| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 353,601 | 0 | C | A | 55.6% | 5.0 / 19.9 | 18 | L267F (TTG→TTT) | cynR | transcriptional regulator CynR |
| Reads supporting (aligned to +/- strand): ref base C (6/2); new base A (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 = 6.74e-03 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAA > NZ_CP009273/353520‑353684 | gCCAACACCCGCCCTTTTACCCACCCCCATGTGAAAAAATGCCTTCGCGGCGGCTGTCTGCCAGTTATTTTCCCGCCGCAACAAAA‑ccgc < 2:29076/90‑1 (MQ=21) cacccGCGCTTTTACCCAACCCCATGTGAAAAAAGCCCTCCGCGGGGGCTGTCTGCCAGTTATTTTCCCGCCGCAAAAAAA‑CCGCCGTtc < 2:557060/87‑1 (MQ=255) cacccGCGCATTTACCCACCGCCATGTGAAAAAATGCCTTCGGGGCGGCTGTCTGCCAGCTATTTTCCCGCCGCAACAAAA‑CCGCCGTtc < 2:22285/87‑1 (MQ=25) acCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTtctc > 1:557060/1‑90 (MQ=255) ccGCGCTTTTATCCACCCCCATGTGAAAAAAGCCCTCCGCGGCGGCTGTCTGCCAGTTTTTTTCCCGCCGCAAAAAAA‑CCGCCGTtctct < 2:303254/90‑1 (MQ=21) gcgcATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTcc > 2:351621/1‑90 (MQ=255) aTCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTgg > 1:405146/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCGGTAGTGGCgggg > 1:113147/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCgggg > 2:189709/1‑90 (MQ=255) cccATGTAAAAAAATGCCTTCGGGGGGGCTGTCTGCCAGTTTTTTTTCCGCCGCAAAAAAC‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCa < 2:379375/89‑1 (MQ=255) ccttgtgAAAAAATGCCTTCGCGGCGGCTGTCGGCCAGCTATTTTCCCGCCGCAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCaa < 2:233977/87‑1 (MQ=38) ccATGTGAAAAAACCCCTGCGGGGCGGCTGCCTGCCAGTTTTTTTCCCGCCAAAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCaa < 2:315291/90‑1 (MQ=255) gCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCACAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGGAAGAGAAAAAGATTTa > 2:6079/1‑90 (MQ=255) ccgcgGCGGCTGCCTGCCAGTTTTTTTCCCGCCACAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 1:565220/89‑1 (MQ=255) tttttcCCGCCGCAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 2:173267/89‑1 (MQ=255) tttttcCCGCCCAAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 2:94642/89‑1 (MQ=255) ttttcCCCCCACAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 1:550207/90‑1 (MQ=255) ccgaAAAAAAC‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTaa < 2:531295/90‑1 (MQ=255) | GCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAA > NZ_CP009273/353520‑353684 |
| 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: ‑ |