| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 353,601 | 0 | C | A | 53.8% | 2.7 / 15.6 | 13 | L267F (TTG→TTT) | cynR | transcriptional regulator CynR |
| Reads supporting (aligned to +/- strand): ref base C (6/0); new base A (0/7); total (6/7) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 5.83e-04 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.13e-02 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAA > NZ_CP009273/353520‑353687 | gCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAAccgc > 2:107187/1‑90 (MQ=255) cgcgCATTTACCCACCGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCGGCCAGCTTTTTTCCCGCCGCAAAAAAACCGCCGTtctctc < 2:459610/90‑1 (MQ=25) gcgcATTTATCCAACGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTcc > 2:619110/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCgggg > 1:47094/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCgggg > 2:38193/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTT‑CGCGGCGGCCGTCTGCCAGCTATTTTTCCGCCGCAACAAAACGGCCGTTCTCACCCAGAGTGGcagcc > 2:62995/1‑86 (MQ=21) gCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCgggggg > 2:767165/1‑88 (MQ=255) aggtgAAAAAAGCCCTC‑CGGGGCGGTTGTCTGCCAGTTTTTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAaga < 2:122452/88‑1 (MQ=255) aaaaaaTCCCTC‑CGGGGCGGCTTTCTCCCAGTTTTTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAAt < 2:780026/89‑1 (MQ=255) aaaaaTTCCTTGCGGGGGGGTTGTCTCCCATCTTTTTTCCCGCCCCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAAt < 2:451678/90‑1 (MQ=255) ccgcgGGGGCTGTCCCCCGTTTTTTTTCCCCCCGAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 1:221435/89‑1 (MQ=255) tttttcCCCCCACAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 2:202638/89‑1 (MQ=255) tttcCCCCCCCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgctg < 2:296359/90‑1 (MQ=255) caacaaAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACaa < 2:405962/90‑1 (MQ=255) | GCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAA > NZ_CP009273/353520‑353687 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |