| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 1,191,676 | C→T | 29.7% | H366H (CAC→CAT) | icd → | e14 prophage; isocitrate dehydrogenase, specific for NADP+ |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 1,191,676 | 0 | C | T | 29.7% | 731.3 / inf | 419 | H366H (CAC→CAT) | icd | e14 prophage; isocitrate dehydrogenase, specific for NADP+ |
| Reads supporting (aligned to +/- strand): ref base C (188/106); new base T (57/67); total (245/174) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 7.53e-04 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.84e-01 | |||||||||||
Only 100 of 457 total aligned reads displayed.
AATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCG > CP009273/1191609‑1191743 | aaTATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCcac < 1:35198739/68‑1 (MQ=255)aaTATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCcac > 1:7715135/1‑68 (MQ=255)aaTATGCCGGACAGGACAAAGTAAATCCTGGCTCGATTATTCTCTCCGCTGAGATGATGCTGCGCcac > 1:2443059/1‑68 (MQ=255) atGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATg < 1:36926574/68‑1 (MQ=255) tGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATgg < 1:19066389/68‑1 (MQ=255) tGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATgg < 1:12464971/68‑1 (MQ=255) tGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATgg < 1:38170541/68‑1 (MQ=255) gCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATggg > 1:29794945/1‑68 (MQ=255) gCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATggg < 1:15002780/68‑1 (MQ=255) gCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATggg > 1:9354366/1‑68 (MQ=255) gCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATggg > 1:14390918/1‑68 (MQ=255) gCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATggg > 1:5903764/1‑68 (MQ=255) tCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTgg < 1:13496801/67‑1 (MQ=255) tCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTgg < 1:32771841/67‑1 (MQ=255) tCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTgg > 1:29981498/1‑67 (MQ=255) aCAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGActg < 1:2049202/66‑3 (MQ=255) aCAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGaa > 1:12336752/1‑68 (MQ=255) aCAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGaa > 1:21781125/1‑68 (MQ=255) aCAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGaa > 1:10660043/1‑68 (MQ=255) gTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCg > 1:971038/1‑66 (MQ=255) gTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCg > 1:5728690/1‑66 (MQ=255) gTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCg > 1:924513/1‑66 (MQ=255) gTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCg > 1:26038580/1‑66 (MQ=255) gTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCg > 1:19642257/1‑66 (MQ=255) gTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCg > 1:22543273/1‑66 (MQ=255) aaaTCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGc < 1:16018566/66‑1 (MQ=255) aaaTCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑Tg < 1:38409950/68‑1 (MQ=255) aaaTCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑Tg < 1:14668687/68‑1 (MQ=255) aTCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGC‑TGAc < 1:3562713/68‑1 (MQ=255) aTCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑Tg > 1:36418394/1‑66 (MQ=255) tCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGC‑TGa > 1:30788902/1‑66 (MQ=255) tCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGC‑TGa > 1:1319288/1‑66 (MQ=255) tCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACt > 1:4850554/1‑68 (MQ=255) tCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACt < 1:30462452/68‑1 (MQ=255) tCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACt > 1:2383377/1‑68 (MQ=255) tCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACt < 1:5310973/68‑1 (MQ=255) ccTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACtt > 1:35873234/1‑68 (MQ=255) cTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTa > 1:19389669/1‑68 (MQ=255) ctctATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGC‑TGACCTGATTg > 1:37487994/1‑68 (MQ=17) ctctATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTg > 1:17055369/1‑68 (MQ=255) tctATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGC‑TGACCTGATTg < 1:24846185/67‑1 (MQ=17) tctATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGC‑TGACCTGATTGt < 1:18623120/68‑1 (MQ=17) tctATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGC‑TGACCTGATTGt < 1:33151601/68‑1 (MQ=17) tctATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGt < 1:38769704/68‑1 (MQ=255) tctATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGt < 1:11889752/68‑1 (MQ=255) ctATTATTCTCTGCGCTGAGATGATGCTGCGCCAGATGGGTTGGACCGAAGCGGC‑TTACTTAATTGt < 1:23926510/67‑1 (MQ=37) ttattCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTaaa < 1:10952025/68‑1 (MQ=255) tattCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGC‑TGACCTGATTGTTAAAg < 1:4331929/68‑1 (MQ=14) tattCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAg < 1:1121125/68‑1 (MQ=255) tattCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAg < 1:33967192/68‑1 (MQ=255) tattCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACAGAAGCGGC‑TGACTTAATTGTTAAAg > 1:2763074/1‑68 (MQ=255) tttCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAgg < 1:23010134/67‑1 (MQ=255) attCTGTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAgg < 1:33376504/68‑1 (MQ=255) attCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGC‑TGACCTGATTGTTAAAgg < 1:28704712/68‑1 (MQ=14) attCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGC‑TGACCTGATTGTTAAAgg < 1:30273296/68‑1 (MQ=14) attCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGC‑TGACCTGATTGTTAAAgg < 1:14811002/68‑1 (MQ=14) attCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGC‑TGACCTGATTGTTAAAgg < 1:13553184/68‑1 (MQ=14) attCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAgg < 1:39174069/68‑1 (MQ=255) attCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAgg < 1:3944411/68‑1 (MQ=255) attCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAgg < 1:20115036/68‑1 (MQ=255) attCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAgg < 1:37736472/68‑1 (MQ=255) attCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAgg < 1:23460855/68‑1 (MQ=255) attCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAgg < 1:25554328/68‑1 (MQ=255) attCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAgg < 1:33656338/68‑1 (MQ=255) attCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAgg < 1:32340086/68‑1 (MQ=255) attCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAgg < 1:31366841/68‑1 (MQ=255) attCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAgg < 1:11441118/68‑1 (MQ=255) tctctcCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGC‑TGACCTGATTGTTAAAGGTa > 1:2917634/1‑68 (MQ=11) tctctcCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGC‑TGACCTGATTGTTAAAGGTa > 1:13808309/1‑68 (MQ=11) tctctcCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGC‑TGACCTGATTGTTAAAGGTa > 1:34749006/1‑68 (MQ=11) tctctcCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGC‑TGACCTGATTGTTAAAGGTa > 1:718044/1‑68 (MQ=11) tctctcCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGC‑TGACCTGATTGTTAAAGGTa > 1:39546708/1‑68 (MQ=11) tctctcCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGC‑TGACCTGATTGTTAAAGGTa > 1:36772529/1‑68 (MQ=11) tctctcCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGC‑TGACCTGATTGTTAAAGGTa > 1:5474546/1‑68 (MQ=11) tctctcCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAGGTa > 1:8946777/1‑68 (MQ=255) tctctcCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAGGTa > 1:10021107/1‑68 (MQ=255) tctctcCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAGGTa > 1:14163073/1‑68 (MQ=255) tctctcCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAGGTa > 1:25413835/1‑68 (MQ=255) tctctcCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAGGTa > 1:27938861/1‑68 (MQ=255) tctcCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAGGTATg > 1:27715879/1‑68 (MQ=255) ccGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAGGTATGGaa > 1:30440419/1‑68 (MQ=255) ccGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAGGTATGGaa > 1:37908238/1‑68 (MQ=255) gCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAGGTATGGAAgg < 1:8631323/68‑1 (MQ=255) gCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAGGTATGGAAgg < 1:8189306/68‑1 (MQ=255) cTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAGGTATGGAAGgc > 1:7394266/1‑68 (MQ=255) tGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAGGTATGGAAGgc > 1:6809873/1‑67 (MQ=255) gatgatGCTGCGCCACATGGTTTGGA‑CGAAACGGCGTGCCTTAA‑TGTTAAAGGTATTGAAGGCCCaa > 1:1631780/1‑67 (MQ=9) tgatgCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAGGTATGGAAGGCGCAATc > 1:17990475/1‑68 (MQ=255) tgatgCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAGGTATGGAAGGCGCAATc > 1:27270001/1‑68 (MQ=255) tgctgcGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAAc > 1:34432320/1‑68 (MQ=255) tgctgcGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAAc > 1:3104627/1‑68 (MQ=255) gctgcGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAAc > 1:15723313/1‑67 (MQ=255) ctgcGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAAcgc > 1:6289246/1‑68 (MQ=255) ctgcGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAAcgc > 1:16755970/1‑68 (MQ=255) tgcGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAAcgcg < 1:17685873/68‑1 (MQ=255) gcCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGaaa > 1:21192740/1‑68 (MQ=255) cacaTGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGaaaa < 1:10470622/67‑1 (MQ=255) cacaTGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAAc < 1:22879549/68‑1 (MQ=255) cacaTGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAAc < 1:28340200/68‑1 (MQ=255) acaTGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAAcc < 1:26690466/68‑1 (MQ=255) | AATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGC‑TGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCG > CP009273/1191609‑1191743 |
| 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: ‑ |