| 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% | ‑5.7 / 10.2 | 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. | |||||||||||
GCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTG > NZ_CP009273/353520‑353677 | gCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAAA‑ccgc > 1:125143/1‑90 (MQ=255) cccccGCGTTTTTACCCACCCCCTTGTAAAAAAATGCTTTCGGGGGGGTTGTCGGCCAGTTTTTTTCCCGCCGC‑AAAAAAA‑CCGCCGTtc < 1:419237/87‑1 (MQ=255) ccGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAAA‑CCGCCGTtctct > 2:264441/1‑90 (MQ=255) cgcgCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAAA‑CCGCCGTtctctc > 2:419237/1‑90 (MQ=255) gcgcATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAAA‑CCGCCGTTCTCTcc > 1:50716/1‑90 (MQ=255) cccACCGCCATGTGAAAAAATGCTTTCGCGGCGGCTGTCGGCCAGCTTTTTTCCCGCCGC‑AAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGc < 2:50716/89‑1 (MQ=255) ccATGTAAAAAAATGCCTCCGGGGGGGCTGCCGCCCAGCTTTTTTCCCGCCGC‑AACAAAG‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCaa < 2:49185/90‑1 (MQ=255) aaaaaaTGCCTCCGGGGGGGTTGTCTGCCAGTTTTTTTCCCGCCGA‑AAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAAt < 2:368579/89‑1 (MQ=255) gcggcTTTCGCCCAGCTTTTTTCCCGCCGC‑AAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCa < 2:125143/90‑1 (MQ=255) gcTGTCTGCCACTTTTTTTCCCGCCGC‑AAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCAtgt < 2:113317/90‑1 (MQ=255) tttttcCCGCCGA‑AAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 2:214404/89‑1 (MQ=255) tttttCCCCCCCAAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 1:286849/90‑1 (MQ=255) tttttCCCCCCA‑AAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 1:310714/90‑1 (MQ=255) tttcCCCCCGC‑AAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGCCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgctg < 2:347263/90‑1 (MQ=255) | GCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTG > NZ_CP009273/353520‑353677 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |