| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 1,460,356 | T→C | 11.7% | 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 | 11.7% | 1523.9 / 117.9 | 538 | pseudogene (708/2513 nt) | ydbA | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| Reads supporting (aligned to +/- strand): ref base T (322/136); new base C (8/52); total (346/192) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.26e-17 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.91e-01 | |||||||||||
Only 100 of 562 total aligned reads displayed.
ACGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACGGCGATCTGGAT > CP009273/1460289‑1460422 | aCGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGt > 1:24524913/1‑68 (MQ=255)aCGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGt > 1:15181943/1‑68 (MQ=255) ggTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGaaa > 1:13808905/1‑68 (MQ=255) ggTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTaa > 1:10776413/1‑68 (MQ=255) ggTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTaa > 1:7574074/1‑68 (MQ=255) ggTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTaa > 1:5655035/1‑68 (MQ=255) ggTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTaa > 1:23059234/1‑68 (MQ=255) gAGCTTGTTATTACTGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGCaagg < 1:18930236/67‑3 (MQ=18) gAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGa < 1:8627840/68‑1 (MQ=255) gCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGAt > 1:22521472/1‑67 (MQ=255) gCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGAt > 1:22177570/1‑67 (MQ=255) cTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGAtt > 1:3698706/1‑67 (MQ=255) cTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGAtt > 1:14796221/1‑67 (MQ=255) ttGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTcc > 1:9706966/1‑68 (MQ=255) ttGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTcc > 1:8379089/1‑68 (MQ=255) ttGTTATTACGGGTGATAATGCCACAGTAAACAACAACGGCAAAACCACCGTTGACGGCAAGGAtt < 1:20107435/66‑1 (MQ=17) ttGTTATTACGGGTGATAATGCCACAGTAAACAACAAAGGCAAAACCACCGTTGACGGCAAGGAtt < 1:4027756/66‑1 (MQ=18) ttattaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCAcc > 1:23745571/1‑68 (MQ=255) ttattaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCAcc > 1:15439383/1‑68 (MQ=255) tattaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCAcc < 1:23389144/67‑1 (MQ=255) ttaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGt < 1:29202585/68‑1 (MQ=255) taCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTa < 1:133343/68‑1 (MQ=255) aCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTAc > 1:4412022/1‑68 (MQ=255) aCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTAc > 1:5922522/1‑68 (MQ=255) cGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCTGTACg > 1:7962842/1‑68 (MQ=255) cGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGCAATGATTCCACCGGt < 1:20484449/65‑1 (MQ=255) gggTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACgg > 1:28368195/1‑68 (MQ=255) gggTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGCAAGGAt > 1:21565387/1‑55 (MQ=17) ggTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGa > 1:1193806/1‑68 (MQ=255) ggTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGa > 1:1124801/1‑68 (MQ=255) ggTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGa > 1:8276375/1‑68 (MQ=255) gTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGaa > 1:4918798/1‑68 (MQ=255) gTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGa < 1:16044596/67‑1 (MQ=255) gATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGaaa < 1:14408709/67‑1 (MQ=255) gATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGaaa < 1:28182656/67‑1 (MQ=255) tAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAAttg < 1:5582807/68‑3 (MQ=14) tAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCa < 1:5155034/68‑1 (MQ=255) tAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGAAAGGATTCCACCGGTACGGAAATCa < 1:19559002/68‑1 (MQ=255) aTGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAAc > 1:3149355/1‑68 (MQ=255) aTGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAAc > 1:10202396/1‑68 (MQ=255) aTGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAAc > 1:18041282/1‑68 (MQ=255) aTGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATAAAc > 1:20322105/1‑68 (MQ=255) aTGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAAc < 1:18364111/68‑1 (MQ=255) aTGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGAAAGGATTCCACCg > 1:28504516/1‑54 (MQ=17) aTGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGAAAAGATTCCACCGGTACGGAAATCTAc > 1:19025290/1‑68 (MQ=255) tGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACg < 1:16837576/68‑1 (MQ=255) gCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACgg > 1:25679115/1‑68 (MQ=255) ccACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACggg > 1:26247994/1‑67 (MQ=255) ccACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGt > 1:8138084/1‑68 (MQ=255) ccACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGt > 1:24265325/1‑68 (MQ=255) ccACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGt > 1:1741055/1‑68 (MQ=255) ccACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGt > 1:12609460/1‑68 (MQ=255) cacaGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGta < 1:13088671/68‑1 (MQ=255) cacaGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGt < 1:7280412/67‑1 (MQ=255) acaGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGtaa > 1:27678932/1‑68 (MQ=255) acaGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGtaa > 1:9526327/1‑68 (MQ=255) acaGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGtaa > 1:14908334/1‑68 (MQ=255) acaGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGtaa < 1:1366/68‑1 (MQ=255) aGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGtaata > 1:27367100/1‑68 (MQ=255) aGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGtaata > 1:17770401/1‑68 (MQ=255) aGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGtaata > 1:11137072/1‑68 (MQ=255) gTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGtaata > 1:26574055/1‑67 (MQ=255) gTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGtaata > 1:17651051/1‑67 (MQ=255) aaaCAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCTGTACGGAAATCAACGGtaata < 1:25503169/65‑1 (MQ=255) aaaCAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGtaata < 1:17098717/65‑1 (MQ=255) acaacaATGGCTAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACggg < 1:16468097/68‑1 (MQ=255) acaacaATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACggg > 1:15897484/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGTAAATCCACGGAAATATCGGCaat > 1:10522943/1‑67 (MQ=14) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCTCGGGGAATAACGGGaat > 1:6238701/1‑67 (MQ=14) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGTaaa > 1:12419239/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:3300259/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:4705227/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:25050420/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:19332179/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:28604391/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:19933405/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:20754911/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:20898731/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:21400715/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:23608060/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:2286323/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:1159265/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACAGGTACGGAAATAAACGGTAATAACGGGaaa > 1:26339852/1‑68 (MQ=255) aaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGt > 1:21906852/1‑68 (MQ=255) aTGGCAAAACCACCGTTGACGGTAATGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGtt < 1:28925231/68‑2 (MQ=11) tGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGa < 1:12885295/68‑1 (MQ=255) ggCAAAACCACCGTTGGCGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTGAt > 1:28019616/1‑68 (MQ=255) ggCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGAt > 1:5412370/1‑68 (MQ=255) ggCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGAt < 1:2468481/68‑1 (MQ=255) ggCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGAt > 1:7047409/1‑68 (MQ=255) caccGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACg > 1:10994791/1‑68 (MQ=255) ccGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACGGc < 1:18630705/68‑1 (MQ=255) tGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACGGCGAt < 1:17878905/67‑1 (MQ=255) tGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACGGCGAt < 1:9313224/67‑1 (MQ=255) tGACGGTAAAGAATCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACGGCGAt < 1:25871944/67‑1 (MQ=255) aCGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACGGCGATCTg > 1:10011030/1‑68 (MQ=255) cGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACGGCGATCTgg < 1:6593051/68‑1 (MQ=255) cGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACGGCGATCTgg < 1:27053766/68‑1 (MQ=255) cGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACGGCGATCTgg > 1:29138741/1‑68 (MQ=255) gTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACGGCGATCTGGAt > 1:11430585/1‑68 (MQ=255) | ACGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACGGCGATCTGGAT > 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: ‑ |