| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 353,601 | 0 | C | A | 58.8% | ‑1.3 / 17.8 | 17 | L267F (TTG→TTT) | cynR | transcriptional regulator CynR |
| Reads supporting (aligned to +/- strand): ref base C (6/1); new base A (0/10); total (6/11) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 5.66e-04 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.36e-03 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
ATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTT‑CCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACA > NZ_CP009273/353514‑353686 | aTTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTT‑CCGCCGcaacaa > 1:350898/1‑90 (MQ=255) cGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTT‑CCGCCGCAACAAAA‑ccg > 1:622412/1‑90 (MQ=255) cacccGCGCATTTACCCACCCCCATGTGAAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTTTTTTC‑CCGCCGCAACAAAA‑CCGCCGTtc < 1:132834/87‑1 (MQ=21) gcgcATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTT‑CCGCCGCAACAAAA‑CCGCCGTTCTCTcc > 1:530283/1‑90 (MQ=255) cccACCGCCATGTGAAAAAATGCTTTCGGGGGGGCTTTCTGCCATTTTTTTTC‑CCGCCGAAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGc < 1:364590/89‑1 (MQ=255) aCGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTT‑CCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCgggg > 2:557256/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTT‑CCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCgggg > 1:36546/1‑90 (MQ=255) ccATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTT‑CCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCggggggg > 2:595307/1‑87 (MQ=255) aaaaaTGCCTTCGCGGGGGTTGTCT‑ACAGCTTTTTTTCCCGCCGCAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATa < 1:194798/90‑1 (MQ=255) tggcggggGCTGTCTCCCAGTTTTTTTC‑CCGCCGCAAAAAAC‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 1:325565/88‑1 (MQ=255) tCGCGGCGGTTGTCGCCCATTTTTTTTC‑CCGCCGCAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 1:462054/90‑1 (MQ=255) tCGCGGCGGCTGTGTGCCGGTTTTTTTC‑CCGCCGCAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 1:102400/90‑1 (MQ=255) ccggggcggcTGTCCGCCAGTTTTTTTC‑CCCCCGCAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 1:10160/86‑1 (MQ=255) ttttttt‑CCCCCCCAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATc < 2:81737/88‑1 (MQ=255) tttc‑CCGCCAAAAAAAAC‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgctg < 1:595307/90‑1 (MQ=255) tttc‑CCGCCAAAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgctg < 2:530283/90‑1 (MQ=255) cccgcAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTa < 1:112867/89‑1 (MQ=255) cgcAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGC‑GGGCAAGAGAAAAAGCTTTTAACCCGTCATGTTTTGTGGCAATCGCTGCTGGGaaaa > 1:725470/1‑88 (MQ=255) | ATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTT‑CCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACA > NZ_CP009273/353514‑353686 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |