| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 353,601 | 0 | C | A | 52.6% | 5.9 / 22.2 | 19 | L267F (TTG→TTT) | cynR | transcriptional regulator CynR |
| Reads supporting (aligned to +/- strand): ref base C (7/2); new base A (0/10); total (7/12) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 7.14e-04 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.29e-02 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
ATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAA > NZ_CP009273/353514‑353684 | aTTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGTCAGCTATTTTTCCGCCGcaacaa > 1:477965/1‑90 (MQ=255) cacccGCGCTTTTCCCCAACGCCATGTAAAAAAATGCCTTCGGGGCGGCTGTCTGCCAGTTTTTTTCCCGCCGAAAAAAAACCGCCGTtc < 2:644312/87‑1 (MQ=12) cacccGCGCTTTTACCCACCGCAATGTAAAAAAATGCCTTCGGGGCGGCTGTCTGCCAGCTTTTTTCCCGCCGAAAAAAAACCGCCGTtc < 2:779396/87‑1 (MQ=16) cacccGCGCTTTTACCCAACGCCATGTGAAAAAATGCCTCGGGGGCGGTTGTCTGCCAGTTTTTTTCCCGCCGCAACAAAACCGCCGTtc < 2:909083/87‑1 (MQ=255) cgcATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCa > 2:612549/1‑90 (MQ=255) tttATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCagtag > 1:100176/1‑90 (MQ=255) cccAACGCCTTTTGAAAAAATGCCTTCGGGGCGGCTGTCTGCCAGCTTTTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGc < 2:266071/89‑1 (MQ=25) ccAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCg > 1:393032/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCgggg > 1:236576/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCgggg > 2:926006/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCgggg > 2:419334/1‑90 (MQ=255) cccATGTGAAAAATTCCCTTCGCGGCGGTTGTCTGCCAGTTTTTTTCCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCa < 2:100176/89‑1 (MQ=255) ttgtgAAAAATTCCCTCCGGGGGGGTTGTCTGCCAGTTTTTTTCCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAaga < 2:556232/89‑1 (MQ=255) aTGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGGAaga > 2:518586/1‑90 (MQ=255) aaaaaaTGCCTCCGGGGCGGCTGTCTGCCAGTTTTTTTCCCGCCAAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAAt < 1:847558/89‑1 (MQ=255) gcggtTGTCTGCCAGTTTTTTTCCCCCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCa < 2:579677/90‑1 (MQ=255) gcggtTGTCTGCCAGCTTTTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCa < 2:111812/90‑1 (MQ=255) tttttcCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCAGTCATGTTGTGTGGCAATCgc < 2:589501/89‑1 (MQ=255) cccgcACAAAATCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTa < 2:554409/89‑1 (MQ=255) ccgcAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTaa < 2:177841/90‑1 (MQ=255) | ATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAA > NZ_CP009273/353514‑353684 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |