| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 1,460,356 | T→C | 10.0% | 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 | 10.0% | 2336.4 / 144.5 | 787 | pseudogene (708/2513 nt) | ydbA | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| Reads supporting (aligned to +/- strand): ref base T (483/201); new base C (2/75); total (509/278) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 8.89e-34 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
Only 100 of 829 total aligned reads displayed.
ACGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACGGCGATCTGGAT > CP009273/1460289‑1460422 | aCGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGt > 1:23379798/1‑68 (MQ=255)aCGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGt > 1:23661104/1‑68 (MQ=255)aCGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGt > 1:31080546/1‑68 (MQ=255)aCGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGt > 1:3422052/1‑68 (MQ=255)aCGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGt > 1:28844247/1‑68 (MQ=255)aCGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGt > 1:3466709/1‑68 (MQ=255)aCGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGt > 1:42270165/1‑68 (MQ=255) cGGTTAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATCGCAAAACCACCGTTGACGGTa < 1:28629615/68‑1 (MQ=255) cGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTa < 1:25475328/68‑1 (MQ=255) ggTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACGGTTGACGGTaa > 1:26257209/1‑68 (MQ=255) ggTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTaa > 1:8762691/1‑68 (MQ=255) ggTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTaa > 1:18693440/1‑68 (MQ=255) ggTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTaa > 1:32420822/1‑68 (MQ=255) ggTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGGaa > 1:40886900/1‑68 (MQ=255) gTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGaaaa > 1:32081183/1‑68 (MQ=255) gTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTaaa > 1:5262817/1‑68 (MQ=255) gagaTTGTTATTACGGGTGATAATGCCACTGTAAACAACAATGGCAAAACCACCGTTGACGGCaagg < 1:33107886/67‑3 (MQ=18) gAGCTTGTTATTACGGGTGATAATGCCACCGTAAACAACAATGGCAAAACCACCGTTGACGGCaagg < 1:10856352/67‑3 (MQ=21) gAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGCAAGGa < 1:28194754/68‑1 (MQ=255) gCTTGTTATTACGGGTGATTATGCCACTGTAAACAACAATGGCAAAACCACCGTTGACGGCAAGGAtt < 1:17765776/68‑1 (MQ=18) gCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGAt > 1:15198292/1‑67 (MQ=255) ttattaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCAcc > 1:14702632/1‑68 (MQ=255) attaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCgg > 1:30388442/1‑68 (MQ=255) attaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCgg > 1:3843094/1‑68 (MQ=255) attaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCgg > 1:2270905/1‑68 (MQ=255) attaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGGAAAGATTCCACCgg > 1:15963931/1‑68 (MQ=255) ttaCTGGTGATTATGCCACAGTAAACAACAATGTCAAAACCACCGTTGACGGCAAGGATTCCACCGGt < 1:38890267/68‑1 (MQ=14) ttaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGt < 1:26019617/68‑1 (MQ=255) ttaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGt < 1:22163249/68‑1 (MQ=255) aCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTAc < 1:41348268/68‑1 (MQ=255) aCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTAc > 1:6867253/1‑68 (MQ=255) aCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTAc < 1:35498943/68‑1 (MQ=255) aCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTAc > 1:27529179/1‑68 (MQ=255) aCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTAc > 1:15598823/1‑68 (MQ=255) aCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGCAAAGATTCCACCGGTAc > 1:40655573/1‑68 (MQ=255) cGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACg < 1:26449029/68‑1 (MQ=255) cGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACg > 1:18329602/1‑68 (MQ=255) cGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACg > 1:13370665/1‑68 (MQ=255) ggTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGa > 1:29370990/1‑68 (MQ=255) ggTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGa > 1:793654/1‑68 (MQ=255) gTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGa < 1:3806756/67‑1 (MQ=255) gTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGa < 1:36549337/67‑1 (MQ=255) gTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGa < 1:20496245/67‑1 (MQ=255) gATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGaaa < 1:23877601/67‑1 (MQ=255) gATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGaaa < 1:41767628/67‑1 (MQ=255) aTAATGCGACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTAGGGAAATc > 1:18961975/1‑68 (MQ=255) aTAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATc > 1:26742601/1‑68 (MQ=255) aaTGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCa > 1:33949164/1‑67 (MQ=255) aTGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAAc > 1:7485583/1‑68 (MQ=255) aTGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAAc > 1:19590612/1‑68 (MQ=255) aTGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAAc > 1:33590867/1‑68 (MQ=255) aTGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGGAAAGATTCCACCGGTACGGaa > 1:12936580/1‑62 (MQ=255) tGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACg > 1:19904229/1‑68 (MQ=255) tGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACg < 1:19376386/68‑1 (MQ=255) gCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGAAAAGATTCCACCGGTACGGAAATCAAAgg > 1:31698749/1‑68 (MQ=255) ccACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGt > 1:17082614/1‑68 (MQ=255) ccACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGt > 1:5924976/1‑68 (MQ=255) ccACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGt > 1:2152258/1‑68 (MQ=255) ccACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGt > 1:40139835/1‑68 (MQ=255) cacaGTAAACAACAATGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGta < 1:19197212/68‑1 (MQ=255) acaGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATT‑CACCGGTACGGAAATCAACGGtaat > 1:4262055/1‑68 (MQ=255) acaGTAAACAACAATGGCAAAACCACCGTTGACGGGAAAGATTCCACCGGTACGGAAATCAACGGtaa > 1:10465192/1‑68 (MQ=255) gTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGtaata > 1:6417142/1‑67 (MQ=255) tAAACAACAATGGCAAAACCACCGTTGACGGCAATGATTCCACCGGTACGGAAATCAACGGt < 1:35891815/62‑1 (MQ=11) aaaCAACAATGGCAAAACCACCGTTGACGGTGAAGATTCCACCGGTACGGAAATCAACGGtaata < 1:4783719/65‑1 (MQ=255) acaacaATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAAGGGGAATAACggc > 1:27222035/1‑67 (MQ=14) caacaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGa > 1:39847129/1‑68 (MQ=255) caacaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATAAACGGTAATAACGGGa > 1:27874442/1‑68 (MQ=255) acaaTGGCAAACCCACCGTTGCCGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:2439722/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATGAACGGTAATAACGGGaaa > 1:14949775/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTTATAACGGGaaa > 1:31554474/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGTaaa > 1:36898177/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:17495665/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:10072929/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:20126142/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:21050924/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:39361110/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:22385325/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGAAATAACGGGaaa > 1:4399228/1‑68 (MQ=255) aaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGt > 1:11845561/1‑68 (MQ=255) aaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGt < 1:7088960/68‑1 (MQ=255) aaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGt > 1:12448167/1‑68 (MQ=255) aaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGt > 1:11318973/1‑68 (MQ=255) aaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGt > 1:8322416/1‑68 (MQ=255) aTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTg < 1:8997062/68‑1 (MQ=255) ggCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGAt > 1:32794040/1‑68 (MQ=255) cAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAAAGGTAATAACGGGAAAGTGATTc > 1:36691645/1‑68 (MQ=255) cAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATAAAAGGAAATAACGGGAAAGTGATTc > 1:9266487/1‑68 (MQ=17) cAAAACCACCGTTGACGGAAAAGATTCCACCGGTACGGAAATAAAGGGAAATAACGGGAAAGTGATTc > 1:16758287/1‑68 (MQ=14) aaCCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAATTGATTCAgg < 1:29890641/68‑1 (MQ=255) aaCCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAgg < 1:30070929/68‑1 (MQ=255) accaccGTTGACGGTAAAGATTCCACCGGTACGGAAATCTCGGGCAATAACGGGAATGTTATTCAGGa > 1:37738658/1‑68 (MQ=11) ccGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACGGc < 1:13744845/68‑1 (MQ=255) tGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACGGCGAt < 1:12222267/67‑1 (MQ=255) tGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGAAGGCGa > 1:24725305/1‑66 (MQ=255) tGACGGCAAAGATTCCACCGGTACGGAAATCTACGGAAATAACGGGAATGTGATTCAGGACGGCGAt < 1:43042492/67‑1 (MQ=14) gACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACGGCGATCt < 1:1638318/68‑1 (MQ=255) aCGGTAAAGATTCCACCGGTACGGAAATCAACGGtaata > 1:14354075/1‑39 (MQ=255) aCGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACGGCGATCTg > 1:25041428/1‑68 (MQ=255) cGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACGGCGATCTgg > 1:37389838/1‑68 (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: ‑ |