| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 353,591 | 0 | T | C | 62.5% | ‑0.2 / 15.0 | 16 | K271E (AAA→GAA) | cynR | transcriptional regulator CynR |
| Reads supporting (aligned to +/- strand): ref base T (4/2); new base C (0/10); total (4/12) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 8.24e-03 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.53e-04 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
CTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGC > NZ_CP009273/353502‑353675 | cTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTAttttt > 1:741437/1‑90 (MQ=255) gTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTccgcc < 2:744188/90‑1 (MQ=255) gTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTccgcc > 2:633191/1‑90 (MQ=255) cacccGCGCTTTTACCCAACCCCATGTAAAAAAATCCCTCC‑GGGGGGGCTGTCTGCCAGTTTTTTTCCCGCCGCAAAAAAA‑CCGCCGTtc < 2:331428/87‑1 (MQ=255) ccGCGCTTTTACCCACCCCCATGTCAAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGTTTTTTTCCCGCCGCAACAAAA‑CCGCCGTtctct < 2:408855/90‑1 (MQ=25) cATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCagt > 2:430078/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCgggg > 2:84768/1‑90 (MQ=255) aTGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTccgcc > 2:787865/1‑49 (MQ=255) aTGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTccgcc < 1:787865/49‑1 (MQ=255) aaaaaTCCCTCG‑GGGGGGTCTGTCTGCCTTTTTTTTTCCCCCCGCAACAAAC‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATa < 1:113792/90‑1 (MQ=255) aaaaTTCCTTCGGGGGGGGTTGTCGGCCACTTTTTTTCCCGCCGCAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATa < 2:399628/90‑1 (MQ=255) ccTCC‑GCGGCGGCTGTCTCCCACTTTTTTTCCCGCCGAAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTaa < 2:413731/90‑1 (MQ=255) tC‑GGGGCGCCTGTCTCCCACCTTTTTTCCCCCCCCAACAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 2:412808/90‑1 (MQ=255) cc‑gcgGGGTCTCTCTGCCAGTTTTTTTCCCGCCAAAAAAAAC‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 1:235487/89‑1 (MQ=255) cgggggcggcTCTCGGCCGTTTTTTTTCCCGCCGAAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 1:1520/86‑1 (MQ=255) ggcgccTGCCTGCCATTTTTTTTCCCCCCGAAAAAAAC‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTc < 1:412330/90‑1 (MQ=255) gcTTTCTGCCAGTTTTTTTCCCCCCAAAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCAtgt < 1:633191/90‑1 (MQ=255) tttttcCCCCCGAAAAAAAA‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 2:239123/89‑1 (MQ=255) tttttCCCCCCCAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 2:674596/90‑1 (MQ=255) | CTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTC‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAA‑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 < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |