| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | NC_000913 | 1,189,927 | A→G | L174S (TTA→TCA) | phoP ← | response regulator in two‑component regulatory system with PhoQ |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 1,189,927 | 0 | A | G | 98.7% | 278.5 / NA | 77 | L174S (TTA→TCA) | phoP | response regulator in two‑component regulatory system with PhoQ |
| Reads supporting (aligned to +/- strand): ref base A (0/0); major base G (37/39); minor base C (0/1); total (37/40) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
GCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGG > NC_000913/1189803‑1190058 | gCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTg < 1:653369/139‑1 (MQ=255)gCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTg > 2:425567/1‑139 (MQ=255)gCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTg > 2:863400/1‑139 (MQ=255) ccGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGa < 1:847976/139‑1 (MQ=255) gAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCAc > 2:1364773/1‑139 (MQ=255) aTCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCattat > 2:1270210/1‑139 (MQ=255) tCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCattatt < 1:1364773/139‑1 (MQ=255) cttGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTAt > 1:343678/1‑139 (MQ=255) gggATATTGTGCCTGAATTTTTTTGCGCAGACGTCTCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTACCATTATTGCGTATCAAc < 1:863400/139‑1 (MQ=255) gggATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAAc < 2:343678/139‑1 (MQ=255) gggATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAAc < 2:6384/139‑1 (MQ=255) gggATATTGTGCCTGAATTTTCGTCCGCAGTCGCCCCATCAGAACATCAATGGTATGGCTATCCCGCAGCTCCGCATCCGGATAGAGTGGTAACAGTCACGAAGCTTTTCTGAGCACTTGTCCATTATTGCGTATCAAc < 2:795726/139‑1 (MQ=255) ggATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACg < 1:990880/100‑1 (MQ=255) ggATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACg > 2:990880/1‑100 (MQ=255) tatTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGttt > 2:890235/1‑139 (MQ=255) tatTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGttt < 2:653063/139‑1 (MQ=255) gtgCCTGAATTGTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCat < 2:983797/139‑1 (MQ=255) ccTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGt < 1:951256/122‑1 (MQ=255) ccTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGt > 2:951256/1‑122 (MQ=255) ccTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGCTTCCataat > 1:476160/1‑139 (MQ=255) cTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCatta > 1:770352/1‑115 (MQ=255) cTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCatta < 2:770352/115‑1 (MQ=255) cTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAAc > 1:654148/1‑127 (MQ=255) cTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAAc < 2:654148/127‑1 (MQ=255) cTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGttt < 2:441334/131‑1 (MQ=255) cTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGttt > 1:441334/1‑131 (MQ=255) cTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCataata < 2:477731/139‑1 (MQ=255) aaTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAgtg > 2:600552/1‑139 (MQ=255) aaTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAg < 1:1212961/137‑1 (MQ=255) aaTTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAg > 2:1212961/1‑137 (MQ=255) aCGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGAc < 1:853933/84‑1 (MQ=255) aCGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAAc < 2:46651/109‑1 (MQ=255) aCGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAAc > 1:46651/1‑109 (MQ=255) aCGTCCCATCAGTACATCAATGGTATGACTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGAc > 2:853933/1‑84 (MQ=255) ccATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGt > 1:490752/1‑106 (MQ=255) ccATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGt < 2:490752/106‑1 (MQ=255) aGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCattatt < 1:746372/89‑1 (MQ=255) aGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCattatt > 2:746372/1‑89 (MQ=255) aGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAAc > 2:1311929/1‑99 (MQ=255) aGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAAc < 1:1311929/99‑1 (MQ=255) tACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACt > 2:523273/1‑139 (MQ=255) tCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGt < 1:890235/139‑1 (MQ=255) cAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTTCGTATCAACGTTTCCATAATAGTGTATTCGAACGCgg > 1:350842/1‑120 (MQ=255) cAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCgg < 2:350842/120‑1 (MQ=255) cAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGt > 1:784816/1‑138 (MQ=255) cAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGt < 2:784816/138‑1 (MQ=255) aaTGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCa < 1:1270210/139‑1 (MQ=255) aTGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCa < 2:1047129/75‑1 (MQ=255) aTGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCa > 1:1047129/1‑75 (MQ=255) tGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGtt > 1:358172/1‑92 (MQ=255) tGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGtt < 2:358172/92‑1 (MQ=255) tGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCAtt > 2:104638/1‑139 (MQ=255) ggTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTa < 1:104638/139‑1 (MQ=255) ggTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGCTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTa < 2:476160/139‑1 (MQ=255) gTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGt < 1:649565/89‑1 (MQ=255) gTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGt > 2:649565/1‑89 (MQ=255) gTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCgg > 2:1170952/1‑115 (MQ=255) gTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCgg < 1:1170952/115‑1 (MQ=255) gTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTaa > 1:141042/1‑139 (MQ=255) cTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTc > 1:856856/1‑125 (MQ=255) cTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTc < 2:856856/125‑1 (MQ=255) ccGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGc < 1:1005194/59‑1 (MQ=255) ccGCAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGc > 2:1005194/1‑59 (MQ=255) cAGCTCCGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACgg < 1:425567/139‑1 (MQ=255) cGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCa > 2:1096265/1‑130 (MQ=255) cGCATCCGGATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCa < 1:1096265/130‑1 (MQ=255) aTCCGGATAGAGTTGTATCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGAATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCgagagaga < 1:515305/139‑1 (MQ=255) gATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAAc < 2:608105/59‑1 (MQ=255) gATAGAGTTGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAAc > 1:608105/1‑59 (MQ=255) ttGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGttt > 2:1382725/1‑56 (MQ=255) ttGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGttt < 1:1382725/56‑1 (MQ=255) ttGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGaa < 2:475544/75‑1 (MQ=255) ttGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGaa > 1:475544/1‑75 (MQ=255) ttGGAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAAc > 2:624840/1‑139 (MQ=255) gAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAAc < 2:767142/49‑1 (MQ=255) gAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAAc > 1:767142/1‑49 (MQ=255) gAGCATTGACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACggg > 1:1244725/1‑139 (MQ=255) | GCCGCGAACGGTGGTAATCACTTCTTGGGGATATTGTGCCTGAATTTTTTTGCGCAGACGTCCCATCAGTACATCAATGGTATGGCTTTCCCGCAGCTCCGCATCCGGATAGAGTTGGAGCATTAACGAATCTTTGCTGACCACTTTGCCATTATTGCGTATCAACGTTTCCATAATAGTGTATTCGAACGCGGTCAGTTTGATCACTTCGTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGG > NC_000913/1189803‑1190058 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |