| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 353,601 | 0 | C | A | 58.3% | ‑4.6 / 16.0 | 24 | L267F (TTG→TTT) | cynR | transcriptional regulator CynR |
| Reads supporting (aligned to +/- strand): ref base C (6/4); new base A (0/14); total (6/18) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.56e-03 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.48e-02 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
TTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTG > NZ_CP009273/353515‑353680 | tttCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACaaa > 2:228397/1‑90 (MQ=255) tCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑c > 2:149619/1‑90 (MQ=255) cGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑ccg > 2:86978/1‑90 (MQ=255) cacccGCGTATTTACCCACCCCCATGCAAAAAAAGCCTTTCGGGGCGGCTGTCGGCCAGCTTTTTTCCCCCCGCAAAAAAA‑CCGCCGTtc < 1:228397/87‑1 (MQ=255) cacccGCGCATTTACCCACCCCCTTGTGCAAAAATGCCTTCGCGGCGGTTGTCTGCCAGTTTTTTTCCCGCCGCAACAAAA‑CCGCCGTtc < 1:183170/87‑1 (MQ=21) caacCGCGCTTTTATCAACCCCCATGTGAAAAAATGCCTTCGCGGGGGCTGTCTGCCATTTATTTTTCCGCCGCAACAAAA‑CCGCCGTtc < 1:118599/90‑1 (MQ=25) ccGCGCTTTTCCCCACCCCCATGTGAAAAAATCCCTCCGGGGCGGCTGTCTGCCAGTTTTTTTCCCGCCGAAAAAAAA‑CCGCCGTtctct < 1:316568/90‑1 (MQ=16) gcATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCag > 1:395653/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCgggg > 2:146560/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCgggg > 2:30001/1‑90 (MQ=255) cccATGTGAAAAAATGCCTTCGCGGCGGCTGTCTCCCAGCTTTTTTCCCGCCGCAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCa < 1:164391/89‑1 (MQ=255) gaaaaaaTGCCTCCGGGGGGGTTGTCGACCATTTTTTTTCCCCCCGAAAAAAAC‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGaaa < 1:340472/88‑1 (MQ=255) aaaatTCCCTGCGCGGCGCCTGCCCGCCGGTTTTTTCCCCGCCGAAAAAAAC‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATa < 2:332866/90‑1 (MQ=255) tCGCGGCGGTTTTCTGCAAGTTATTTTCCCGCCCAAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 1:151304/90‑1 (MQ=255) ccggggcggcTGTCTCCCTGTTTTTTTCCCGCCCCAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGTGGGGCAAGAGAAATAGCTTTAAGcc < 1:398075/86‑1 (MQ=255) gTCGGCCAGTTTTTTTCCCCCCGCAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCAtgttgt < 1:25032/90‑1 (MQ=255) tttttcCCGCCGCAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 1:110895/89‑1 (MQ=255) tttttcCCCCCGAAAAAAAC‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 1:41801/89‑1 (MQ=255) tttttCCCCCCAAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 2:135420/90‑1 (MQ=255) tttttCCCCCCAAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 2:291171/90‑1 (MQ=255) tttcCCCCCGAAACAAAC‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgctg < 1:3918/90‑1 (MQ=255) tttCCGCCAAAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgctg < 2:289833/90‑1 (MQ=255) ccccgccaAAAAAAAC‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgctgct < 2:330028/88‑1 (MQ=255) cccgccgCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGctgctg < 1:33932/89‑1 (MQ=255) | TTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTG > NZ_CP009273/353515‑353680 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |