| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 353,601 | 0 | C | A | 65.2% | ‑2.8 / 17.8 | 24 | L267F (TTG→TTT) | cynR | transcriptional regulator CynR |
| Reads supporting (aligned to +/- strand): ref base C (7/1); new base A (0/15); total (7/17) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 3.26e-05 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.89e-02 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
CGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAAC > NZ_CP009273/353519‑353685 | cGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑ccg > 1:359195/1‑90 (MQ=255) cacccGCGTTTTTACCCACCGCCATGTAAAAAAATCCCTGCGGGGCGGCTTTCTGCCAGCTATTTTTCCCCCCCAACAAAA‑CCGCCGTtc < 2:834057/87‑1 (MQ=255) cacccGCGTTTTTACCCACCCCCATGTAAAAAATTGCCTTCGGGGCGGTTGTCTGCCAGTTTTTTTCCCGCCGCAAAAAAA‑CCGCCGTtc < 2:176007/87‑1 (MQ=255) caacCGCGCATTTATCCAACGCCATGTGCAAAAATACCTTCGCGGCGGCTGTCGGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTtc > 2:965392/1‑90 (MQ=255) aacccGCCCTTTTACCCACCCCCATGTGCAAAAATGCCTTCGGGGGGGTTGTCTCCCATTTTTTTTCCCGCCGCAAAAAAA‑CCGCCGTtc < 2:359195/87‑1 (MQ=255) acccGCGCTTTTACCCACCCCCAGGTGAAAAAATGCCTCCGGGGGGCTTGTCCCCCAGCTTTTTTCCCCCCCCAAAAAAA‑CCGCCGTtct < 2:709395/88‑1 (MQ=255) cgcATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCa > 2:334522/1‑90 (MQ=255) ttACCCACCCCCATGGGAAAAAATCCCTTCGGGGCGGTTTTCGGCCAGTTTTTTTCCCGCGGCAA‑AAAA‑CCGCCGTTCTCTCCAGTAGTg < 1:987278/90‑1 (MQ=255) cccAGCGCCATGTAAAAAAATCCCTCCGGGGGGGCTGTCGCCCATTTTTTTTCCCGCCGCAAAAAAC‑CCGCCGTTCTCTCCAGTAGTGGc < 1:325312/89‑1 (MQ=255) aaCGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCggg > 2:636781/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCgggg > 1:788831/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCgggg > 2:724580/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGGTCTCTCCAGGAGTGGCgggg > 1:305797/1‑90 (MQ=255) ccATGTAAAAAAATGCCTTCGCGGGGGCTGTCTGCCAGTTTTTTTCCCGCCGAAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCaa < 2:134953/90‑1 (MQ=37) tCGGGGCGGCTGTCTCCCATTTTTTTTCCCCCCGAAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 2:927804/90‑1 (MQ=255) tCGCGGCGGTTGTCTGCCATTTTTTTTCCCGCCGAAAAAAAC‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 2:506880/90‑1 (MQ=255) ccggggcggtTGTCTGCCAGTTTTTTTCCCCCCAAAAAAAAC‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 1:909990/86‑1 (MQ=255) ccggggcggtTGTCGCCCAGTTTTTTTCCCCCCAAAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 1:814954/86‑1 (MQ=255) cttGTCGGCCA‑CTTTTTTTCCCCCCCAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCAtgt < 2:802278/88‑1 (MQ=255) ttttttCCGCCCAAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 1:866626/89‑1 (MQ=255) tttttcCCCCCGAAAAAAAC‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 1:718303/89‑1 (MQ=255) tttCCCCCCCAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgctg < 2:283977/90‑1 (MQ=255) cccgaAAAAAAC‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTa < 2:400775/89‑1 (MQ=255) cgcAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAAc < 1:160464/90‑1 (MQ=255) | CGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAAC > NZ_CP009273/353519‑353685 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |