| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_000913 | 3,535,403 | C→A | 41.2% | D156Y (GAT→TAT) | envZ ← | sensory histidine kinase EnvZ |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 3,535,403 | 0 | C | A | 41.2% | 91.9 / 128.0 | 80 | D156Y (GAT→TAT) | envZ | sensory histidine kinase EnvZ |
| Reads supporting (aligned to +/- strand): ref base C (32/15); new base A (17/16); total (49/31) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.65e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.52e-01 | |||||||||||
TCGACCAACGGTCGGTTCTGGATACGAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAA > NC_000913/3535306‑3535498 | tCGACCAACGGTCGGTTCTGGATACGAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCg < 2:1961325/99‑1 (MQ=255) aCCAACGGTCGGTTCTGGATACGAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATAGccc > 1:905822/1‑99 (MQ=255) ccAACAGTCGGTTCTGGATACGAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCt < 1:2083796/99‑1 (MQ=255) aaCGGTCGGTTCTGGATACGAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATAGCCCtga < 1:947369/99‑1 (MQ=255) aaCGGTCGGTTCTGGATACGAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATAGCCCtga > 1:187639/1‑99 (MQ=255) tcggtTCTGGATACGAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATAGCCCTGATGAAt < 2:1729983/99‑1 (MQ=255) cggtTCTGGATACGAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATAGCCCTGATGAAtt < 2:2292236/99‑1 (MQ=255) gtTCTGGATACGAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATAGCCCTGATGAATTTc > 2:2212791/1‑99 (MQ=255) ttCTGGATACGAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATAGCCCTGATGAATTTCg > 2:15065/1‑99 (MQ=255) tCTGGATACGAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCgg > 1:1861472/1‑99 (MQ=255) gAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATAGCCCTGATGAATTTCGGTCAGCGGCa < 2:1942633/99‑1 (MQ=255) aaTAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCAc < 1:1597093/99‑1 (MQ=255) aTAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCAcg > 1:1704906/1‑99 (MQ=255) aaaCAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATAGCCCTGATGAATTTCGGTCAGCGGCAcgcg < 2:1978731/99‑1 (MQ=255) aaaCAGCCACGCCCCGCATATCGCCAATAGCATAATCGCCAGCGTATAGCGGGACAGCGGAGAGAAATCGCCCGGATGAAGTTCGGTCAGCGGCAcgcg < 2:2276066/99‑1 (MQ=255) cAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTAc > 2:1428748/1‑99 (MQ=255) cAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATAGCCCTGATGAATTTCGGTCAGCGGCACGCGTAc > 2:362785/1‑99 (MQ=255) cAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATAGCCCTGATGAATTTCGGTCAGCGGCACGCGTAc < 2:2178812/99‑1 (MQ=255) aGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATAGCCCTGATGAATTTCGGTCAGCGGCACGCGTAcc < 1:601609/99‑1 (MQ=255) gCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATAGCCCTGATGAATTTCGGTCAGCGGCACGCGTAccc > 2:2055473/1‑99 (MQ=255) ccACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCa > 2:1826349/1‑99 (MQ=255) aCGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGa < 1:1434803/99‑1 (MQ=255) cGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATAGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGat > 1:1860420/1‑99 (MQ=255) cccGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATAtt > 1:1362145/1‑99 (MQ=255) ccGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTg > 2:335546/1‑99 (MQ=255) ccGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATAGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTg > 1:1825955/1‑99 (MQ=255) cGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTgg < 1:1498135/99‑1 (MQ=255) ccTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGc > 2:421652/1‑99 (MQ=255) cTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGAAATTGGGCg > 1:214797/1‑99 (MQ=255) tATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGa > 2:2083390/1‑99 (MQ=255) aTCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGAc > 2:1508730/1‑99 (MQ=255) tCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACa < 2:2072998/99‑1 (MQ=255) tCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACa > 2:1121477/1‑99 (MQ=255) tCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACa > 1:928402/1‑99 (MQ=255) tCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACa > 1:1950082/1‑99 (MQ=255) tCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATAGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACa > 1:1181125/1‑99 (MQ=255) cAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATAGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCa < 2:1233225/99‑1 (MQ=255) tAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGt > 1:1423889/1‑99 (MQ=255) gCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATAGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGttt > 2:1409793/1‑99 (MQ=255) gCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATAGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGttt < 1:1662002/99‑1 (MQ=255) aTAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTc > 2:2316276/1‑99 (MQ=255) tAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCa > 1:1292249/1‑99 (MQ=255) tAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCa > 2:755045/1‑99 (MQ=255) tAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCa > 2:1908672/1‑99 (MQ=255) tAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATAGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCa > 1:2189121/1‑99 (MQ=255) tAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATAGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCa < 2:1196115/99‑1 (MQ=255) aTCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGc < 2:395743/99‑1 (MQ=255) tCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGcc > 1:730174/1‑99 (MQ=255) tCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGcc > 1:651161/1‑99 (MQ=255) gCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAg > 2:454466/1‑99 (MQ=255) ccAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAga < 1:2127978/99‑1 (MQ=255) gCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAgacga > 2:860064/1‑99 (MQ=255) cGTATAGCGGAACAGCGGAGAGAAATAGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAgacgac < 2:1837377/99‑1 (MQ=255) gTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACa < 1:1830981/99‑1 (MQ=255) gTATAGCGGAACAGCGGAGAGAAATAGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACa > 1:1932204/1‑99 (MQ=255) tataGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAg > 1:217611/1‑99 (MQ=255) tataGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAg > 1:92692/1‑99 (MQ=255) ataGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAgg > 2:418287/1‑99 (MQ=255) taGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGc < 2:739239/99‑1 (MQ=255) taGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGc > 1:1206877/1‑99 (MQ=255) taGCGGAACAGCGGAGAGAAATAGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGc < 2:1159052/99‑1 (MQ=255) taGCGGAACAGCGGAGAGAAATAGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGc < 2:1894417/99‑1 (MQ=255) ggAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAAc > 2:1055899/1‑99 (MQ=255) gAACAGCGGAGAGAAATAGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACt < 1:206625/99‑1 (MQ=255) aaCAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACtt > 1:1170138/1‑99 (MQ=255) aCAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACttt < 2:2162983/99‑1 (MQ=255) aCAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACttt < 1:1038071/99‑1 (MQ=255) aCAGCGGAGAGAAATAGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACttt > 1:1366500/1‑99 (MQ=255) cAGCGGAGAGAAATAGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACtttt > 1:2313729/1‑99 (MQ=255) gCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTttgt > 1:2328390/1‑99 (MQ=255) gCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTttgt > 1:1427011/1‑99 (MQ=255) ggAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTttgttg > 2:329924/1‑99 (MQ=255) agagaAATAGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGAc > 2:1656508/1‑99 (MQ=255) gagaAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGAcc > 1:1859255/1‑99 (MQ=255) gagaAATAGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGAcc > 2:1924468/1‑99 (MQ=255) agaAATAGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCt < 2:238162/99‑1 (MQ=255) gaAATAGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTc < 1:375858/99‑1 (MQ=255) aaaTAGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCa > 1:1951131/1‑99 (MQ=255) aaTCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCaa < 2:1009026/99‑1 (MQ=255) aaTCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCaa < 1:276039/99‑1 (MQ=255) | TCGACCAACGGTCGGTTCTGGATACGAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAA > NC_000913/3535306‑3535498 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |