGt < 1:4273115/67‑1 (MQ=255) cacaGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCAACGGt < 1:2082959/67‑1 (MQ=255) acaGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCAAGGGgaa > 1:1087155/1‑68 (MQ=255) acaGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCAACGGtaa < 1:40759340/68‑1 (MQ=255) acaGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCAACGGtaa > 1:43277602/1‑68 (MQ=255) aGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCAACGGtaata > 1:39705151/1‑68 (MQ=255) aGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCAACGGtaata > 1:26135919/1‑68 (MQ=255) gTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCTACCGGTACGGAAATCAACGGtaata > 1:33484410/1‑67 (MQ=255) gTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACAGGTACGGAAATCAACGGtaata > 1:5239063/1‑67 (MQ=255) tAAACAACAATGGCAAAACCACCGT‑TGACGGCAATGATTCCACCGGTACGGAAATCa < 1:35967581/57‑1 (MQ=11) aaaCAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACg > 1:45477428/1‑68 (MQ=255) aaaCAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACg < 1:51325147/68‑1 (MQ=255) aaaCAACAATGGCAAAACCACCGT‑TGACGGT‑AAGATTCCACCGGTACGGAAATCAACGGtaata < 1:4146352/64‑1 (MQ=255) acaacaATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACggg > 1:38122857/1‑68 (MQ=255) tcaaTGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:12697573/2‑68 (MQ=255) acaaTGGCAAAACCACCGT‑TGACGGTAATGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:31794716/68‑1 (MQ=255) acaaTGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCGACGGAAATAACGGCaaa > 1:54756847/1‑68 (MQ=14) acaaTGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaat > 1:49234342/1‑67 (MQ=255) acaaTGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:6946659/1‑68 (MQ=255) acaaTGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:16333429/1‑68 (MQ=255) acaaTGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:13073422/1‑68 (MQ=255) acaaTGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATAAAAGGGAATAACGGGaaa > 1:45148804/1‑68 (MQ=17) acaaTGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGCAAATCAACGGTAATAACGGCaaa > 1:342754/1‑68 (MQ=255) acaaTGGCAAAACCACAGT‑TGACGGTAATGATTAAACCCGTACGCAAATCAACGGTAATAACGGGaaa > 1:8130842/1‑68 (MQ=14) acaaCGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:57822109/1‑68 (MQ=255) tGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGa < 1:14638337/68‑1 (MQ=255) ggCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGAt < 1:15394655/68‑1 (MQ=255) ggCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGAt < 1:1230833/68‑1 (MQ=255) cAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCaa > 1:11367576/1‑45 (MQ=255) ccaccGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGAc > 1:50070979/1‑68 (MQ=255) ccaccGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGAc > 1:24874290/1‑68 (MQ=255) ccaccGT‑TGACGGTAAAGATTCCACCGGGACGGAAATCTCCGGTAATATCGGGATAGTGATTCAGGAc > 1:44628040/1‑68 (MQ=17) caccGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACg > 1:26757897/1‑68 (MQ=255) gACGGTAAAGATTCCACCGGTACGGAAATCACCGGGAATTACGGGATTGTGATTCAGGAAGgaga > 1:1818625/1‑65 (MQ=17) aCGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACGGCGATCTg > 1:13464749/1‑68 (MQ=255) cGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACGGCGATCTgg > 1:20376988/1‑68 (MQ=255) ggTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACGGCGATCTGGa < 1:5370528/68‑1 (MQ=255) | ACGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGT‑TGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACGGCGATCTGGAT > CP009273/1460289‑1460422 |
| 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: ‑ |