| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 1,460,356 | T→C | 13.7% | 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 | 13.7% | 1666.5 / 166.2 | 607 | pseudogene (708/2513 nt) | ydbA | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| Reads supporting (aligned to +/- strand): ref base T (356/148); new base C (3/78); total (380/227) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.07e-32 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.64e-01 | |||||||||||
Only 100 of 644 total aligned reads displayed.
ACGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACGGCGATCTGGAT > CP009273/1460289‑1460422 | aCGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGt > 1:19211782/1‑68 (MQ=255)aCGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGt > 1:24935296/1‑68 (MQ=255)aCGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGt > 1:2608966/1‑68 (MQ=255)aCGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGt > 1:26585926/1‑68 (MQ=255)aCGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGt > 1:13516935/1‑68 (MQ=255)aCGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGt > 1:12505164/1‑68 (MQ=255)aCGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGt < 1:12205855/68‑1 (MQ=255)aCGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGt > 1:18420835/1‑68 (MQ=255)aCGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGt > 1:19992032/1‑68 (MQ=255) cGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTa < 1:2764757/68‑1 (MQ=255) cGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTa > 1:32794124/1‑68 (MQ=255) cGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTa < 1:16416889/68‑1 (MQ=255) ggTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTaa > 1:2878509/1‑68 (MQ=255) ggTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTaa > 1:25832618/1‑68 (MQ=255) gAGCTTGTTATTACTGGTGATTAAGCCACAGTAAACAACAAAGGCAAAACCACCGTTGACGGCAAGGa < 1:21108110/68‑1 (MQ=14) gAGCTTGTTATTACTGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGCaagg < 1:28488618/67‑3 (MQ=18) gAGCTTGTTATTACGGGTGATAATGCCACAGTAAACATCAATGGCAAAACCACCGTTGACGGTAAAg < 1:20826466/67‑1 (MQ=255) gAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAg < 1:24546770/67‑1 (MQ=255) gAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGa > 1:32445061/1‑68 (MQ=255) gAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGCCAAAACCACCGTTGACGGTAAAGa < 1:1681224/68‑1 (MQ=255) gAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAAAGGCAAAACCACCGTTGACGGCaagg < 1:5164121/67‑3 (MQ=21) ttGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTcc > 1:14444006/1‑68 (MQ=255) ttGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGCAAGGAtt < 1:6947949/66‑1 (MQ=255) tGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCa < 1:33026916/68‑1 (MQ=255) ttattaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCAcc > 1:14046151/1‑68 (MQ=255) tattaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGCAAGGATTCCAcc < 1:15793556/67‑1 (MQ=255) tattaAGGGTGATTATGCCACTGTAAACAACAATGGCAAAACCACCGTTGACGGCAAGGATTCCACCg < 1:31000280/68‑1 (MQ=11) attaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCgg > 1:1987000/1‑68 (MQ=255) ttaCTGGTGATTATGCCACTGTAAACAACAATGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGt < 1:3045044/68‑1 (MQ=11) ttaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGt < 1:24225478/68‑1 (MQ=255) ttaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGt < 1:23479570/68‑1 (MQ=255) ttaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGt < 1:8072880/68‑1 (MQ=255) ttaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGt < 1:3122101/68‑1 (MQ=255) ttaCGGGTGATAAAGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGt < 1:1166935/68‑1 (MQ=17) aCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTAc > 1:9031902/1‑68 (MQ=255) aCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTAc > 1:33591205/1‑68 (MQ=255) aCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTAc > 1:12907782/1‑68 (MQ=255) cGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACg > 1:28978828/1‑68 (MQ=255) cGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACg > 1:10473551/1‑68 (MQ=255) ggTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTAccaa > 1:7695700/1‑65 (MQ=255) ggTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGa > 1:7637103/1‑68 (MQ=255) ggTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGa > 1:29521313/1‑68 (MQ=255) gTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGaa > 1:5615392/1‑68 (MQ=255) gTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGaa > 1:14256522/1‑68 (MQ=255) gTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGa < 1:11943307/67‑1 (MQ=255) gTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGa < 1:12606739/67‑1 (MQ=255) gTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGa < 1:28220394/67‑1 (MQ=255) gTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGa < 1:13382451/67‑1 (MQ=255) gTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGa < 1:3545961/67‑1 (MQ=255) tGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACg < 1:31436197/68‑1 (MQ=255) tGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACg < 1:7318349/68‑1 (MQ=255) tGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACg < 1:25555544/68‑1 (MQ=255) ggcacaGTAATCAACAATGGCAAAACCACCGTTGACGGTAAAGAATCCACCGGTACGGAAATCAACgg < 1:34225696/66‑1 (MQ=18) gCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACgg < 1:915702/68‑1 (MQ=255) gCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACgg > 1:27193586/1‑68 (MQ=255) gCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACgg < 1:10840175/68‑1 (MQ=255) gCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGCaagg < 1:9848923/43‑3 (MQ=14) ccACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGaa > 1:26975433/1‑59 (MQ=255) ccACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGt > 1:26709810/1‑68 (MQ=255) cacaGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGt < 1:11321994/67‑1 (MQ=255) acaGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGATATCAACGGtaa > 1:29187799/1‑68 (MQ=255) acaGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCCCCGGtaa > 1:13147135/1‑68 (MQ=255) acaGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGtaa < 1:9579258/68‑1 (MQ=255) acaGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGtaa > 1:4851531/1‑68 (MQ=255) acaGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATAAACGGtaa > 1:5950240/1‑68 (MQ=255) acaGTAAACAACAATGGCAAAACCACCGTTGACGGCAAGGATTCCAc > 1:3443606/1‑47 (MQ=11) aGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGtaata > 1:4289134/1‑68 (MQ=255) gTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGtaata > 1:33391744/1‑67 (MQ=255) gTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGtaata > 1:22585980/1‑67 (MQ=255) aaaCAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGtaata < 1:10029800/65‑1 (MQ=255) aaaCAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGtaata < 1:22776820/65‑1 (MQ=255) aaaCAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACg < 1:32080648/68‑1 (MQ=255) aaaCAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACg > 1:17641539/1‑68 (MQ=255) caacaaTGGCAAAACCACCGTTGTCGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGa > 1:21895599/1‑68 (MQ=255) caacaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGa > 1:14765649/1‑68 (MQ=255) caacaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGa > 1:20320919/1‑68 (MQ=255) caacaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGa > 1:24785312/1‑68 (MQ=255) caacaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGa > 1:5390120/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCaa > 1:17101390/1‑52 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCACCGGTAATAACGGGaaa > 1:21344310/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACg > 1:2151409/1‑63 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGTGaaa > 1:14973206/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa > 1:22319440/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:6658856/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:10267324/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:32502380/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:32248151/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:31943642/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:31642919/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa < 1:29990628/68‑1 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGGAATAACGGCaat > 1:26263432/1‑67 (MQ=14) acaaTGGCAAAACCACCGATGACGGAAAAGATTCCACCGGTACGGAAATAAACGGTAATAACGGGaaa > 1:16024455/1‑68 (MQ=14) ggCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGAt > 1:19469776/1‑68 (MQ=255) ccaccGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGAc > 1:33821839/1‑68 (MQ=255) accGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACg > 1:18899135/1‑67 (MQ=255) cGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACGGCg > 1:17463471/1‑68 (MQ=255) gTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACGGCGa > 1:3817850/1‑68 (MQ=255) gagggTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACGGCGATCt < 1:632030/65‑1 (MQ=255) cGGTAAAGATTCCACCGGTACGGAAATAAACGGTAATAACGGGAAAGTGATTCAGGACGGCGATCTgg > 1:8665156/1‑68 (MQ=255) tAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:16643072/43‑1 (MQ=12) | 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: ‑ |