| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 353,601 | 0 | C | A | 55.0% | ‑3.0 / 13.8 | 20 | L267F (TTG→TTT) | cynR | transcriptional regulator CynR |
| Reads supporting (aligned to +/- strand): ref base C (4/5); new base A (0/11); total (4/16) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 2.60e-02 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.71e-02 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
AACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTA > NZ_CP009273/353523‑353683 | aacaccCGCGCTTTTACCCACCGCCATGTGAAAAAATGCCTTCGGGGCGGCTGTCTGCCAGCTTTTTTCCCGCCGCAAAAAAA‑CCGCCGt < 2:88072/90‑1 (MQ=21) cacccGCGCTTTTACCCACCGCCATGTGAAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTTTTTTCCCGCCGCAAAAAAA‑CCGCCGTtc < 2:395409/87‑1 (MQ=21) cacccGCGCTTTTACCCACCGCCATGTAAAAAAATGCCTTCGCGGCGGCTGTCGCCCAGCTTTTTTCCCGCCGCAACAAAA‑CCGCCGTtc < 2:875091/87‑1 (MQ=21) cacccGCGCATTTACCCACCCCCATGTGAAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTTTTTTTCCGCCGCAACAAAA‑CCGCCGTtc < 2:141718/87‑1 (MQ=25) gcgcATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTcc > 2:703809/1‑90 (MQ=255) gcgcATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTcc > 2:529264/1‑90 (MQ=255) cccACCGCCTTGTCAAAAAATGCCTTCGGGGGGGCTGTCTGCCAGTTTTTTTCCCGCCGCAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGc < 2:429301/89‑1 (MQ=255) aCGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGGGGCgggg > 1:452512/1‑90 (MQ=255) aaaaagTGCTTCCGGGGCGGCTTTCTCCCATTTTTTTTCCCGCCGAAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAAt < 2:514001/89‑1 (MQ=255) aaaaaaTGCCTTCGGGGGGGCTGTCTGCCAGTTTTTTTCCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAAt < 2:906586/89‑1 (MQ=255) aaaaaCCCCTCCGGGGGGGCTGTCTCCCATTTTTTTTCCCGCCAAAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATa < 1:406929/90‑1 (MQ=255) ccTTCGCGGCGGCTGTCTCCCAGTTTTTTTCCCCCCCCAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTaa < 2:407275/90‑1 (MQ=255) cTTCGGGGGGGCTGTCGGCCAGCTTTTTTCCCCCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAg < 2:237256/90‑1 (MQ=255) ttCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGAGGCGAGAGAAAAAACCTTaaac > 1:964035/1‑88 (MQ=255) ccggggcggtTGCCTGCCAGTTTTTTTCCCGCCCCAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 2:685997/86‑1 (MQ=255) gcTGTCTCCCAGCTTTTTTCCCGCCGCAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCAtgt < 2:131340/90‑1 (MQ=255) tGTCTGCCAGTTTTTTTCCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCAtgttg < 2:182985/90‑1 (MQ=255) tttttcCCGCCCCAAAAAAC‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 2:594170/89‑1 (MQ=255) tttCCCCCCCAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgctg < 1:776884/90‑1 (MQ=255) cccgcAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTa < 2:979744/89‑1 (MQ=255) | AACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTA > NZ_CP009273/353523‑353683 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |