| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 1,461,169 | C→T | 5.5% | 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 | 5.5% | 2500.1 / 62.0 | 791 | pseudogene (1521/2513 nt) | ydbA | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| Reads supporting (aligned to +/- strand): ref base C (350/367); new base T (34/8); total (415/376) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.56e-05 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
Only 100 of 1094 total aligned reads displayed.
TCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGTTGATG > CP009273/1461102‑1461236 | tCGGTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATggc > 1:51835917/1‑68 (MQ=255) ggTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGCGCACTATCACCAATggcg > 1:36680620/1‑67 (MQ=255) ggTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATggcg > 1:5994560/1‑67 (MQ=255) ggTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATggcg > 1:31127967/1‑67 (MQ=255) ggTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATggcg > 1:25200785/1‑67 (MQ=255) ggTATCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATggcg > 1:49907698/1‑67 (MQ=255) aTCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggca < 1:4011067/67‑1 (MQ=255) tCCAGTTTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcacc < 1:18134279/68‑1 (MQ=255) tCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcacc < 1:38433623/68‑1 (MQ=255) tCCAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcacc < 1:44039622/68‑1 (MQ=255) ccAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccg > 1:27421973/1‑68 (MQ=255) ccAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccg > 1:4341308/1‑68 (MQ=255) ccAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccg > 1:48779720/1‑68 (MQ=255) ccAGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccg > 1:29135710/1‑68 (MQ=255) aGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc > 1:48359858/1‑68 (MQ=255) aGATTGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc > 1:19990054/1‑68 (MQ=255) gATTGCCGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc > 1:31687573/1‑67 (MQ=255) ttGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCAGTATCAGCAATGGcggcaccggc < 1:14291295/65‑1 (MQ=255) ttGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggcac < 1:25948810/67‑1 (MQ=255) ttGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggcac < 1:23975750/67‑1 (MQ=255) ttGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggcac < 1:12576983/67‑1 (MQ=255) ttGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggcac > 1:56988437/1‑67 (MQ=255) ttGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggca < 1:32565930/66‑1 (MQ=255) ttGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc < 1:16750304/65‑1 (MQ=255) ttGACGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGcggcaccggc < 1:3362325/65‑1 (MQ=255) ttGACGGCGACCAGGCCATCGTCAATAACGAAGGCGACAGCACTATCACCAATGGcggcaccggcac > 1:29595888/1‑67 (MQ=255) cGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGa > 1:2057570/1‑68 (MQ=255) cGGCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGa < 1:47818174/68‑1 (MQ=255) ggCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGa > 1:21092695/1‑67 (MQ=255) ggCGACCAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGAt > 1:4547099/1‑68 (MQ=255) gACAAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCaa < 1:53533127/68‑1 (MQ=255) ccAGGCCTTCGTTAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACg < 1:34368069/68‑1 (MQ=255) ccAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACg < 1:35291249/68‑1 (MQ=255) ccAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACg < 1:17723631/68‑1 (MQ=255) caaGGCCATCGTCAATAACGAAGGCGAGAGCACGATCACCAAAGGAGGCACCGGCACTCAGATAAACg > 1:26214015/3‑68 (MQ=11) ccATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTaa < 1:40948669/67‑1 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAac > 1:12873271/1‑68 (MQ=255) cATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAacg < 1:9370221/68‑1 (MQ=255) cATCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAacg > 1:35999909/1‑68 (MQ=255) tCGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAacgac < 1:46914323/68‑1 (MQ=255) cGTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAacgacg < 1:37295255/68‑1 (MQ=255) gTCAATAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAacgacg > 1:6813301/1‑67 (MQ=255) gTCAATAACGAAGGCGAGAGCACAATCACCAAAGGAGGCACCGGCACTCAGATCAACGGTAacgacg > 1:45858216/1‑67 (MQ=18) tCAATAACGAAGGCGAGAGCACCATCACCAAAGGTGGCACCGGCACGCAGATCAACGGTAACGACGcc > 1:15498755/1‑68 (MQ=14) aTAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCAcc > 1:54130552/1‑68 (MQ=255) aTAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCAcc > 1:53062808/1‑68 (MQ=255) tAACGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCAcc > 1:14913084/1‑67 (MQ=255) aaCGAAGGCGAGAGCTCTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:11645493/68‑1 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:884701/68‑1 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:49120753/68‑1 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:49670853/68‑1 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:21445244/68‑1 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:13721227/68‑1 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:39020198/68‑1 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:13392106/68‑1 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:8021410/68‑1 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:28034612/68‑1 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:23651941/68‑1 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgc < 1:12204256/68‑1 (MQ=255) aaCGAAGGCGAGAGCACAATCACCAACGGAGGCACCGGCACGCAGATCAACGGTAACGACGCCACcg > 1:38083569/1‑67 (MQ=14) aCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACcgcg > 1:46345813/1‑68 (MQ=255) aCGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATAAACGGTAACGACGCCACcccg > 1:10011125/1‑68 (MQ=255) ctaaGGCGAGATCAATATCACCAATTGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGa < 1:7296740/66‑1 (MQ=255) cGAAGGCGAGAGCTCAATCACCAACGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGa < 1:40733945/68‑1 (MQ=18) cGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGa < 1:34067305/68‑1 (MQ=255) cGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGa < 1:21979349/68‑1 (MQ=255) cGAAGGCGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGa < 1:45065200/68‑1 (MQ=255) cGAGAGCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACa > 1:48043332/1‑68 (MQ=255) gagaGCACTATCACCAATGGCGGCACCGGCACTCAGa < 1:17320177/37‑1 (MQ=255) gagaGCACCATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACa < 1:18712849/67‑1 (MQ=255) gCACTATCACCAATGGCGGCCCCGGCACTCAGATCAACGGTAACGCCGCCACCGCGAATAACAGTGGa > 1:44492342/1‑68 (MQ=255) gCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTgg < 1:10672849/67‑1 (MQ=255) gCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTgg < 1:47325697/67‑1 (MQ=255) gCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGa > 1:33199716/1‑68 (MQ=255) gCACTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGa > 1:56380632/1‑68 (MQ=255) accaTCACCAACGGTGGCACCGGCACTCAGATAAACGGTTACGACGCCACCGCGAATAACGGTGGaaa > 1:24548526/4‑68 (MQ=17) cTATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGaaaa < 1:39415008/68‑1 (MQ=255) tATCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGaaaaa < 1:4290869/68‑1 (MQ=255) tCACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAAcc < 1:1913495/68‑1 (MQ=255) cACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATaa > 1:35529473/1‑54 (MQ=255) cACCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAAcc > 1:28657088/1‑67 (MQ=255) aCCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAAcc > 1:51383929/1‑66 (MQ=255) aCCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAAcc > 1:50744528/1‑66 (MQ=255) aCCAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAAcc > 1:5249088/1‑66 (MQ=255) ccAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAAcc > 1:23103031/1‑65 (MQ=255) ccAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACt < 1:50334782/68‑1 (MQ=255) cAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAACCCAcgg > 1:55629651/1‑66 (MQ=255) cAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAAcc > 1:26758370/1‑64 (MQ=255) cAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAAcc > 1:57616174/1‑64 (MQ=255) cAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAAcc > 1:11312893/1‑64 (MQ=255) cAATGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAAcc > 1:2267850/1‑64 (MQ=255) aaTGGCGGCACCGGGACGGAGATCAACGGTTAGGACTCCACCGCGAATAACAGTGGAAAAACCACTGt < 1:54843646/68‑1 (MQ=255) aaTGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGt < 1:4228404/68‑1 (MQ=255) aaTGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGt < 1:29938600/68‑1 (MQ=255) aTGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGtt > 1:54405494/1‑68 (MQ=255) aTGGCGGCACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGtt > 1:19479276/1‑68 (MQ=255) ggcggcACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGTTGa > 1:41464226/1‑68 (MQ=255) ggcggcACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGTTGa > 1:27070645/1‑68 (MQ=255) ggcggcACCGGCACTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGTTGa > 1:30551929/1‑68 (MQ=255) cggcaccggcacTCAGATCAACGGTAACGACGCCACCGCGAATAACAGTGGAAAAACCACTGTTGATg > 1:52188363/1‑68 (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: ‑ |