| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 353,591 | 0 | T | C | 55.0% | 10.6 / 23.7 | 20 | K271E (AAA→GAA) | cynR | transcriptional regulator CynR |
| Reads supporting (aligned to +/- strand): ref base T (7/2); new base C (0/11); total (7/13) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.64e-04 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.01e-04 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
CTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGC > NZ_CP009273/353502‑353675 | cTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTAttttt > 1:177661/1‑90 (MQ=255)cTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTAttttt > 1:207673/1‑90 (MQ=255)cTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTAttttt > 1:362280/1‑90 (MQ=255) tGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTccgccg < 1:180944/90‑1 (MQ=255) tGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTccgccg > 1:507397/1‑90 (MQ=255) aTTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGcaacaa > 2:705438/1‑90 (MQ=255) tttCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACaaa > 1:702212/1‑90 (MQ=255) gCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑ccgc > 1:493699/1‑90 (MQ=255) cacccGCGCTTTTACCCACCCCATTGTGAAAAAATCCTTTCGGGGGGGCTGTCTGCCAGCTTTTTTCCCGCCGCAAAAAAA‑CCGCCGTtc < 2:362280/87‑1 (MQ=255) cacccGCGCATTTACCCACCCCCATGTGAAAAAATGCCTTCGCGGCGGCTGTCTGCCAGTTTTTTTCCCGCCGAAAAAAAA‑CCGCCGTtc < 2:493699/87‑1 (MQ=18) cacccGCGCATTTACCCACCCCCATGGAAAAAAATGCCTTCGGGGGGGCTTTCGGCCAGTTTTTTTCCCGCCGAAAAAAAA‑CCGCCGTtc < 2:710130/87‑1 (MQ=255) caacCGCGCTTTTACCCAACGCCATGTGAAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTTTTTTTCCCCCGCAAAAAAA‑CCGCCGTtc < 2:541330/90‑1 (MQ=21) caacCGCGCATTTACCCACCCCCATGGAAAAAAATGCCTTCGCGGGGGCTGTCTGCCAGCTTTTTTCCCGCCGCAAAAAAA‑CCGCCGTtc < 2:328442/90‑1 (MQ=21) gcATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCag > 1:697161/1‑90 (MQ=255) cttttACCCACCGCCATGTGAAAAAATGCCTTCGGGGCGGCTGTCTGCCAGCTTTTTTCCCGCCGCAACAAAA‑CCGCCGTTCTCTCCagt < 2:260292/88‑1 (MQ=25) cccACCGCCATGTGAAAAAATCCCTCCGCGGCGGCTGTCTCCCAGCTTTTTTCCCGCCGCAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGc < 2:420064/89‑1 (MQ=255) cccccATGTAAAAAAATCCCTGCGGGGCGGTTGTCTCCCAGTTTTTTTCCCCCCGAAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCgggg < 2:710160/87‑1 (MQ=255) aCGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCgggg > 1:15217/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCgggg > 2:268309/1‑90 (MQ=255) ctccgcgGCGCCTGTCGGCCAGCTTTTTTCCCGCCGCAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAg < 2:241830/87‑1 (MQ=255) gggcggcTGTCTCCCATTTTTTTTCCCCCCAAAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGt < 1:583291/89‑1 (MQ=255) ggggcTGTCTGCCAGTTTTTTTCCCGCCGCAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCa < 2:177661/88‑1 (MQ=255) ctctCTGCCAGTTTTTTCCCCCCCAAAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCAtgtt < 1:615359/87‑1 (MQ=255) tttttcCCCCCGAAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 2:98265/89‑1 (MQ=255) tttttCCCCCCCAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 2:702212/90‑1 (MQ=255) | CTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGC > NZ_CP009273/353502‑353675 |
| 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: ‑ |