Read alignment evidence... | |||||||||||
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seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
* | NC_000913 | 4,568,512 | 0 | C | A | 26.1% | 121.2 / 18.7 | 46 | R3L (CGT→CTT) | mdtM | multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter |
Reads supporting (aligned to +/- strand): ref base C (3/31); new base A (12/0); total (15/31) | |||||||||||
Fisher's exact test for biased strand distribution p-value = 1.17e-08 | |||||||||||
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
Rejected as consensus: Frequency below/above cutoff threshold. |
GACATCGGCATTAAAATCACGTACCACATTAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTC‑CGGAGAACCCCAA‑CGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACGAGACTGCAAATGTACTGAATTTCATGTAATCAACCACAC > NC_000913/4568379‑4568648 | gACATCGGCATTAAAATCACGTACCACATTAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCa < 2:1093112/140‑1 (MQ=255) gACATCGGCATTAAAATCACGTACCACATTAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCa < 2:805293/140‑1 (MQ=255) aTCGGCATTAAAATCACGTACCACATTAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATaa < 2:289571/140‑1 (MQ=255) tCGGCATTAAAATCACGTACCACATTAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAAAGTGGCATaaa > 2:274582/1‑139 (MQ=255) gCATTAAAATCACGTACCACATTAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGGAAAAAAAGCGGCATaaaaaa > 2:399702/1‑140 (MQ=255) gCATTAAAATCACGTACCACATTAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAAGGGCAAaacaaa > 2:758602/1‑140 (MQ=255) aCGTACCACATTAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGt < 1:758602/140‑1 (MQ=255) aCGTACCACATTAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAAAGTGGCATAACAAACAACTCCTTGt > 1:88404/1‑140 (MQ=255) cGTACCACATTAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTc < 1:686151/140‑1 (MQ=255) tACCACATTAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTC‑Cg < 1:189623/140‑1 (MQ=255) tACCACATTAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTC‑Cg < 1:1156058/140‑1 (MQ=255) aaTGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAAAGGCATAAAAAAAAACTCCCTTTC‑CGGAGGAaccc > 2:686151/1‑140 (MQ=255) tGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAAAGTGGCATAACAAACAACTCCTTGTC‑CGGAGAACCCCaa > 1:831508/1‑140 (MQ=255) tGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGAGGCAAAAAAAAAAAACCCCTGTC‑CCGGGAAacccca > 2:447147/1‑138 (MQ=255) aTCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTC‑CGGAGAACCCCAA‑Cg > 1:918883/1‑140 (MQ=255) aTCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGCATAAAAAAAAACTACTTTTT‑CGGGGAAACCCAA‑Cg > 1:221023/1‑140 (MQ=255) cccAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAAAGTGGCATAACAAAAAACTCCTTGTC‑CGGAGAACCCCCA‑Cggg > 1:164653/1‑140 (MQ=255) cccAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAAAAGGGCATAAAAAAAAACACCCTTTC‑CGGAGAACCCCCA‑Aggg > 2:33005/1‑140 (MQ=255) cccAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGCATAACAAAAAACTCCTTGTC‑CGGAGAACCCCCA‑Cggg > 2:692078/1‑140 (MQ=255) ccAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAAAGTGGCATAACAAAAAACTCCTTGTC‑CGGGGAACCCCAA‑Cgggg > 1:105620/1‑140 (MQ=255) ccAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAACGTGGCATAAAAAACAAATCCTTGTC‑CGGAGAAACCCAA‑Cgggg > 1:657240/1‑140 (MQ=255) ccAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAACCTGGCATAAAAAAAAAATCCCTGTC‑CGGAGAACCCCCA‑Caggg > 2:709108/1‑140 (MQ=255) ccAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGAGGCAAAACAAACAAATCCTTTTC‑CGGGGGACCCCAA‑Cgggg > 2:852209/1‑140 (MQ=255) aGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAACGTGGCATAACAAAAAACTCCCTTTC‑CGGAGAACCCCAA‑CGGGGaa > 1:415259/1‑140 (MQ=255) aGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGGATAAAAAACAAACCCTTGTC‑CGGGGAACCCCCA‑CGGGGaa > 2:5517/1‑140 (MQ=255) tGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTC‑CGGAGAACCCCAA‑CGGGGAAAACg < 1:74876/140‑1 (MQ=255) cggATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTC‑CGGAGAACCCCAA‑CGGGGAAAACg < 2:135421/139‑1 (MQ=255) gATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAACTGGCGTAAAAAACAAAACCTTGCCACGAAGAACCCCAC‑CGAGGaaacgga > 2:580659/1‑136 (MQ=255) aTCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAAAGCGGCCTAACAAAAAAAACCCTGTC‑CGGAGAACCCCCA‑CGGGGGAAACGaaa > 2:367644/1‑140 (MQ=255) aTCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGGATAAAAAAAAACTCCTTGTC‑CGGGGAACCCCAA‑CGGGGGAAAAGaaa > 2:74876/1‑140 (MQ=255) agagCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATTACGGTTAAAAAAACGGGGCATAACAAACAACTCCTTGGC‑CGGAGAACCCCAA‑CGGGGAAAACGAAATTc < 2:572784/140‑1 (MQ=255) aGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTC‑CGGAGAACCCCAA‑CGGGGAAAACGAAATTc < 1:897630/140‑1 (MQ=255) aTCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAAAATGGCATAAAAAAAAACTCCCTTTC‑CGGAGAAACCCAACCGGGGAAAAGAAAAttaa > 2:792140/1‑138 (MQ=255) tCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGTTAAAAAAACGAGGCACCAAAAAAAAAACCTTTTC‑CCGAAAACCCCAA‑CGGGGGAAAAAAAAATCAAAACCg > 2:917526/1‑140 (MQ=255) tCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGAGGCATAACAAACAACTCCTTTTC‑CGGAGAACCCCAA‑CGGGGAAAAAGAAAATCAATAACg > 1:264513/1‑140 (MQ=255) aGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACCAGGCGTAAAAAAAAAATCCTCGTT‑CGGGGAAACCCAA‑CAGGGGAAACAAAATTTAAAATCGTctct > 2:417640/1‑137 (MQ=255) gATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTC‑CGGAGAACCCCAA‑CGGGGAAAACGAAATTCAATACCGTCGGTa < 1:792140/140‑1 (MQ=255) aTACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTC‑CGGAGAACCCCAA‑CGGGGAAAACGAAATTCAATACCGTCGGTaa < 2:1128812/140‑1 (MQ=255) aTACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGCATAACAAAAAACTCCTTGTC‑CGGAGAAACCCAA‑CGGGGGAAAAGAAAATCAATACCGTCGGTaa > 2:623939/1‑140 (MQ=255) tACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTC‑CGGAGAACCCCAA‑CGGGGAAAACGAAATTCAATACCGTCGGTAAt < 1:1079515/140‑1 (MQ=255) cGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAACTGGCATAACAAAAAAATCCCTTTT‑CGGAGAACCCCAA‑AGGGGGAAAAGAAAATCAATACCCTCGGTAATGa > 2:907210/1‑140 (MQ=255) cGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAAAGGGATAAAAAAAAACTCCTTTTC‑CCGGGAACCCCCA‑AGGGGGAAAAGAAAATCAAAACCCTCGGGAAAGa > 2:514938/1‑140 (MQ=255) agcaAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGCATAACAAAAAACACCTTGTC‑CGGGGAAACCCCA‑CGGGGAAAACGAAAATCAAAACCGTCGGTAAAGACGa > 2:730750/1‑140 (MQ=255) caAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTC‑CGGAGAACCCCAA‑CGGGGAAAACGAAATTCAATACCGTCGGTAATGACGaaa < 2:88404/140‑1 (MQ=255) caAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTC‑CGGAGAACCCCAA‑CGGGGAAAACGAAATTCAATACCGTCGGTAATGACGaaa < 1:399702/140‑1 (MQ=255) tCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTC‑CGGAGAACCCCAA‑CGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAg < 1:130708/140‑1 (MQ=255) tCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTC‑CGGAGAACCCCAA‑CGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAg < 1:271209/140‑1 (MQ=255) tCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTC‑CGGAGAACCCCAA‑CGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAg < 1:417640/140‑1 (MQ=255) tCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTC‑CGGAGAACCCCAA‑CGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAg < 2:579167/140‑1 (MQ=255) cAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTC‑CGGAGAACCCCAA‑CGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTgag < 1:730750/140‑1 (MQ=255) cAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTC‑CGGAGAACCCCAA‑CGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTgag < 2:831508/140‑1 (MQ=255) aaCGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAAAGGGGCATAACAAACAACTCCTTGTC‑CGGAGAAACCCAA‑CGGGGGAAAAGAAAATCAATACCGTCGGTAATGACGAAAAGCAGGGGAGAAGGGCa > 1:311047/1‑140 (MQ=255) gCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTC‑CGGAGAACCCCAA‑CGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACg < 2:72210/140‑1 (MQ=255) gagacaggAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTC‑CGGAGAACCCCAA‑CGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACga < 1:25059/134‑1 (MQ=255) tCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTC‑CGGAGAACCCCAA‑CGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACGAGAc < 2:264513/140‑1 (MQ=255) tCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTC‑CGGAGAACCCCAA‑CGGGGAAAACAAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACGAGAc < 2:48203/140‑1 (MQ=255) aaaaaCAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTC‑CGGAGAACCCCAA‑CGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACGAGACTGCaa < 2:221023/140‑1 (MQ=255) aaaaaCAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTC‑CGGAGAACCCCAA‑CGGGGAAAACGAAATTCAATACCGGCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACGAGACTGCaa < 1:33005/140‑1 (MQ=255) gTGGCGGCATGGCGGGTAAAAAAAAGGGGCATAAAAAAAAAATCCTTGTC‑CGGAGAACCCCAA‑CGGGGAAAAAGAAAATCAAAACCGTCGGGAAAGAAGAAAAGCAGGGGAGAAGGGGAAAGAGACTGCAAATGTACtta > 2:119707/1‑138 (MQ=255) ggcATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTC‑CGGAGAACCCCAA‑CGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACGAGACTGCAAATGTACTGAATTTc < 1:1136895/140‑1 (MQ=255) aTGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTC‑CGGAGAACCCCAA‑CGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACGAGACTGCAAATGTCCTGAATTTCATg < 2:1128101/140‑1 (MQ=255) aaaaaaCGTGGCATAACAAACAACTCCTTGTC‑CGGAGAACCCCAA‑CGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACGAGACTGCAAATGTACTGAATTTCATGTAATCAACca < 1:390686/140‑1 (MQ=255) aaaCGTGGCATAACAAACAACTCCTTGTC‑CGGAGAACCCCAA‑CGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACGAGACTGCAAATGTACTGAATTTCATGTAATCAACCacac < 2:105620/140‑1 (MQ=255) | GACATCGGCATTAAAATCACGTACCACATTAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTC‑CGGAGAACCCCAA‑CGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACGAGACTGCAAATGTACTGAATTTCATGTAATCAACCACAC > NC_000913/4568379‑4568648 |
Alignment Legend |
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Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |