| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 1,461,169 | C→T | 6.1% | 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 | 6.1% | 1712.2 / 49.7 | 547 | pseudogene (1521/2513 nt) | ydbA | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| Reads supporting (aligned to +/- strand): ref base C (270/220); new base T (28/4); total (320/227) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 3.06e-04 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
Only 100 of 719 total aligned reads displayed.
TCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGTTGATG > CP009273/1461102‑1461236 | tCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATggc > 1:2294664/1‑68 (MQ=255) cGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATggcg < 1:41920801/68‑1 (MQ=255) ggTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATggcg > 1:4599968/1‑67 (MQ=255) tATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATggcggc < 1:29730137/67‑1 (MQ=255) aTCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggca > 1:25563933/1‑67 (MQ=255) aTCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggca < 1:11368190/67‑1 (MQ=255) tCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcacc < 1:27179615/68‑1 (MQ=255) ccAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggccccg > 1:42901273/1‑68 (MQ=255) ccAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccg > 1:20782282/1‑68 (MQ=255) ccAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccg > 1:34615930/1‑68 (MQ=255) gATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc > 1:9496803/1‑67 (MQ=255) gATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc > 1:26654668/1‑67 (MQ=255) gATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc > 1:33233053/1‑67 (MQ=255) gATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc > 1:3563950/1‑67 (MQ=255) gATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc > 1:37339218/1‑67 (MQ=255) gATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc > 1:37981171/1‑67 (MQ=255) gATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc > 1:10573644/1‑67 (MQ=255) gATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc > 1:40172251/1‑67 (MQ=255) ttGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggcac < 1:38749618/67‑1 (MQ=255) ttGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggcac > 1:20087640/1‑67 (MQ=255) ttGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggcac < 1:43261033/67‑1 (MQ=255) aCGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAg > 1:25152093/1‑68 (MQ=255) cGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAg < 1:12714984/67‑1 (MQ=255) cGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAg < 1:16983598/67‑1 (MQ=255) ggCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGa > 1:6126286/1‑67 (MQ=255) ggCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGa > 1:23564904/1‑67 (MQ=255) aCCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAAc > 1:13279/1‑68 (MQ=255) ccAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAAc < 1:21371455/67‑1 (MQ=255) ccAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACg > 1:30203112/1‑68 (MQ=255) ccAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACg < 1:29220478/68‑1 (MQ=255) ccAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACg < 1:28349954/68‑1 (MQ=255) ccAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACg < 1:778004/68‑1 (MQ=255) caaGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACg < 1:39903016/66‑1 (MQ=255) caaGGCCATCGTCAATAACGAAGGCGAGAGCACAATCACCAAAGGGGGCACCGGCACTCAGATGAACg > 1:39326686/3‑68 (MQ=11) ggCCATCGTCAATAACGAAGGCGAGAGCACAATCACCAACGGAGGCACCGGCACGCAGATCAACGGTa > 1:6877126/1‑68 (MQ=11) gCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCaa > 1:37622312/1‑62 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCTCTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAac > 1:9693001/1‑68 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGt < 1:39523701/65‑1 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTa < 1:41636289/66‑1 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAac > 1:23342577/1‑68 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAac > 1:22437018/1‑68 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAac > 1:27664679/1‑68 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAac > 1:1891444/1‑68 (MQ=255) ccATCGTCAATAACGAAGGCCAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAac > 1:8750724/1‑68 (MQ=255) gTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGCTCAACGGTAacgacg > 1:24795833/1‑67 (MQ=255) gTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAacgacg > 1:16549750/1‑67 (MQ=255) gTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAacgacg > 1:482934/1‑67 (MQ=255) gTCAATAACGAAGGCGAGAGCACCATCACCAACGGGGGCACCGGCACTCAGATCAACGGTAacgacg > 1:22060713/1‑67 (MQ=14) aTAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCAcc > 1:14213047/1‑68 (MQ=255) aTAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCAcc < 1:4367093/68‑1 (MQ=255) aTAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCAcc > 1:15957868/1‑68 (MQ=255) aTAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCAcc > 1:32911150/1‑68 (MQ=255) aTAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCAcc > 1:11069652/1‑68 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGCCGCCACcgc > 1:240066/1‑68 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:40599943/68‑1 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:15588720/68‑1 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:25825349/68‑1 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:8368266/68‑1 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:14876369/68‑1 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc > 1:287546/1‑68 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:35319522/68‑1 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:17908593/68‑1 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:2053596/68‑1 (MQ=255) aaCGAAGGCGAGAGCACCATCACCAACGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:32358141/68‑1 (MQ=255) aCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgcg > 1:11892490/1‑68 (MQ=255) aCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgcg > 1:17231877/1‑68 (MQ=255) aCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGAACAACGGTAACGCCGCCACcgcg > 1:32249755/1‑68 (MQ=255) cGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACGCAGATCAACGGTAACGACGCCACCGCGa > 1:31629233/1‑68 (MQ=14) aGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATa < 1:26352899/68‑1 (MQ=255) ggCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATa > 1:34167801/1‑67 (MQ=255) ggCGAGAGCACCATCACCAAAGGTGGCACCGGCACTCAGATCAAAGGTAACGACGCCACCGCGAATa > 1:12338925/1‑67 (MQ=17) cGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAAc < 1:24375628/67‑1 (MQ=255) cGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACAGCGAATAACa > 1:43407068/1‑68 (MQ=255) gagaGCTCCATCACCAACGGGGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:7634535/59‑1 (MQ=17) gagaGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACa < 1:1028351/67‑1 (MQ=255) gctcTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTg < 1:38118163/63‑1 (MQ=255) gCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCCCCGCGAATAACAGTGGa > 1:12899065/1‑68 (MQ=255) gCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTgg < 1:18270512/67‑1 (MQ=255) gCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGa > 1:5299356/1‑68 (MQ=255) gCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGa > 1:5828508/1‑68 (MQ=255) tATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGaaaaa < 1:17648188/68‑1 (MQ=255) tATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGaaaaa < 1:31195755/68‑1 (MQ=255) cACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAAcc > 1:10045690/1‑67 (MQ=255) ccAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAAcc > 1:30870731/1‑65 (MQ=255) ccAACGGTGGCACCGGCACGCAGATAAACGGTTACGACGCCACCGCGAATAACAGTGGAAAAAcc > 1:19360794/1‑65 (MQ=17) cAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAaacaacgg > 1:13825255/1‑66 (MQ=255) cAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAAcc > 1:35945546/1‑64 (MQ=255) cAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAAcc > 1:32017089/1‑64 (MQ=255) cAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTg < 1:9200059/68‑1 (MQ=255) aaTGGTGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCTAATAACAGTGGAAAAACCACTGt < 1:15113742/68‑1 (MQ=255) aaTGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGt < 1:36586411/68‑1 (MQ=255) aaTGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGt < 1:27962136/68‑1 (MQ=255) aTGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGtt > 1:18576781/1‑68 (MQ=255) aTGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGtt > 1:6462630/1‑68 (MQ=255) aTGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGtt > 1:7431846/1‑68 (MQ=255) aTGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGtt > 1:41116151/1‑68 (MQ=255) aTGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGtt > 1:21694432/1‑68 (MQ=255) aTGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGtt > 1:42461336/1‑68 (MQ=255) ggcggcACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGTTGa > 1:336433/1‑68 (MQ=255) ggcggcACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGTTGa > 1:30633270/1‑68 (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: ‑ |