| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 353,591 | 0 | T | C | 56.0% | 15.5 / 33.6 | 25 | K271E (AAA→GAA) | cynR | transcriptional regulator CynR |
| Reads supporting (aligned to +/- strand): ref base T (11/0); new base C (0/14); total (11/14) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 2.24e-07 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.46e-06 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
CTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGC > NZ_CP009273/353502‑353675 | cTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTAttttt > 1:407402/1‑90 (MQ=255) tCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGcaac > 1:120684/1‑90 (MQ=255) cacccGCGTTTTTACCCACCCCCTTGTAAAAAAATCCCTC‑GGGGGCGGCTTTCGGCGAGTTTTTTTCCCGCCGCAAAAAAA‑CCGCCGTtc < 1:586105/87‑1 (MQ=255) cacccGCGTTTTTACCCACCCCCATGTAAAAAAAGCCCTC‑CGGGGCGGCTGTCGCCCATTTTTTTTCCCGCCGAAAAAAAA‑CCGCCGTtc < 1:183104/87‑1 (MQ=255) cacccGCGTTTTTACCCACCCCCATGT‑AAAAAATTCCTTCCGGGGGGGCTGTCTCCCATTTTTTTTCCCGCCGAAAAAAAA‑CCGCCGTtc < 1:228992/87‑1 (MQ=255) cacccGCGCTTTTACCCACCCCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTTTTTTCCCGCCGCAAAAAAA‑CCGCCGTtc < 2:186740/87‑1 (MQ=21) ccGCGCTTTTACCCAACCCCATGGAAAAAAAGCCCTC‑CGGGGGGGCTTTCCCCCAGTTTTTTTCCCGCCGCAAAAAAA‑CCGCCGTtctct < 1:76393/90‑1 (MQ=255) ccGCGCATTTATCCAACGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTtctct > 1:712900/1‑90 (MQ=255) ccGCGATTTTACCAACCGCCATGGGAAAAATTGCTTG‑CGGGGGGGTTTTCTGCCAGCTTTTTTCCCGCCGAAAAAAAA‑CCGCCGTtctct < 2:407402/90‑1 (MQ=255) gcgcATTTATCCAACGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTcc > 2:434850/1‑90 (MQ=255) gcgcATTTATCCAACGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTcc > 2:205201/1‑90 (MQ=255) aTCCAACGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTgg > 1:10679/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCgggg > 1:528565/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCgggg > 2:483220/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCgggg > 1:178999/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTT‑CGCGGAGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCgggg > 2:257204/1‑90 (MQ=255) gCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCggggga > 1:38899/1‑88 (MQ=255) cccATGTAAAAAAATCCCTC‑CGGGGCGGCTGTCCGCCAGTTTTTTTCCCGCCGAAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCa < 2:712900/89‑1 (MQ=255) ccATGTAAAAAATTCCCTT‑CGGGGGGGCTTTCTGCCAGTTTTTTTCCCGCCAAAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCaa < 2:349585/90‑1 (MQ=255) aaaaaaCGCCTC‑CGGGGCGGCTGTCGGCCAGTTTTTTTCCCGCCAAAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAAt < 1:434850/89‑1 (MQ=255) aaaaTGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGGGGGAGaaaaaa > 2:114067/1‑87 (MQ=38) t‑CGGGGCGGCTGCCTGCAAGTTTTTTTCCCCCCCAAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 2:676627/90‑1 (MQ=255) ccggggcggtTTTCTCCCAGTTTTTTTCCCCCCGAAAAAAAC‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 1:286569/86‑1 (MQ=255) ccggggcggcTGTCCCCCATTTTTTTCCCCCCCACAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 1:504402/86‑1 (MQ=255) ggggcTGTCTGCCATTTTTTTTCCCGCCAAAAAAAAC‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCa < 1:377783/88‑1 (MQ=255) gcTGTCTCCCAGTTTTTTTCCCCCCCCAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCAtgt < 2:82166/90‑1 (MQ=255) tttttcCCGCCGCAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 2:19864/89‑1 (MQ=255) tttttcCCGCCGAAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 2:278342/89‑1 (MQ=255) tttttcCCGCCAAAAAAAAC‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 1:355552/89‑1 (MQ=255) tttttCCCCCCAAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 1:114067/90‑1 (MQ=255) | CTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑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: ‑ |