| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 1,125,830 | 0 | C | T | 58.8% | ‑1.5 / 15.0 | 17 | A164T (GCG→ACG) | flgA | flagellar basal body P‑ring formation chaperone FlgA |
| Reads supporting (aligned to +/- strand): ref base C (6/1); new base T (0/10); total (6/11) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 5.66e-04 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.27e-03 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
CTGTGCGACGGCTGCATTGTTCAGCGCCTGACCTTCTGCGTTGGCGCTAAACCCATCACCGCTGGCGATCACATTGACGCGTTGTCCCGCTTTTACCCGCCATGCCTGGCGAAACTGGGTTAACTGGATAGGTTGATCG > NZ_CP009273/1125741‑1125879 | cTGTGCGACGGCTGCATTGTTCAGCGCCTGACCTTCTGCGTTGGCGCTAAACCCATCACCGCTGGCGATCACATTGACGCGTTGTCCCGc > 2:150607/1‑90 (MQ=255) gcCTGCCCTTCTGCGTTGGCGCTAACCCCATCCCCGCGGGCGATCACATTGACGCGTTGCCCCGCTTTTACCCGCCATGCCTGGCGAAAc < 1:45604/90‑1 (MQ=255) gcCTGACCTTCTGCGTTGGCGCTAAACCCATCACCGCTGGCGATCACATTGACGCGTTGTCCCGCTTTTACCCGCCATGCCTGGCGAAAc > 1:682079/1‑90 (MQ=255) tGACCTTCTGCGTTGGCGCTAAACCCATCACCGCTGGCGATCACATTGACGCGTTGTCCCGCTTTTACCCGCCATGCCTGGCGAAACTgg > 1:168555/1‑90 (MQ=255) tGACCTTCTGCGTTGGCGCTAAACCCATCACCGCTGGCGATCACATTGACGCGTTGTCCCGCTTTTACCCGCCATGCCTGGCGAAACTgg > 1:36914/1‑90 (MQ=255) tGACCTTCTGCGTTGGCGCTAAACCCATCACCGCTGGCGATCACATTGACGCGTTGTCCCGCTTTTACCCGCCATGCCTGGCGAAACTgg > 2:475184/1‑90 (MQ=255) cTTCTGCGTGGGCGCAAACCCCACCCCCGGGGGCGATCACATTGACGCGTTGTCCCGTTTTTCCCCGCCATGCCTGGCGAAACTGGGTTa < 2:33756/90‑1 (MQ=255) tCTGCGTTGGCGCTAACCCCACCCCCGCGGGGGATCACATTGCCGCGTTGTCCCGTTTTTCCCCGCCATGCCTGGCGAAACTGGGTTAAc < 2:188381/90‑1 (MQ=255) tCTGCGTGGGCGCAAACCCCACCCCCGCGGGGGATCACTTTGCCGCTTTGCCCCGTTTTTCCCCGCCATGCCTGGCGAAACTGGGTTAAc < 2:612467/90‑1 (MQ=255) tGCGTTGGCGCTAAACCCATCACCGCTGGCGATCACATTGACGCGTTGTCCCGCTTTTACCCGCCATGCCTGGCGAAACTGGGTTAACTg > 1:641068/1‑90 (MQ=255) gTTGGCGCTAAACCCATCACCGCTGGCGATCACATTGACGCGTTGTCCCGCTTTTACCCGCCATGCCTGGCGAAACTGGGTTAACTGGAt > 2:430564/1‑90 (MQ=255) ttGGCGCAAACCCAACCCCCGCGGGCAATCACATTGCCGCGTTGCCCCCTTTTTACCCGCCATGCCTGGCGAAACTGGGTTAACTGGATa < 1:668295/90‑1 (MQ=255) aaaccccACCCCCGCGGGCGATCACTTTGAGGCGTTGTCCCGTTTTTCCCCGCCATGCCTGGCGAAACTGGGTTAACTGGATAGGTTGAt < 2:419347/86‑1 (MQ=255) aaccccACCCCCGCGGGCGATCACATTGACGCGTTGCCCCGTTTTTACCCGCCATGCCTGGCGAAACTGGGTTAACTGGATAGGTTGATc < 1:150607/87‑1 (MQ=255) accccATCCCCGTGGGCGATCACATTGGCGCGTTGCCCCGTTTTTCCCCGCCATGCCTGGCGAAACTGGGTTAACTGGATAGGTTGATCg < 2:541464/88‑1 (MQ=255) accccATCCCCGCTGGCGATCAATTTGCCGCGTTGCCCCGTTTTTCCCCGCCATGCCTGGCGAAACTGGGTTAACTGGATAGGTTGATCg < 2:682079/88‑1 (MQ=255) accccACCCCCGCTGGCGATCACTTTGGCGGGTTGTCCCGTTTTTCCCCGCCATGCCTGGCGAAACTGGGTTAACTGGATAGGTTGATCg < 2:625912/88‑1 (MQ=255) accccACCCCCGCGGGCGATCACATTGCCGCGTTGCCCCGTTTTTCCCCGCCATGCCTGGCGAAACTGGGTTAACTGGATAGGTTGATCg < 1:475184/88‑1 (MQ=255) | CTGTGCGACGGCTGCATTGTTCAGCGCCTGACCTTCTGCGTTGGCGCTAAACCCATCACCGCTGGCGATCACATTGACGCGTTGTCCCGCTTTTACCCGCCATGCCTGGCGAAACTGGGTTAACTGGATAGGTTGATCG > NZ_CP009273/1125741‑1125879 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |