| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 244,969 | 0 | A | C | 61.5% | 5.2 / 10.6 | 13 | pseudogene (1589/1713 nt) | BW25113_RS01160 | flagellar biosynthesis protein FlhA |
| Reads supporting (aligned to +/- strand): ref base A (4/1); new base C (0/8); total (4/9) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 6.99e-03 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.13e-03 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
CATCCGGCACTTCGTTATACGACAGCACATGCAGCCCCGGCGCAAACAACCTTGCATAACGCGCCAGCAAAGGGCGCAGCTGCGGTGGCACCAGCAGCACCGGGTCTTTCCCCGCCGCTTTCATCTGCTCTTTCACCTGTGGCATCGTACTCTGGAACTGGTT > NZ_CP009273/244880‑245042 | cATCCGGCACTTCGTTATACGACAGCACATGCAGCCCCGGCGCAAACAACCTTGCATAACGCGCCAGCAAAGGGCGCAGCTGCGGTGGCa < 1:781604/90‑1 (MQ=255) cGTTATACGACAGCACATGCAGCCCCGGCGCAAACAACCTTGCATAACGCGCCAGCAAAGGGCGCAGCTGCGGTGGCACCAGCAGCACCg < 2:412720/90‑1 (MQ=255) aCAGCACATGCAGCCCCGGCGCAAACAACCTTGCATAACGCGCCAGCAAAGGGCGCAGCTGCGGTGGCACCAGCAGCACCGGGTCTTTcc > 1:376368/1‑90 (MQ=255) cccGGCGCAAACACCCTTCCATACCGCCCCAGAAAGGGGCGCAGCTGCGGTGGCCCCAGCAGCCCGGGGTTTTCCCCCGCCGCTTTCATc < 2:587191/90‑1 (MQ=255) ggCGCAAACAACCTTGCATAACGCGCCAGCAAAGGGCGCAGCTGCGGTGGCACCAGCAGCACCGGGTCTTTCCCCGCCGCTTTCATCTGc > 1:429874/1‑90 (MQ=255) ggCGCAAACAACCTTGCATAACGCGCCAGCAAAGGGCGCAGCTGCGGTGGCACCAGCAGCACCGGGTCTTTCCCCGCCGCTTTCATCTGc > 2:524987/1‑90 (MQ=255) aTACCGCGCCAGCAAGGGGCGCGGCTGGGGTGGCCCCAGCAGCCCCGGGTCTTCCCCCGCCGCTTTCATCTGCTCTTTCACCTGTGGCAt < 2:530858/90‑1 (MQ=255) aTACCGCGCCAGCAAGGGGCGCAGCTGGGGGGGCCCCGGCAGCCCCGGTTCTTCCCCCGCCGCTTTCATCTGCTCTTTCACCTGTGGCAt < 2:768718/90‑1 (MQ=255) aCGCGCCAGCAAAGGGCGCAGCTGCGGTGGCACCAGCAGCACCGGGTCTTTCCCCGCCGCTTTCATCTGCTCTTTCACCTGTGGCATCGt > 2:496454/1‑90 (MQ=255) cgccCCAGAAAGGGGCCCAGCTGGGGGGGCCCCACCCGCGCGGGTTTTTTCCCCGCCGCTTTCATCTGCTCTTTCACCTGTGGCATCGTa < 1:4949/90‑1 (MQ=255) gcCAGCAGGGGGCGGTGCTGGGGTGGCCCCAGCAGCCCCGGGTTTTCCCCCGCCGCTTTCATCTGCTCTTTCACCTGTGGCATCGTActc < 2:667886/90‑1 (MQ=255) aggggCGCGGCTGCGGTGGCCCCAGCAGCCCGGGTTCTTCCCCCGCCGCTTTCATCTGCTCTTTCACCTGTGGCATCGTACTCTGGAACt < 2:429874/88‑1 (MQ=255) gcgcGGCTGGGGGGGCCCCAGCAGCACGGGTTCTTTCCCCGCCGCTTTCATCTGCTCTTTCACCTGTGGCATCGTACTCTGGAACTGGtt < 2:786482/90‑1 (MQ=255) gcgcAGCGGCGGTGGCCCCAGCAGCACGGGGTTTTTCCCCGCCGCTTTCATCTGCTCTTTCACCTGTGGCATCGTACTCTGGAACTGGtt < 1:180967/90‑1 (MQ=255) | CATCCGGCACTTCGTTATACGACAGCACATGCAGCCCCGGCGCAAACAACCTTGCATAACGCGCCAGCAAAGGGCGCAGCTGCGGTGGCACCAGCAGCACCGGGTCTTTCCCCGCCGCTTTCATCTGCTCTTTCACCTGTGGCATCGTACTCTGGAACTGGTT > NZ_CP009273/244880‑245042 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |