| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 353,601 | 0 | C | A | 64.3% | ‑4.5 / 10.5 | 14 | L267F (TTG→TTT) | cynR | transcriptional regulator CynR |
| Reads supporting (aligned to +/- strand): ref base C (4/1); new base A (0/9); total (4/10) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 5.00e-03 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.63e-02 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAA‑GAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGC > NZ_CP009273/353520‑353675 | gCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑ccgc > 1:402883/1‑90 (MQ=255) cacccGCGCTTTTACCCACCCCCATGTGAAAAAATGCTTTCGGGGGGGCTGTCTGCCAGCTTTTTTCCCGCCGCAAAAAAA‑CCGCCGTtc < 1:122704/87‑1 (MQ=19) cacccGCGCATTTACCCAACCCCATGTAAAAAAATGCCTTCGGGGCGGCTGTCTGCCAGCTTTTTTCCCGCCGCAACAAAA‑CCGCCGTtc < 1:562764/87‑1 (MQ=21) gcgcATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTcc > 1:121177/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCgggg > 1:25293/1‑90 (MQ=255) ccATGTGAAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTTTTTTCCCGCCGCAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCaa < 1:25662/90‑1 (MQ=37) aaaacTGCCTCCGGGGGGGCTTTCTCCCAGTTTTTTTCCCGCCGCAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAA‑GAGAAATa < 1:616143/90‑1 (MQ=255) aaaaaTCCTTCCGGGGCGGCTGTCTGCCAGTTTTTTTCCCGCCGAAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAA‑GAGAAATa < 1:487474/90‑1 (MQ=255) cgggggcggcTGTC‑GCCCATTTTTTTTCCCCCCCAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAA‑GAGAAATAGCTTTAAGcc < 2:121177/86‑1 (MQ=255) cgcgGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGGAAGGGGAAAAAACTTTAAAcc > 1:273403/1‑90 (MQ=255) gcggtTTTCTGCCATTTTTTTTCCCGCCGAAAAAAAC‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAA‑GAGAAATAGCTTTAAGCCCGTCa < 2:574557/90‑1 (MQ=255) gcTGTCTGCCAGTTTTTTTCCCCCCAAAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAA‑GAGAAATAGCTTTAAGCCCGTCAtgt < 2:250203/90‑1 (MQ=255) tttttcCCGCCGCAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAA‑GAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 1:763/89‑1 (MQ=255) tttttCCCCCCCAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAA‑GAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 1:514763/90‑1 (MQ=255) | GCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAA‑GAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGC > NZ_CP009273/353520‑353675 |
| 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: ‑ |