| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 4,292,471 | 0 | A | G | 52.9% | 14.3 / 21.9 | 17 | F142S (TTC→TCC) | mdtO | multidrug efflux transporter permease subunit MdtO |
| Reads supporting (aligned to +/- strand): ref base A (0/8); new base G (9/0); total (9/8) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.11e-05 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.10e-04 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATAGCGAC‑AATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTGCGCATCAAAAACATGCAGCC > NZ_CP009273/4292404‑4292553 | gagGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGGAGGGTTTCCCCTAAAAAACGAc > 1:83452/1‑90 (MQ=255)gagGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGGAGGGTTGCCCGTAAAAAACGAc > 2:24827/1‑90 (MQ=255) ggCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGGAGGGTTGGCCCGAAAAAACGAC‑aa > 2:372521/1‑90 (MQ=255) caacaaCGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGGAGGGTTGCCCGTAAAAAGCGAC‑AATgg > 1:234516/1‑90 (MQ=255) ccacAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGGAGGGTTTCCCCTAAAAAACGAC‑AAAAGCGGCGGCGgaaaa > 2:405603/1‑90 (MQ=255) acaGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGGAGGGTTGCCCGGAAAAAACGACAAATGGC‑ACCGCGGAAAAGa > 2:194587/1‑90 (MQ=255) aGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATAGCGAC‑AATGGCGACGGCGAAAAAGAcc < 1:24827/90‑1 (MQ=255) gCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGGAGGTTTGCCCGGAAAAAACGAC‑AATGGGGGCGGCGGAAAAAACCa > 1:261478/1‑90 (MQ=255) ttAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATAGCGAC‑AATGGCGACGGCGAAAAAGACCAGcc < 2:354793/90‑1 (MQ=255) aaGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGGAGGGTTGCCCCGAAATAGCGAC‑AATGGGGACGGCGGAAAAAGCCATcccc > 1:4546/1‑90 (MQ=255) aaGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATAGCGAC‑AATGGCGACGGCGAAAAAGACCAGcccc < 1:143206/90‑1 (MQ=255) cTTCCGGATAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATAGCGAC‑AATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTgc < 2:261478/90‑1 (MQ=255) gTCGAGCATGGCGGGGGAGGGTTGGCCGTAAAAAGCGAC‑AAAGGGGGCGGCGAAAAAAAACAGCCCCCAACGGGGGGTGGGGATCaaaaa > 2:188874/1‑90 (MQ=255) gCATGGCGGGGAAGGTTTGCCCGTAAATAGCGAC‑AATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTGCGCATCAAAAACATGc < 1:359624/90‑1 (MQ=255) tGGCGGGGAAGGTTTGCCCGTAAATAGCGAC‑AATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTGCGCATCAAAAACATGCAGc < 2:16768/90‑1 (MQ=255) ggCGGGGAAGGTTTGCCCGTAAATAGCGAC‑AATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTGCGCATCAAAAACATGCAGcc < 1:293848/90‑1 (MQ=255) ggCGGGGAAGGTTTGCCCGTAAATAGCGAC‑AATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTGCGCATCAAAAACATGCAGcc < 1:405603/90‑1 (MQ=255) | GAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATAGCGAC‑AATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTGCGCATCAAAAACATGCAGCC > NZ_CP009273/4292404‑4292553 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |