| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 4,558,329 | 0 | C | A | 57.1% | ‑4.2 / 14.8 | 14 | R3L (CGT→CTT) | mdtM | multidrug efflux MFS transporter MdtM |
| Reads supporting (aligned to +/- strand): ref base C (0/6); new base A (8/0); total (8/6) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 3.33e-04 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.55e-03 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAG‑AACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAA > NZ_CP009273/4558251‑4558418 | gTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAATGGCATaaaa > 2:280521/1‑88 (MQ=255) cAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAacaaacaa < 2:310574/90‑1 (MQ=255) gATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAATGGCAaaaaaaaaaaac > 1:75161/1‑88 (MQ=255) aTACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGCATAAAAAAAAACTCCTTGTCCGGAG‑AAcc > 2:257711/1‑90 (MQ=255) aTACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAATGGGATAAAAAAAAAACCCCTTTTCGGAG‑aaac > 1:411002/1‑88 (MQ=255) aTCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGGATAAAAAAAAACTCCTTTTTCGGGG‑AACCCCAACgg > 1:215793/1‑90 (MQ=255) aCGCCATCGGAAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGGGGCATAACAAAAAAAACCCTGTCCGGGG‑AACCCCAACGGGGaa > 1:455435/1‑90 (MQ=255) ccATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAG‑AACCCCAACGGGGAAAAc < 1:45316/90‑1 (MQ=255) cATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGCATAAAAAAAAAACCCTTTTCCGGGG‑AACCCCCAAGGGGaaaaaa > 1:32112/1‑88 (MQ=255) aTCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAG‑AACCCCAACGGGGAAAACGa < 1:537676/90‑1 (MQ=255) tCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAAGGGCATAACAAAAAACCCCCTTTCCGGGGAAACCCCAAGGGGGaaaagaa > 1:379470/1‑87 (MQ=255) gggTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAG‑AACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAg < 1:225977/90‑1 (MQ=255) gggTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAG‑AACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAg < 2:164188/90‑1 (MQ=255) gTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAG‑AACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGc < 2:215793/90‑1 (MQ=255) cGTGGCATAACAAACAACTCCTTGTCCGGAG‑AACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGaa < 1:222958/90‑1 (MQ=255) | GTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAG‑AACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAA > NZ_CP009273/4558251‑4558418 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |