| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 1,460,653 | G→T | 11.3% | pseudogene (1005/2513 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 | 1,460,653 | 0 | G | T | 11.3% | 843.8 / 7.6 | 317 | pseudogene (1005/2513 nt) | ydbA | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| Reads supporting (aligned to +/- strand): ref base G (129/126); new base T (5/37); total (136/181) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.32e-06 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
Only 100 of 324 total aligned reads displayed.
CGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGATCTGGATGTCA > CP009273/1460587‑1460720 | cggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAgg < 1:29737631/68‑1 (MQ=40) gATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCg > 1:18706840/1‑68 (MQ=35) ttAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACGACCGTTGACGGCAAAGATTCCACCggg > 1:21231026/1‑67 (MQ=11) ttAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGt < 1:10744639/68‑1 (MQ=35) ttAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGt < 1:389279/68‑1 (MQ=35) ttAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGt < 1:38528112/68‑1 (MQ=35) ttAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGt < 1:36953722/68‑1 (MQ=35) ttAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGt < 1:30397761/68‑1 (MQ=35) ttAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGt < 1:32622144/68‑1 (MQ=35) ttAATGGTGATGAAGCCACTGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCgg < 1:42111878/67‑1 (MQ=255) tAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGt > 1:28518364/1‑67 (MQ=35) tGGTGATGACGCCACGGCAAACAACAACGGCAAATCCACCGTTGACGGCAAGGAt > 1:39660070/1‑55 (MQ=9) tGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACgg > 1:43128355/1‑68 (MQ=31) atgaCGCCACGGCAAAAAACAACGGCAAAACCACCGTTGAAGGCAAGGATTCCACCGGTACGGAAATc > 1:33772862/1‑68 (MQ=11) tgaCGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATc > 1:5731588/1‑67 (MQ=31) tgaCGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCa > 1:15385164/1‑68 (MQ=33) tgaCGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGAAATGATTCCACCGGTACGGAAATCa > 1:8463470/1‑68 (MQ=255) aCGCCACGGCAAACAACAACGGCAAAACCACCGTTGATTGAAAAGATTCCACCGGTACCCAAATcgcc > 1:28102317/1‑65 (MQ=11) aCGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAAc > 1:5889700/1‑68 (MQ=37) cGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACg < 1:13149228/68‑1 (MQ=39) cGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACg < 1:3791078/68‑1 (MQ=39) cGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACg < 1:37166976/68‑1 (MQ=39) ccACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGATATCCACGGt > 1:21588970/1‑68 (MQ=255) cACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGt < 1:16864270/67‑1 (MQ=255) ggCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACg < 1:42054438/62‑1 (MQ=39) ggCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGtaata < 1:33497330/68‑1 (MQ=255) cgCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGtaata < 1:17351617/67‑1 (MQ=255) gCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGtaata > 1:11939804/1‑67 (MQ=255) acaacaatGGCAAAACCACCGTTGACGGCAATGATTCCACCGGCACGGAAATCAACGGTAATAACGGa < 1:6258919/68‑1 (MQ=11) acaacaatGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGa < 1:43623743/68‑1 (MQ=255) acaatGGCAAAACCACCGTTGACGGCAATGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:31771101/68‑1 (MQ=255) acaatGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:23014658/68‑1 (MQ=255) acaatGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:1926731/68‑1 (MQ=255) acaatGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:6975334/68‑1 (MQ=255) acaatGGCAAAACCACCGTTGACGGCAACGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:26036722/68‑1 (MQ=255) acaacGGCAAAACCACCGTTGACGGCAATGATTCCACAGGTACGGAAATAAAAGAAAATAACGGaaa > 1:2249855/1‑67 (MQ=14) acaacGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACTGTAATAACGGaaaa > 1:35728533/1‑68 (MQ=255) acaacGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:43322186/68‑1 (MQ=255) acaacGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa > 1:8849009/1‑68 (MQ=255) acaacGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:11222558/68‑1 (MQ=255) acaacGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:10121942/68‑1 (MQ=255) acaacGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa > 1:5454279/1‑68 (MQ=255) acaacGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:24378012/68‑1 (MQ=255) acaacGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa > 1:23750766/1‑68 (MQ=255) acaacGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:39985644/68‑1 (MQ=255) acaacGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa > 1:19871444/1‑68 (MQ=255) tatggCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGt < 1:36649682/65‑1 (MQ=255) aatggCAAAACCACCGTTGACGGCAACGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGt < 1:41727617/65‑1 (MQ=255) aacGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCTACGGTAATAACGGAAAAGt > 1:36128548/1‑68 (MQ=255) aacGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGt < 1:4967325/68‑1 (MQ=255) aacGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGt < 1:35120002/68‑1 (MQ=255) aacGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGAAATAACGGAAAAGt > 1:7970198/1‑68 (MQ=255) ggCAAAACCACCGTTGACGGTAACGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTAt < 1:29266434/68‑1 (MQ=255) ggCAAAACCACCGTTGACGGCAATGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTAt < 1:38395438/68‑1 (MQ=255) ggCAAAACCACCGTTGACGGCAATGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTAt < 1:23316772/68‑1 (MQ=255) ggCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATGAACGGGAATAACGGAAAAGTGAt > 1:17419639/1‑68 (MQ=14) ggCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCGACGGAAATAACGGAAAAGTTAt > 1:30749570/1‑68 (MQ=255) ggCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAATGTTAt > 1:10865602/1‑68 (MQ=255) ggCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTAt < 1:27109932/68‑1 (MQ=255) ggCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTAt < 1:20922772/68‑1 (MQ=255) ggCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTAt < 1:40453293/68‑1 (MQ=255) ggCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTAt < 1:1806517/68‑1 (MQ=255) ggCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGAAAAAGTTAt < 1:19325497/68‑1 (MQ=255) ggCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGGAATAACGGAAAAGTTAt > 1:2212192/1‑68 (MQ=255) ggCAAAACCACCGTTGACGGCAACGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTAt < 1:12020062/68‑1 (MQ=255) ggCAAAACCACCGTTGACGGCAACGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTAt < 1:37369672/68‑1 (MQ=255) ggCAAAACCACCGTTGACGGAAACGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTAt < 1:19642728/68‑1 (MQ=255) aaaaCCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCa < 1:36439393/68‑1 (MQ=255) aaCCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAgg < 1:21822952/68‑1 (MQ=255) aaCCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAgg < 1:32172689/68‑1 (MQ=255) accaccGTTGACGGCAATGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGa < 1:15926097/68‑1 (MQ=255) accaccGTTGACGGCAAGGATTCCACCGGTACGGAAATCGACGGTAATAACGGAAAAGTGATTCAgg > 1:29857036/1‑67 (MQ=255) accaccGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAgg > 1:39004937/1‑67 (MQ=255) accaccGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAgg > 1:12574971/1‑67 (MQ=255) accaccGTTGACGGCAAGGATTCCACCGGGACGGAAATCAACGGTAATAACGGAAAAGTGATTCggg > 1:24181680/1‑67 (MQ=14) caccGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACg < 1:26255496/68‑1 (MQ=255) caccGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACg < 1:7391852/68‑1 (MQ=255) ccGTTGACGGTAATGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGc < 1:2821722/68‑1 (MQ=255) ccGTTGACGGCAATGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGc < 1:31195887/68‑1 (MQ=255) ccGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGc < 1:33962780/68‑1 (MQ=255) gTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGa < 1:42467155/68‑1 (MQ=255) gTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGa > 1:34397296/1‑68 (MQ=255) ttGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGa > 1:40949744/1‑67 (MQ=255) tGACGGGAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGAt < 1:33101042/67‑1 (MQ=255) tGACGGCAATGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGAt < 1:31371562/67‑1 (MQ=255) tGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGAt < 1:41542624/67‑1 (MQ=255) tGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGAt < 1:41243380/67‑1 (MQ=255) tGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGAt < 1:24653973/67‑1 (MQ=255) tGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGAt < 1:11432044/67‑1 (MQ=255) tGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGAt < 1:1473186/67‑1 (MQ=255) tGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGAt < 1:6628932/67‑1 (MQ=255) tGACGGCAACGATTCCACCGGTACGGAAATCAACGGCAATAACGGAAAAGTTATTCAGGACGGCGAt < 1:20651753/67‑1 (MQ=14) gACGGTAACGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGATCt < 1:22392751/68‑1 (MQ=255) cGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGTGATCTgg < 1:9042269/68‑1 (MQ=255) cGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGATCTgg > 1:14074189/1‑68 (MQ=255) cGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGATCTgg > 1:16352781/1‑68 (MQ=255) cGGCAACGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGATCTgg < 1:33639978/68‑1 (MQ=255) ggaaaGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGATCTGGa < 1:25047099/65‑1 (MQ=255) gCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGATCTGGAt > 1:27466439/1‑68 (MQ=255) gCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGATCTGGAt > 1:28966557/1‑68 (MQ=255) | CGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGATCTGGATGTCA > CP009273/1460587‑1460720 |
| 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: ‑ |