| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 595,032 | 0 | T | G | 55.2% | 11.2 / 36.2 | 29 | V288G (GTG→GGG) | cusA | Cu(+)/Ag(+) efflux RND transporter permease subunit CusA |
| Reads supporting (aligned to +/- strand): ref base T (1/12); new base G (16/0); total (17/12) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 2.51e-07 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.49e-04 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
TGCGCGATGTTGCGAAGGTCCAGATTGGCCCGGAGATGCGCCGGGGCATTGCCGAACTAAACGGCGAAGGCGAAGTGGCGGGCGGGGTGGTGATCCTGC‑GATCCGGCAAAAACGCCCGAGAAGTGATCGCCGCCGTGAAGGACAAACTGGAAACGCTGAAAAGTAGTC > NZ_CP009273/594945‑595112 | tGCGCGATGTTGCGAAGGTCCAGATTGGCCCGGAGATGCGCCGGGGCATTGCCGAACTAAACGGCGAAGGCGAAGTGGCGgggggggggg > 2:1250345/1‑90 (MQ=255) gcgcGATGTTGCGAAGGTCCAGATTGGCCCGGAGATGCGCCGGGGCATTGCCGAACTAAACGGCGAAGGCGAAGTGGCGggggggggggg > 1:790283/1‑89 (MQ=255) gcgcGATGTTGCGAAGGTCCAGATTGGCCCGGAGATGCGCCGGGGCATTGCCGAACTAAACGGCGAAGGCGAAGTGGCGGGCGGggtggt < 2:828919/90‑1 (MQ=255) gcgcGATGTTGCGAAGGTCCAGATTGGCCCGGAGATGCGCCGGGGCATTGCCGAACTAAACGGCGAAGGCGAAGTGGCGGGCGGggtggt < 2:233705/90‑1 (MQ=255) ggTCCAGATTGGCCCGGAGATGCGCCGGGGCATTGCCGAACTAAACGGCGAAGGCGAAGTGGCGGGGGGGGGGGGGGTCCTGC‑GATCCgg > 2:1565486/1‑90 (MQ=255) ccAGATTGGCCCGGAGATGCGCCGGGGCATTGCCGAACTAAACGGCGAAGGCGAAGTGGCGGGGGGGGGGGGGGTCCTGC‑GGTCCGGcga > 1:697525/1‑88 (MQ=255) acaggCCCGGAGATGCGCCGGGGCATTGCCGAACTAAACGGCGAAGGCGAAGTGGCGGGCGGGGTGGTGATCCTGC‑GATCCGGCAAAAAc < 1:1964854/87‑1 (MQ=255) aTTGGCCCGGAGATGCGCCGGGGCATTGCCGAACTAAACGGCGAAGGCGAAGTGGCGGGCGGGGTGGTGATCCTGC‑GATCCGGCAAAAAc < 1:1566887/90‑1 (MQ=255) aTTGGCCCGGAGATGCGCCGGGGCATTGCCGAACTAAACGGCGAAGGCGAAGTGGCGGGCGGGGTGGTGATCCTGC‑GATCCGGCAAAAAc < 2:142239/90‑1 (MQ=255) aTTGGCCCGGAGATGCGCCGGGGCATTGCCGAACTAAACGGCGAAGGCGAAGTGGCGGGCGGGGTGGTGATCCTGC‑GATCCGGCAAAAAc < 1:991913/90‑1 (MQ=255) ggcgcGGAGATGCGCCGGGGCATTGCCGAACTAAACGGCGAAGGCGAAGTGGCGGGCGGGGGGGGGATCCTGC‑GATCCGGCAAAAACGcc > 2:793140/5‑90 (MQ=255) ggCCCGGAGATGCGCCGGGGCATTGCCGAACTAAACGGCGAAGGCGAAGTGGCGGGGGGGGGGGGGGTGCTGCGGTTCCGGCaaaacagc > 1:1216512/1‑86 (MQ=255) ggCCCGGAGATGCGCCGGGGCATTGCCGAACTAAACGGCGAAGGCGAAGTGGCGGGCGGGGGGGGGATCCTGC‑GATCCGGCAAAAACGcc > 2:163363/1‑90 (MQ=255) cccGGAGATGCGCCGGGGCATTGCCGAACTAAACGGCGAAGGCGAAGTGGCGGGCGGGGTGGTGATCCTGC‑GATCCGGCAAAAACGCCCg < 1:1630482/90‑1 (MQ=255) gagaTGCGCCGAGGCATTGCCGAACTAAACGGCGAAGGCGAAGTGGCGGGGGGGGGGGGGGGGCCGC‑GGTCCCGTAAAAAAACCCgagga > 1:1892387/1‑88 (MQ=255) tGCGCCGGGGCATTGCCGAACTAAACGGCGAAGGCGAAGTGGCGGGGGGGGGGGGGGTCCTGG‑GATCCGGCAAAAACGCCCCAGAAgggg > 2:1630482/1‑87 (MQ=255) tGCGCCGGGGCATTGCCGAACTAAACGGCGAAGGCGAAGTGGCGGGCGGGGGGGGGGTCCTGC‑GATCCGGCAAAAACGCCCGAGAAGGGa > 2:1585209/1‑90 (MQ=255) gcgcCGGGGCATTGCCGAACTAAACGGCGAAGGCGAAGTGGCGGGCGGGGGGGGGGTCCTGC‑GATCCGGCAAAAAAGCCCCAGAAgctgt > 2:1964854/1‑86 (MQ=255) gcgcCGGGGCATTGCCGAACTAAACGGCGAAGGCGAAGTGGCGGGCGGGGGGGGGATCCTGC‑GATCCGGCAAAAACGCCCGAGAAGTGAt > 2:334819/1‑90 (MQ=255) cgcCGGGGAATTGCCGAACTAAACGGAGAAGGCGAAGTGGCGGGCGGGGTGGTGAACCTCC‑GGTCCGGCAAAAACGCCCGAGAAGTGATc < 2:1794602/90‑1 (MQ=255) aTTGCCGAACTAAACGGCGAAGGCGAAGTGGCGGGGGGGGGGGGGGTCCTGC‑GGTCCGGCAAAAAAGCCCGGGGAGGGATCgccgcccgg > 1:814058/1‑87 (MQ=255) aTTGCCGAACTAAACGGCGAAGGCGAAGTGGCGGGCGGGGGGGTGATCCTGC‑GATCCGGCAAAAACGCCCGAGAAGTGATCGCCGCCGTg > 2:682542/1‑90 (MQ=255) ttGCCGAACTAAACGGCGAAGGCGAAGTGGCGGGCGGggtggt < 1:781339/43‑1 (MQ=255) ttGCCGAACTAAACGGCGAAGGCGAAGTGGCGGGCGGgggggt > 2:781339/1‑43 (MQ=255) gAACTAAACGGCGAAGGCGAAGTGGCGGGCGGGGGGGGGGTCCTGC‑GAGCCGGCAAAAACGCCCGAGAAGGGATCGCCGCCGGGAAGGAc > 2:1420190/1‑90 (MQ=255) gAACTAAACGGCGAAGGCGAAGTGGCGGGCGGGGGGGGGATCCTGC‑GATCCGGCAAAAACGCCCGAGAAGTGATCGCCGCCGTGAAGGAc > 2:293741/1‑90 (MQ=255) aCTAAACGGCGAAGGCGAAGTGGCGGGCGGGGTGGTGATCCTGC‑GATCCGGCAAAAACGCCCGAGAAGTGATCGCCGCCGTGAAGGACaa > 2:789219/1‑90 (MQ=255) cTAAACGGCGAAGGCGAAGTGGCGGGCGGGGTGGTGATCCTGC‑GATCCGGCAAAAACGCCCGAGAAGTGATCGCCGCCGTGAAGGACaaa < 1:467275/90‑1 (MQ=255) gcgaaggcgaagTGGCGGGCGGGGGGGGGGTCCTGC‑GATCCGGCAAAAAAGCCCCAGAAGGGATCGCCGCCGGGGAAGACAAACTGGgaa > 2:985470/1‑90 (MQ=255) cgaaggcgaagTGGCGGGCGGGGTGGTGATCCTGC‑GATCCGGCAAAAACGCCCGAGAAGTGATCGCCGCCGTGAAGGACAAACTGGAAAc < 1:789219/90‑1 (MQ=255) agggcgaagTGGGGGGGGGGGTGGGGAGCCTGG‑GATCCGGAAAAACCGCCCGAGAAGTGATCGCCGCCGTGAAGGACAACCTGGAAACGc < 1:949788/88‑1 (MQ=255) ggcgaagTGGCGGGCGGGGTGGTGATCCTGC‑GATCCGGCAAAAACGCCCGAGAAGTGATCGCCGCCGTGAAGGACAAACTGGAAACGCTg < 1:985470/90‑1 (MQ=255) ggcgaagTGGCGGGCGGGGTGGTGATCCTGC‑GATCCGGCAAAAACGCCCGAGAAGTGATCGCCGCCGTGAAGGACAAACTGGAAACGCTg < 1:457108/90‑1 (MQ=255) ggcgaagTGGCGGGCGGGGGGGGGATCCTGC‑GATCCGGCAAAAACGCCCGAGAAGGGATCGCCGCCGTGAAGGACAAACTGGGAAAGCTg > 2:1668338/1‑90 (MQ=255) cgggcgggGTGGTGATCCTGC‑GATCCGGCAAAAACGCCCGAGAAGTGATCGCCGCCGTGAAGGACAAACTGGAAACGCTGAAAAGTAGTc < 1:1585209/90‑1 (MQ=255) | TGCGCGATGTTGCGAAGGTCCAGATTGGCCCGGAGATGCGCCGGGGCATTGCCGAACTAAACGGCGAAGGCGAAGTGGCGGGCGGGGTGGTGATCCTGC‑GATCCGGCAAAAACGCCCGAGAAGTGATCGCCGCCGTGAAGGACAAACTGGAAACGCTGAAAAGTAGTC > NZ_CP009273/594945‑595112 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |