| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 353,601 | 0 | C | A | 55.6% | 4.0 / 15.2 | 18 | L267F (TTG→TTT) | cynR | transcriptional regulator CynR |
| Reads supporting (aligned to +/- strand): ref base C (4/4); new base A (0/10); total (4/14) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 2.29e-02 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.34e-02 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
CAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGC‑GGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATG > NZ_CP009273/353525‑353689 | cacccGCGCTTTTACCCACCGCCATGTCAAAAAATGCCTTCGG‑GGCGGCTGTCTGCCAGCTATTTTCCCGCCGCAACAAAACCGCCGTtc < 1:182106/87‑1 (MQ=25)cacccGCGCTTTTACCCACCGCAATGTTCAAAAACGCCTTCGG‑GGGGGCTGTCGGCCAGCTTTTTTTCCGCCGCAACAAACCCGCCGTtc < 1:460490/87‑1 (MQ=255)cacccGCGCTTTTACCCACCCCCATGTGAAAAAATGCCTTCGC‑GGCGGCTGTCTGCCAGTTTTTTTCCCGCCGCAAAAAAACCGCCGTtc < 1:207105/87‑1 (MQ=21)cacccGCGCTTTTACCCACCCCCATGTGAAAAAATCCCTTCGG‑GGGGGTTTTCGCCCAGCTTTTTTCCCGCCGCAAAAAAACCGCCGTtc < 1:553094/87‑1 (MQ=255)cacccGCGCTTTTACCCACCCCCATGTGAAAAAATCCCTTCGG‑GGCGGCTGTCTGCCAGCTTTTTTCCCGCCGCAAAAAAACCGCCGTtc < 1:222359/87‑1 (MQ=21)cacccGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGC‑GGCGGCTGTCTGCCAGCTTTTTTTCCGCCGCAAAAAAACCGCCGTtc < 1:121009/87‑1 (MQ=21)cacccGCGCATTTACCCACCGCCATGTGAAAAAATGCCTTCGG‑GGCGGCTGTCTGCCAGCTTTTTTCCCGCCGCAAAAAAACCGCCGTtc < 1:164698/87‑1 (MQ=21)aacccGCGCTTTTATCCACCGCCATGTGAAAAAATGCCTTCGC‑GGGGGCTGTCTGCCAGCTTTTTTCCCGCCGCAACAAAACCGCCGTtc < 1:47578/87‑1 (MQ=21) cATTTACCAACCCCCATGTGAAAAAATGCTTTCGC‑GGCGGCTTTCTGCCAGTTTTTTTCCCGCCGCAACAAAACCGCCGTTCTCTCCagt < 1:194038/90‑1 (MQ=255) aCGCCATGTGCAAAAATGCCTTCGC‑GGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCgggg > 1:279124/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTTCGC‑GGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCgggg > 2:391569/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTTCGC‑GGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCgggg > 1:10027/1‑90 (MQ=255) aaaaaaGCCCTCGGGGGCGGCTTTCTCCCAGTTTTTTTCCCCCCAAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAAt < 2:41612/90‑1 (MQ=255) tCGG‑GGGGGCTGTCTGCCAGTTTTTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 1:373250/90‑1 (MQ=255) tCGG‑GGGGGCTGTCTCCCAGTTTTTTTCCCCCCAAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 1:74954/90‑1 (MQ=255) ccggggcggcTGTCGGCCAGTTTTTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 1:254963/86‑1 (MQ=255) ggggcTGTCTCCCAGTTTTTTTCCCGCCAAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCa < 2:195459/88‑1 (MQ=255) gccgcAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAAAAAATTTTAACCCCCCCAGTTTTGTGGGAAACGCTGCTggga > 1:244801/1‑88 (MQ=255) acaaAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAAtg < 1:478536/90‑1 (MQ=255) | CAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGC‑GGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATG > NZ_CP009273/353525‑353689 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |