| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 4,558,329 | 0 | C | A | 60.0% | ‑1.3 / 18.9 | 15 | R3L (CGT→CTT) | mdtM | multidrug efflux MFS transporter MdtM |
| Reads supporting (aligned to +/- strand): ref base C (0/6); new base A (9/0); total (9/6) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 2.00e-04 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.38e-03 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
ATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGT‑CCGGAG‑AACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAA > NZ_CP009273/4558247‑4558406 | aTCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCAt < 1:343361/90‑1 (MQ=255) gTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGCATaaca > 2:144802/1‑90 (MQ=255) aCGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGCATAAAAAAAAACTCCt > 2:60510/1‑90 (MQ=255) gcaAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAAGGGCATAAAAAAAAAAACCCTGT‑cc > 1:103139/1‑90 (MQ=255) aaaGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGT‑CCgg < 2:345554/90‑1 (MQ=255) aaaGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAAAGGCAAAACAAAAAAAACCTGTT‑CCgg > 1:352318/1‑90 (MQ=255) aTCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGGATAAAAAAAAAATCCTTGT‑CCGGGG‑AAACCCCACgg > 1:108594/1‑90 (MQ=255) aTCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAATGGGATAAAAAAAAACCCCTTTT‑CCGGAG‑AAACCCCACgg > 1:107127/1‑90 (MQ=255) aaCGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAAAGGGATAAAAAAAAAACCCTTTT‑CCGGGGAAACCCCAAGgggg > 1:498035/1‑90 (MQ=255) aCGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGT‑CCGGAG‑AACCCCAACGGGGaa < 2:424154/90‑1 (MQ=255) aCGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAAGGGCATAAAAAAAAAAACCTTTT‑CCGGAG‑GAACCCAACggggga > 1:426857/1‑88 (MQ=255) cATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAAACTGGCGCAACAAAAAACCCCTTTTCCCGGGA‑AACCCCACCGGGGaaacc > 2:372868/1‑88 (MQ=255) aTCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGT‑CCGGAG‑AACCCCAACGGGGAAAACGa < 1:38070/90‑1 (MQ=255) aTCGCGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGT‑CCGGAG‑AACCCCAACGGGGAAAACGa < 1:400340/90‑1 (MQ=255) cGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGT‑CCGGAG‑AACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGaaa < 1:169505/90‑1 (MQ=255) | ATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGT‑CCGGAG‑AACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAA > NZ_CP009273/4558247‑4558406 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |