| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 353,601 | 0 | C | A | 57.9% | 2.5 / 21.0 | 19 | L267F (TTG→TTT) | cynR | transcriptional regulator CynR |
| Reads supporting (aligned to +/- strand): ref base C (5/3); new base A (0/11); total (5/14) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.82e-03 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.36e-03 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTA > NZ_CP009273/353520‑353683 | ccaaacaccCGCGCTTTTACCCACCGCCATGTGAAAAAATGCCTTC‑GGGGCGGTTGTCTGCCAGCTTTTTTCCCGCCGCAACAAAAccgc < 2:609952/87‑1 (MQ=255) aacaccCGCGCTTTTACCCACCCCCATTTGCAAAAATGCCTTC‑GGGGCGGCTGTCTGCCAGCTTTTTTCCCGCCGCAACAAAACCGCCGt < 2:79208/90‑1 (MQ=21) cacccGCGCTTTTACCAACCCCCATGTCAAAAAATCCCTTC‑GCGGCGGCTGTCTGCCAGCTTTTTTCCCGCCGCAAAAAAACCGCCGTtc < 2:201312/87‑1 (MQ=16) gcgcATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTcc > 2:602733/1‑90 (MQ=255) tCCACCGCCATGTGAAAAAAGGCCTTC‑GCGGCGGCTGTCTGCCAGCTTTTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGc < 2:228574/90‑1 (MQ=25) cccACCGCCATGTGAAAAAATGCCTTC‑GGGGCGGCTGTCTGCCAGCTTTTTTCCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGc < 2:179954/89‑1 (MQ=37) aCGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCgggg > 1:101331/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCgggg > 2:121128/1‑90 (MQ=255) aTGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCCCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGGAaga > 2:83650/1‑90 (MQ=255) cAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGGGAGAGaaaa > 2:22632/1‑89 (MQ=255) aaaaaaGGCCTTC‑GGGGCGGCTTTCTGCCAGCTTTTTTCCCGCCGCAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAAt < 2:94786/89‑1 (MQ=255) aaaaaTCCCTTCGGGGGGGGCTGCCGCCCATTTTTTTTCCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAAt < 1:90226/90‑1 (MQ=255) aaaaaCGCCTCC‑GCGGCGGCTTTCTGCGAGTTTTTTTCCCGCCAAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATa < 1:602733/90‑1 (MQ=255) ctcggcggggGCTGTCGGCCAGTTTTTTTCCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAg < 1:164513/86‑1 (MQ=255) gcggcTGTCTGCCAGCTTTTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCa < 2:233299/90‑1 (MQ=255) tttttcCCGCCGAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 1:223999/89‑1 (MQ=255) cgccacAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGt < 1:411628/90‑1 (MQ=255) gcagcAAAAACACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTa < 1:592799/87‑1 (MQ=255) cccgcAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTa < 2:463650/89‑1 (MQ=255) | GCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTA > NZ_CP009273/353520‑353683 |
| 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: ‑ |