| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 1,461,169 | C→T | 5.1% | pseudogene (1521/2513 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 | 1,461,169 | 0 | C | T | 5.1% | 1606.9 / 30.8 | 504 | pseudogene (1521/2513 nt) | ydbA | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| Reads supporting (aligned to +/- strand): ref base C (215/240); new base T (17/8); total (252/252) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 6.25e-02 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
Only 100 of 682 total aligned reads displayed.
TCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGTTGATG > CP009273/1461102‑1461236 | ggTATCCAGATTGACGGCGCCCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCCCCAATggcg > 1:12483534/1‑67 (MQ=255) ggTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATggcg > 1:8652634/1‑67 (MQ=255) ggTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATggcg > 1:6413043/1‑67 (MQ=255) ggTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATggcg > 1:36919569/1‑67 (MQ=255) ggTATCCAGATTGACGGCGACCAGGCCATCGACAATAACGAAGGCGAGAGCACTATCACCAATggcg > 1:32545405/1‑67 (MQ=255) aTCCAGTTTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggca < 1:5121836/67‑1 (MQ=255) aTCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggca < 1:27489538/67‑1 (MQ=255) aTCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggca > 1:24423431/1‑67 (MQ=255) aTCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggca < 1:13579374/67‑1 (MQ=255) tCCAGATTGACGGCGACCAGGGCTTGGTCATTAACGAAGTCGAGAGCACTATCACCAATGGcggcacc < 1:15995585/68‑1 (MQ=21) ccAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccg > 1:3600286/1‑68 (MQ=255) ccAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccg > 1:23277626/1‑68 (MQ=255) ccAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccg > 1:16272656/1‑68 (MQ=255) ccAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccg > 1:29592138/1‑68 (MQ=255) gATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc > 1:36193650/1‑67 (MQ=255) ttGACGGCGACCAGGCGTTTGTTAATAACGAAGGCGAGAGCTCTATCACCAATGGcggcaccggcac < 1:14669668/67‑1 (MQ=11) ttGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCTATGGcggcaccggc < 1:19438613/65‑1 (MQ=255) ttGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggcac > 1:27996430/1‑67 (MQ=255) ttGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc < 1:17365834/65‑1 (MQ=255) ttGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc < 1:81029/65‑1 (MQ=255) ttGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc < 1:23783735/65‑1 (MQ=255) gtGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc < 1:23054369/64‑1 (MQ=255) gACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCa < 1:33666118/68‑1 (MQ=255) gACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGCGCACTATCACCAATGGCGGCACCGGCACTCa > 1:31730354/1‑68 (MQ=255) gACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGGGGCACCGGCACTCa > 1:8205973/1‑68 (MQ=255) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGa < 1:7183905/68‑1 (MQ=255) cGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGa < 1:17605511/68‑1 (MQ=255) ggCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGa > 1:25227376/1‑67 (MQ=255) aCCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCatc > 1:17938955/1‑66 (MQ=255) ccAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACg < 1:15793123/68‑1 (MQ=255) ccAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACg < 1:25914811/68‑1 (MQ=255) caaGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACg < 1:26721767/66‑1 (MQ=255) cAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACgg < 1:27086829/68‑1 (MQ=255) ggCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCCCCGGCACTCAGAGCAACGGTa > 1:10312381/1‑68 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGt < 1:30863042/65‑1 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGt < 1:10045181/65‑1 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTaaa > 1:11631502/1‑67 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAac > 1:9711657/1‑68 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAac > 1:8952123/1‑68 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACAATCACCAAAGGAGGCACCGGCACTCAGATCAACGGTAac > 1:3995558/1‑68 (MQ=17) cATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAacg < 1:18491900/68‑1 (MQ=255) tCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAacgac < 1:19792492/68‑1 (MQ=255) cAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCACCGGTAACGACGcc > 1:13299329/1‑67 (MQ=255) aaTAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCAc < 1:32838115/68‑1 (MQ=255) aTAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCAcc > 1:20188774/1‑68 (MQ=255) aaCGAAGGCGATAGCTCCATCACCAATGGAGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:33294616/68‑1 (MQ=18) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:21849630/68‑1 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:21986144/68‑1 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:27337999/68‑1 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:16433093/68‑1 (MQ=255) aaCGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc > 1:682780/1‑68 (MQ=14) cGAAGGCGAGAGCTCAATCACCAATGGGGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGa < 1:34704691/68‑1 (MQ=21) cGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGa < 1:30196235/68‑1 (MQ=255) cGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGa > 1:28412128/1‑68 (MQ=255) cGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGa < 1:27700359/68‑1 (MQ=255) cGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGa > 1:34228404/1‑68 (MQ=255) cGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACTCAGATAAACGGTAACGACGCCACCGCGa > 1:20835553/1‑68 (MQ=14) cGAAGGCGAGAGCACAATCACCAAAGGTGGCACCGGCACTCAGATAAACGGTAACGACGCCACCGCGa > 1:30463162/1‑68 (MQ=17) aGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATa < 1:24098650/68‑1 (MQ=255) cGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAAt > 1:28826350/1‑64 (MQ=255) cGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACa > 1:746152/1‑68 (MQ=255) gagaGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACa < 1:24744121/67‑1 (MQ=255) gagaGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACa < 1:5970029/67‑1 (MQ=255) gagCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGt < 1:35116211/67‑1 (MQ=255) gCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTgg < 1:4823335/67‑1 (MQ=255) gCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTgg < 1:5246328/67‑1 (MQ=255) gCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTg < 1:21589572/66‑1 (MQ=255) gCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGa > 1:10657356/1‑68 (MQ=255) gCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGa > 1:4568649/1‑68 (MQ=255) gCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGa > 1:30009145/1‑68 (MQ=255) aCTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGa < 1:13899516/66‑1 (MQ=255) caTCACCAACGGTGGCACCGGCACTCAGATCAACGGTaa < 1:17180563/38‑1 (MQ=11) aTCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGaaaaa > 1:32196937/1‑67 (MQ=255) aTCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGaaaaa > 1:2052437/1‑67 (MQ=255) tCACCAACGGTGGCACCGGCACGCAGATAAAAGGTGAAGACGCCACCGCGAATAACAGTGGAAAAAcc > 1:29192075/1‑68 (MQ=14) cACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAAcc > 1:15362596/1‑67 (MQ=255) ccAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAAcc > 1:12767816/1‑65 (MQ=255) cAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAAcc > 1:22569376/1‑64 (MQ=255) cAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAAcc > 1:10936404/1‑64 (MQ=255) cAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAAcc > 1:3768315/1‑64 (MQ=255) cAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAAcc > 1:5664708/1‑64 (MQ=255) cAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAAcc > 1:26489563/1‑64 (MQ=255) cAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTg < 1:11171405/68‑1 (MQ=255) aTGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCCCTGtt > 1:16824404/1‑68 (MQ=255) aTGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGtt > 1:15252794/1‑68 (MQ=255) aTGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGtt > 1:2550300/1‑68 (MQ=255) aTGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGtt > 1:31398615/1‑68 (MQ=255) aTGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGtt < 1:14260340/68‑1 (MQ=255) aTGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGtt > 1:11883372/1‑68 (MQ=255) aTGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGtt > 1:30631368/1‑68 (MQ=255) ggcggcACCGGCACTCAGATCAACGGTAACGCCGCCACCGCGAATAACAGTGGAAAAACCACTGTTGa > 1:33922093/1‑68 (MQ=255) ggcggcACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGTTGa > 1:31529477/1‑68 (MQ=255) ggcggcACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGTTGa > 1:1898726/1‑68 (MQ=255) ggcggcACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGTTGa > 1:35671860/1‑68 (MQ=255) ggcggcACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGTTGa > 1:18403517/1‑68 (MQ=255) ggcggcACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGTTGa > 1:14463837/1‑68 (MQ=255) ggcggcACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGTTGa > 1:36595170/1‑68 (MQ=255) cggcaccggcacTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGTTGATg > 1:11342860/1‑68 (MQ=255) cggcaccggcacTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGTTGATg > 1:4201188/1‑68 (MQ=255) cggcaccggcacTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGTTGATg > 1:22153570/1‑68 (MQ=255) | TCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGTTGATG > CP009273/1461102‑1461236 |
| 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: ‑ |