| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 1,125,825 | 0 | T | C | 61.1% | 9.4 / 15.3 | 18 | G165G (GGA→GGG) | flgA | flagellar basal body P‑ring formation chaperone FlgA |
| Reads supporting (aligned to +/- strand): ref base T (6/1); new base C (0/11); total (6/12) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 3.77e-04 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.86e-03 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
CTGTGCGACGGCTGCATTGTTCAGCGCCTGACCTTCTGCGTTGGCGCTAAACCCATCACCGCTGGCGATCACATTGACGCGTTGTCCCGCTTTTACCCGCCATGCCTGGCGAAACTGGGTTAACTGGATAGGTTGATCGGGTGATAGATCGCGCAGGCTAA > NZ_CP009273/1125741‑1125901 | cTGTGCGACGGCTGCATTGTTCAGCGCCTGACCTTCTGCGTTGGCGCTAAACCCATCACCGCTGGCGATCACATTGACGCGTTGTCCCGc > 2:753630/1‑90 (MQ=255)cTGTGCGACGGCTGCATTGTTCAGCGCCTGACCTTCTGCGTTGGCGCTAAACCCATCACCGCTGGCGATCACATTGACGCGTTGTCCCGc > 2:261536/1‑90 (MQ=255)cTGTGCGACGGCTGCATTGTTCAGCGCCTGACCTTCTGCGTTGGCGCTAAACCCATCACCGCTGGCGATCACATTGACGCGTTGTCCCGc > 1:735667/1‑90 (MQ=255) gACGGCTGCATTGTTCAGCGCCTGACCTTCTGCGTTGGCGCTAAACCCATCACCGCTGGCGATCACATTGACGCGTTGTCCCGCTTTTAc > 1:591747/1‑90 (MQ=255) ttGTTCAGCGCCTGACCTTCTGCGTTGGCGCAAAACCCACCCCCGTTGGCGATCACATTGACGCGTTGCCCCGCTTTTCCCCGCCATGcc < 2:543781/90‑1 (MQ=255) gcCTGCCCTTCGGCGTTGGCGCTAACCCCACCCCCGCTGGCGATCACATTGACGCGTTGCCCCGCTTTTACCCGCCATGCCTGGCGAAAc < 2:583756/90‑1 (MQ=255) cccTGCCCTTCTGCGTTGGCCTTAACCCCTTCCCCGCGGGCGATCCCTTTGCCGCGTTTCCCCTTTTTTACCCGCCATGCCTGGCGAAAc < 2:182040/89‑1 (MQ=255) tGACCTTCTGCGTTGGCGCTAAACCCATCACCGCTGGCGATCACATTGACGCGTTGTCCCGCTTTTACCCGCCATGCCTGGCGAAACTgg > 2:139314/1‑90 (MQ=255) cTTCTGGGTGGGCCCAAACCCCACCCCCGCTGGCGACCACATTGACGCGTTGCCCCGTTTTCCCCCGCCATGCCTGGCGAAACTGGGTTa < 1:118989/90‑1 (MQ=255) cGTTGGCGCAAAACCCACCCCCGCTGGCGATCACATTGCCGCGTTGCCCCGCTTTTACCCGCCATGCCTGGCGAAACTGGGTTAACTGGa < 2:679243/90‑1 (MQ=255) tGGCGCTAAACCCATCACCGCTGGCGATCACATTGACGCGTTGTCCCGCTTTTACCCGCCATGCCTGGCGAAACTGGGTTAACTGGATAg > 1:167099/1‑90 (MQ=255) accccATCCCCGCTGGCGATCACTTTGCCGCGTTGTCCCGTTTTTCCCCGCCATGCCTGGCGAAACTGGGTTAACTGGATAGGTTGATCg < 2:539729/88‑1 (MQ=255) accccACCCCCGCGGGCGATCACATTGACGCTTTGCCCCGTTTTTCCCCGCCATGCCTGGCGAAACTGGGTTAACTGGATAGGTTGATCg < 2:642497/88‑1 (MQ=255) ggCGATCACATTGCCGCTTTGCCCCGTTTTTCCCCGCCATGCCTGGCGAAACTGGGTTAACTGGATAGGTTGATCGGGTGATAGATcgcg < 1:135142/90‑1 (MQ=255) gCGATCACATTGCCGGGTTGCCCCGTTTTTCCCCGCCATGCCTGGCGAAACTGGGTTAACTGGATAGGTTGATCGGGTGATAGATCgcgc < 2:486912/90‑1 (MQ=255) gCGATCACATTGACGTTTTGCCCCGTTTTTCCCCGCCATGCCTGGCGAAACTGGGTTAACTGGATAGGTTGATCGGGTGATAGATCgcgc < 1:173478/90‑1 (MQ=255) gCGATCACATTGACGCGTTGCCCCGTTTTTCCCCGCCATGCCTGGCGAAACTGGGTTAACTGGATAGGTTGATCGGGTGATAGATCgcgc < 1:261536/90‑1 (MQ=255) aaTTGCCGCGTTGCCCCGTTTTTCCCCGCCATGCCTGGCGAAACTGGGTTAACTGGATAGGTTGATCGGGTGATAGATCGCGCAGGCTaa < 2:181360/89‑1 (MQ=255) | CTGTGCGACGGCTGCATTGTTCAGCGCCTGACCTTCTGCGTTGGCGCTAAACCCATCACCGCTGGCGATCACATTGACGCGTTGTCCCGCTTTTACCCGCCATGCCTGGCGAAACTGGGTTAACTGGATAGGTTGATCGGGTGATAGATCGCGCAGGCTAA > NZ_CP009273/1125741‑1125901 |
| 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: ‑ |