| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 4,290,979 | 0 | T | G | 56.2% | 13.1 / 18.9 | 16 | T639T (ACA→ACC) | mdtO | multidrug efflux transporter permease subunit MdtO |
| Reads supporting (aligned to +/- strand): ref base T (1/6); new base G (9/0); total (10/6) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 8.74e-04 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.07e-03 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GTCTGGCAAGCGGGCGAAAAGCTGGCAGACGTGTTGCTCCTGTTTTAATAAGGTGGGCAGGATGGCCTGAGAGGCGGGTGTCTCTTCAAGCGTTATTTGAGGAGAACGGCTGAGTGCGGTTGCCAGACCGGCAGCGTATTTCTCC > NZ_CP009273/4290901‑4291045 | gTCTGGCAAGCGGGCGAAAAGCTGGCAGACGTGTTGCTCCTGTTTTAATAAGGTGGGCAGGATGGCCTGAGAGGCGGGTGTCTCTTCAAg > 2:184931/1‑90 (MQ=255)gTCTGGCAAGCGGGCGAAAAGCTGGCAGACGTGTTGCTCCTGTTTTAATAAGGTGGGCAGGATGGCCTGAGAGGCGGGGGGGTCTTCAAg > 2:473746/1‑90 (MQ=255) gCAAGCGGGCGAAAAGCTGGCAGACGTGTTGCTCCTGTTTTAATAAGGTGGGCAGGATGGCCTGAGAGGCGGGGGTTTCTTCAAACgctt > 2:766761/1‑87 (MQ=255) gCAAGCGGGCGAAAAGCTGGCAGACGTGTTGCTCCTGTTTTAATAAGGTGGGCAGGATGGCCTGAGAGGCGGGGGGCTCTTTTAGCGGTa > 1:285540/1‑90 (MQ=255) ggCGAAAAGCTGGCAGACGTGTTGCTCCTGTTTTAATAAGGTGGGCAGGATGGCCTGAGAGGCGGGTGTCTCTTCAAGCGTTATTTgagg < 1:308663/90‑1 (MQ=255) ggCGAAAAGCTGGCAGACGTGTTGCTCCTGTTTTAATAAGGTGGGCAGGATGGCCTGAGAGGCGGGTGTCTCTTCAAGCGTTATTTgagg < 1:390814/90‑1 (MQ=255) ggCGAAAAGCTGGCAGACGTGTTGCTCCTGTTTTAATAAGGTGGGCAGGATGGCCTGAGAGGCGGGTGTCTCTTCAAGCGTTATTTgagg < 2:620631/90‑1 (MQ=255) gAAAAGCTGGGAGACGTGTTGCTCCTGTTTTAATAAGGTGGGCAGGATGGCCTGAGAGGCGGGTGTCTCTTCAAGCGTTATTTGAGgaga < 2:809308/90‑1 (MQ=255) tGGCAGACGTGTTGCTCCTGTTTTAATAAGGTGGGCAGGATGGCCTGAGAGGCGGGTGTCTCTTCAAGCGTTATTTGAGGAGAACGGCTg < 1:184931/90‑1 (MQ=255) ttttAATAAGGTGGGCAGGATGGCCTGAGAGGCGGGTGTCTCTTCAAGCGTTATTTGAGGAGAACGGCTGAGTGCGGTTGCCAGACCGGc < 2:285540/90‑1 (MQ=255) ggTGGGCAGGATGGCCTGAGAGGCGGGGGGCTCTTCAAGCGGTTTTTTAGGGGAACGGGTGAGGGGGGGTGGCCGACCGGGGGCGGAttt > 2:619586/1‑90 (MQ=255) gTGGGCAGGATGGCCTGAGAGGCGGGGGTCTCTTCAAGCGGTATTTTAGGGGAAAGGCTGAGGGGGGGTGCCAGACCGGCAGCGGAtttt > 2:345593/1‑89 (MQ=255) gggCAGGATGGCCTGAGAGGCGGGGGTCTCTTCAAGCGTTATTTTAGGAGAACGGCTGAGGGCGGGTGCCAGACCGGCAGCGTATTtttc > 2:146424/1‑90 (MQ=255) gggCAGGATGGCCTGAGAGGCGGGGGTCTCTTCAAGCGTTATTTTAGGAGAACGGCTGAGGGCGGGTGCCAGACCGGCAGCGTATTtttc > 2:74826/1‑90 (MQ=255) gggCAGGATGGCCTGAGAGGCGGGGGTCTCTTCAAGCGTTATTTGAGGGGAACGGCTGAGTGCGGTTGCCAGACCGGCAGCGGATTtttc > 2:330618/1‑90 (MQ=255) ggCAGGATGGCCTGAGAGGCGGGGGTCTCTTCAAGCGTTTTTTTGGGGGAACGGCTGAGAGGGGGTGGCAGACCGGCAGCGGGTTTTTcc > 2:614207/1‑90 (MQ=255) | GTCTGGCAAGCGGGCGAAAAGCTGGCAGACGTGTTGCTCCTGTTTTAATAAGGTGGGCAGGATGGCCTGAGAGGCGGGTGTCTCTTCAAGCGTTATTTGAGGAGAACGGCTGAGTGCGGTTGCCAGACCGGCAGCGTATTTCTCC > NZ_CP009273/4290901‑4291045 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |