| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 353,601 | 0 | C | A | 60.0% | ‑1.7 / 12.5 | 15 | L267F (TTG→TTT) | cynR | transcriptional regulator CynR |
| Reads supporting (aligned to +/- strand): ref base C (5/1); new base A (0/9); total (5/10) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 2.00e-03 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.08e-02 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
CAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGC‑TGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTG > NZ_CP009273/353525‑353677 | ccacCGCGCTTTTATCAACCCCCATGTGAAAAAATGCCTCC‑GGGGCGGC‑TGTCGGCCGTCTTTTTTTCCGCCCCAACAAAA‑CCGCCGTtc < 2:654882/88‑1 (MQ=255) gcgcTTTTACCCACCGCCATGTGAAAAAATGCTTTC‑GCGGCGGC‑TGTCTGCCAGCTTTTTTCCCGCCGCAAAAAAA‑CCGCCGTTCTCTcc < 2:331993/90‑1 (MQ=21) gcgcTTTTACCCAACGCCATGTGAAAAAATCCCTTC‑GGGGGGGC‑TGTCTGCCAGCTTTTTTCCCGCCGCAAAAAAA‑CCGCCGTTCTCTcc < 2:213010/90‑1 (MQ=21) gcgcATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGC‑TGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTcc > 2:45578/1‑90 (MQ=255) caccccATGGGCAAAAATGCCCTCGGGGGCGGT‑GGTCTCCAAGTTTTTTTCCCGCCAAAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCgg < 1:734463/86‑1 (MQ=255) aCGCCATGTGCAAAAATGCCTTC‑GCGGCGGC‑TGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGctgtc > 2:612137/1‑86 (MQ=255) aCGCCATGTGCAAAAATGCCTTC‑GCGGCGGC‑TGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCgggg > 1:602437/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTTC‑GCGGCGGC‑TGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCgggg > 2:477828/1‑90 (MQ=255) cccATGTGAAAAAATGCCTCC‑GGGGGGGC‑TGTCTGCCAGTTTTTTTCCCGCCGCAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCa < 2:102961/89‑1 (MQ=255) aTGTGCAAAAATGCCTTC‑GCGGCGGC‑TGTCTGCCAGCTA‑TTTTCCGCCGCAACAAAA‑CC‑CCGTTCTCTCCAGTAGTGGCGGGGGgagaga > 2:395015/1‑90 (MQ=37) aaaaaT‑CCTTC‑GGGGGGGGTTGTCGGCCAGTTTTTTTCCCCCCGCAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATa < 2:589095/90‑1 (MQ=255) aaaaaCGCCTCC‑GC‑GCGGC‑TTTCTGCCCGTTTTTTTCCCCCCCAAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATa < 1:396490/90‑1 (MQ=255) tC‑GGGGCGGC‑TGTCTCCCAGTTTTTTTCCCGCCGAAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 2:746603/90‑1 (MQ=255) tttttcCCGCCCAAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 2:316864/89‑1 (MQ=255) ttccccgccgAAAAAAAC‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgctg < 1:252258/86‑1 (MQ=255) | CAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGC‑TGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTG > NZ_CP009273/353525‑353677 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |