| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 1,125,825 | 0 | T | C | 55.6% | 13.7 / 20.2 | 18 | G165G (GGA→GGG) | flgA | flagellar basal body P‑ring formation chaperone FlgA |
| Reads supporting (aligned to +/- strand): ref base T (6/2); new base C (0/10); total (6/12) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.51e-03 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.11e-03 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GCGACGGCTGCATTGTTCAGCGCCTGACCTTCTGCGTTGGCGCTAAACCCATCACCGCTGGCGATCACATTGACGCGTTGTCCCGCTTTTACCCGCCATGCCTGGCGAAACTGGGTTAACTGGATAGGTTGATCGGGTGATAGATCGCGC > NZ_CP009273/1125745‑1125894 | gCGACGGCTGCATTGTTCAGCGCCTGACCTTCTGCGTTGGCGCTAAACCCATCACCGCTGGCGATCACATTGACGCGTTGTCCCGCtttt > 2:203200/1‑90 (MQ=255) gcCTGCCCTTCTGCGTTGGCGCTAACCCCATCCCCGCTGGCGATCACATTGACGCGTTGCCCCGCTTTTCCCCGCCATGCCTGGCGAAAc < 2:216355/90‑1 (MQ=255) tGACCTTCTGCGTTGGCGCTAAACCCATCACCGCTGGCGATCACATTGACGCGTTGTCCCGCTTTTACCCGCCATGCCTGGCGAAACTgg > 1:270799/1‑90 (MQ=255) ccccTTTTGCTTTGGCGCAAACCCCCCCCCCGCGGGCGATCACTTGGCCGCGTTGCCCCCGTTTTACCCGCCATGCCTGGCGAAACTggg < 1:803086/88‑1 (MQ=255) ttCTGCGTTGGCGCTAAACCCATCACCGCTGGCGATCACATTGACGCGTTGTCCCGCTTTTACCCGCCATGCCTGGCGAAACTGGGTTaa > 1:753362/1‑90 (MQ=255) tCTGGGTGGGCGCAAACCCCACCCCCGCGGGCGATCACTTTGCCGCGTTGCCCCTTTTTTCCCCGCCATGCCTGGCGAAACTGGGTTAAc < 2:650999/90‑1 (MQ=255) tCTGCGTTGGCGCTAACCCCACCCCCGCGGGCGATCACATTGACGCGTTGCCCCGCTTTTACCCGCCATGCCTGGCGAAACTGGGTTAAc < 2:681228/90‑1 (MQ=255) cTGCGTTGGCGCAAACCCCACCCCCGCTGGCGATCACATTGACGCGTTGCCCCGTTTTTACCCGCCATGCCTGGCGAAACTGGGTTAACt < 2:736279/90‑1 (MQ=255) tGCGTTGGCGCTAAACCCATCACCGCTGGCGATCACATTGACGCGTTGTCCCGCTTTTACCCGCCATGCCTGGCGAAACTGGGTTAACTg > 1:759015/1‑90 (MQ=255) ttGGCGCTAAACCCATCACCGCTGGCGATCACATTGACGCGTTGTCCCGCTTTTACCCGCCATGCCTGGCGAAACTGGGTTAACTGGATa > 2:669864/1‑90 (MQ=255) tAACCCCACCACCGCTGGCGATCACATTGACGCGTTGTCCCGCTTTTACCCGCCATGCCTGGCGAAACTGGGTTAACTGGATAGGTTGAt < 2:269920/90‑1 (MQ=255) tAAACCCACCCCCGCTGGCGATCACATTGCCGCGTTGCCCCGTTTTTCCCCGCCATGCCTGGCGAAACTGGGTTAACTGGATAGGTTGAt < 2:440307/90‑1 (MQ=255) accccATCCCCGCTGGCGATCACATTGCCGCGTTGCCCCGTTTTTACCCGCCATGCCTGGCGAAACTGGGTTAACTGGATAGGTTGATCg < 2:813645/88‑1 (MQ=255) accccATCCCCGCTGGCGATCACATTGACGCTTTGTCCCGTTTTTACCCGCCATGCCTGGCGAAACTGGGTTAACTGGATAGGTTGATCg < 2:91392/88‑1 (MQ=255) accccACCCCCGCTGGCGATCACATTGCCGCGTTGCCCCGTTTTTCCCCGCCATGCCTGGCGAAACTGGGTTAACTGGATAGGTTGATCg < 2:563486/88‑1 (MQ=255) accccACCCCCGCGGGCGATCACTTTGCCGGTTTGCCCCTTTTTTCCCCGCCATGCCTGGCGAAACTGGGTTAACTGGATAGGTTGATCg < 1:669864/88‑1 (MQ=255) gCTGGCGATCACATTGACGCGTTGTCCCGCTTTTACCCGCCATGCCTGGCGAAACTGGGTTAACTGGATAGGTTGATCGGGTGATAGATc > 1:20051/1‑90 (MQ=255) gCGATCACATTGACGCGTTGCCCCGCTTTTCCCCGCCATGCCTGGCGAAACTGGGTTAACTGGATAGGTTGATCGGGTGATAGATCgcgc < 2:297829/90‑1 (MQ=255) | GCGACGGCTGCATTGTTCAGCGCCTGACCTTCTGCGTTGGCGCTAAACCCATCACCGCTGGCGATCACATTGACGCGTTGTCCCGCTTTTACCCGCCATGCCTGGCGAAACTGGGTTAACTGGATAGGTTGATCGGGTGATAGATCGCGC > NZ_CP009273/1125745‑1125894 |
| 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: ‑ |