| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 1,931,867 | 0 | T | C | 50.8% | ‑4.6 / 98.0 | 63 | intergenic (+89/‑39) | hexR/pyk | DNA‑binding transcriptional regulator HexR/pyruvate kinase |
| Reads supporting (aligned to +/- strand): ref base T (13/18); new base C (13/19); total (26/37) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.75e-04 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
ATCGCGTTTTGATAAGCAGTTACTTAATTTAAGTGACGATCGCTAAAAACGACTGTCACTGTCCTAATCTTATACGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAGAACAAAAATCGTTACCACGTTAGGCCCAGCAACAGATCGCGATAATAATCTTGAAAAAGTTATCGCGGCGGGTGCC > NZ_CP009273/1931733‑1932001 | aTCGCGTTTTGATAAGCAGTTACTTAATTTAAGTGACGATCGCTAAAAACGACTGTCACTGTCCTAATCTTATACGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGtt < 2:18234/135‑1 (MQ=255)aTCGCGTTTTGATAAGCAGTTACTTAATTTAAGTGACGATCGCTAAAAACGACTGTCACTGTCCTAATCTTATACGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGtt > 1:18234/1‑135 (MQ=255)aTCGCGTTTTGATAAGCAGTTACTTAATTTAAGTGACGATCGCTAAAAACGACTGTCACTGTCCTAATCTTATACGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTCCAAg > 1:247523/1‑139 (MQ=255) aTAAGCAGTTACTTAATTTAAGTGACGATCGCTAAAAACGACTGTCACTGTCCTAATCTTATACGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTCCAAGCAACACCTgg < 1:381451/138‑1 (MQ=255) gCAGTTACTTAATTTAAGTGACGATCGCTAAAAACGACTGTCACTGTCCTAATCTTATACGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGgttgtt < 1:788020/139‑1 (MQ=255) gTTACTTAATTTAAGTGACGATCGCTAAAAACGACTGTCACTGTCCTAATCTTATACGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCa < 1:568436/139‑1 (MQ=255) aaTTTAAGTGACGATCGCTAAAAACGACTGTCACTGTCCTAATCTTATACGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCaa < 1:261044/137‑1 (MQ=255) aaTTTAAGTGACGATCGCTAAAAACGACTGTCACTGTCCTAATCTTATACGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTCCAAGCAACACCTGGTTGTTTCAGTCaa < 1:719324/137‑1 (MQ=255) aaTTTAAGTGACGATCGCTAAAAACGACTGTCACTGTCCTAATCTTATACGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTCCAAGCAACACCTGGTTGTTTCAGTCaa < 1:456986/137‑1 (MQ=255) aTTTAAGTGACGATCGCTAAAAACGACTGTCACTGTCCTAATCTTATACGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACg < 1:495478/138‑1 (MQ=255) aTTTAAGTGACGATCGCTAAAAACGACTGTCACTGTCCTAATCTTATACGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTCCAAGCAACACCTGGTTGTTTCAGTCAACgg < 2:118153/139‑1 (MQ=255) aTTTAAGTGACGATCGCTAAAAACGACTGTCACTGTCCTAATCTTATACGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTCCAAGCAACACCTGGTTGTTTCAGTCAACg < 2:746392/138‑1 (MQ=255) aTTTAAGTGACGATCGCTAAAAACGACTGTCACTGTCCTAATCTTATACGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTCCAAGCAACACCTGGTTGTTTCAGTCAACg > 1:543384/1‑138 (MQ=255) aTTTAAGTGACGATCGCTAAAAACGACTGTCACTGTCCTAATCTTATACGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTCCAAGCAACACCTGGTTGTTTCAGTCAACg < 2:543384/138‑1 (MQ=255) aTTTAAGTGACGATCGCTAAAAACGACTGTCACTGTCCTAATCTTATACGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTCCAAGCAACACCTGGTTGTTTCAGTCAACg > 1:1237984/1‑138 (MQ=255) aGTGACGATCGCTAAAAACGACTGTCACTGTCCTAATCTTATACGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTAt < 1:931457/139‑1 (MQ=255) aCGATCGCTAAAAACGACTGTCACTGTCCTAATCTTATACGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTAc < 1:1116725/138‑1 (MQ=255) cGATCGCTAAAAACGACTGTCACTGTCCTAATCTTATACGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACAt < 1:984898/139‑1 (MQ=255) gATCGCTAAAAACGACTGTCACTGTCCTAATCTTATACGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTCCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATg > 2:601172/1‑139 (MQ=255) actgtcactgtcCTAATCTTATACGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCg < 2:1074532/139‑1 (MQ=255) ctgtcactgtcCTAATCTTATACGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGc < 1:1062270/139‑1 (MQ=255) tcactgtcCTAATCTTATACGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTCCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAg > 2:1229784/1‑138 (MQ=255) gtcCTAATCTTATACGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTCCAAGCAACACCTGGTTGTTTCAGTCAACg > 1:909594/1‑104 (MQ=255) gtcCTAATCTTATACGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTCCAAGCAACACCTGGTTGTTTCAGTCAACg < 2:909594/104‑1 (MQ=255) aaTCTTATACGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCaa < 1:55009/77‑1 (MQ=255) aaTCTTATACGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCaa > 2:55009/1‑77 (MQ=255) aTCTTATACGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAGAACAAAAATc < 1:718289/137‑1 (MQ=255) aTCTTATACGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAGAACAAAAATCGt > 2:621605/1‑139 (MQ=255) ataCGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAGAACAAAAATCGTTAc < 2:135094/137‑1 (MQ=255) ataCGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAGAACAAAAATCGTTACCa > 1:1047730/1‑139 (MQ=255) ataCGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAGAACAAAAATCGTTACCa > 2:1186810/1‑139 (MQ=255) ataCGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAGAACAAAAATCGTTACCa > 1:1286415/1‑139 (MQ=255) ataCGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAGAACAAAAATCGTTACCa > 1:135094/1‑139 (MQ=255) ataCGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTCCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTAc < 2:538850/102‑1 (MQ=255) ataCGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTCCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTAc > 1:538850/1‑102 (MQ=255) ataCGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTCCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAGAACAAAAATCGTTACCa > 2:901705/1‑139 (MQ=255) aCATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAGAACAAAAATCGTTACCACGt > 2:48152/1‑137 (MQ=255) aCATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAGAACAAAAATCGTTACCACGTTa < 1:792907/139‑1 (MQ=255) aCATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTCCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAGAACAAAAATCGTTACCACGTTa < 1:712142/139‑1 (MQ=255) cATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAGAACAAAAATCGTTACCACGTTAg > 1:370050/1‑139 (MQ=255) cATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAGAACAAAAATCGTTACCACGTTAg > 2:479103/1‑139 (MQ=255) cATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTCCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACAt < 1:1253558/98‑1 (MQ=255) cATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTCCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACAt > 2:1253558/1‑98 (MQ=255) cATCCGAATGAGATTAATTTATAGCCATCGCGGCGTCATTTCATTCGGATTTCATGATCAAGCATCCCGTGGCTGTTTCAGTCAACGGAGTATTAGATGTCCAGAAGACTCCGCAGTACAACAGTCGTTAACATGTCAg > 2:522023/1‑139 (MQ=255) aTCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTgg < 2:1154164/71‑1 (MQ=255) aTCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTgg > 1:1154164/1‑71 (MQ=255) tCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAGAACAAAAATCGTTACCACGTTAGGc > 2:1244962/1‑139 (MQ=255) cGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTCCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAGAACAAAAATCGTTACCACGTTAGGcc < 1:1139615/138‑1 (MQ=255) cGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTCCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAGAACAAAAATCGTTACCACGTTAGGcc < 2:1288202/138‑1 (MQ=255) cGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTCCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAGAACAAAAATCGTTACCACGTTAGGcc < 1:901705/138‑1 (MQ=255) agaTTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAGAACAAAAATCGTTACCACGTTAGGCCCAGCaa < 2:162017/138‑1 (MQ=255) agaTTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAGAACAAAAATCGTTACCACGTTAGGCCCAGCaa > 1:162017/1‑138 (MQ=255) aaTTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTCCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAGAACAAAAATCGTTACCACGTTAGGCCCAGCAACAGAt < 2:247523/138‑1 (MQ=255) aTTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTCCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAGAACAAAAATCGTTACCACGTTAGGCCCAGCAACAGATcg < 2:1237984/139‑1 (MQ=255) aTCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTCCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAGAACAAAAATCGTTACCACGTTAGGCCCAGCAACAGATCGCGa > 1:1145563/1‑138 (MQ=255) cGCCATCGCGGCGTTATTTCATTCGGATTTCATGTCCAAGCAACACCTGGTTGTTTCAGTCAACGGAg < 2:66414/68‑1 (MQ=255) cGCCATCGCGGCGTTATTTCATTCGGATTTCATGTCCAAGCAACACCTGGTTGTTTCAGTCAACGGAg > 1:66414/1‑68 (MQ=255) ttCGGATTTCATGTCCAAGCAACACCTGGTTGTTTCAGTCaa > 2:1066995/1‑42 (MQ=255) ttCGGATTTCATGTCCAAGCAACACCTGGTTGTTTCAGTCaa < 1:1066995/42‑1 (MQ=255) ggATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAGAACAAAAATCGTTACCACGTTAGGCCCAGCAACAGATCGCGATAATAATCTTGAAAAAGTTATCgcggc < 1:1267443/139‑1 (MQ=255) gATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAGAACAAAAATCGTTACCACGTTAGGCCCAGCAACAGATCGCGATAATAATCTTGAAAAAGTTATCgcggcg < 1:900264/139‑1 (MQ=255) gATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAGAACAAAAATCGTTACCACGTTAGGCCCAGCAACAGATCGCGATAATAATCTTGAAAAAGTTATCgcggcg < 1:48152/139‑1 (MQ=255) aTTTCATGTCCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAGAACAAAAATCGTTACCACGTTAGGCCCAGCAACAGATCGCGATAATAATCTTGAAAAAGTTATCGcggcgg > 2:706131/1‑139 (MQ=255) aTGTCCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAGAACAAAAATCGTTACCACGTTAGGCCCAGCAACAGATCGCGATAATAATCTTGAAAAAGTTATCGCGGCGGGTGcc < 2:382706/139‑1 (MQ=255) aTGTCCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAGAACAAAAATCGTTACCACGTTAGGCCCAGCAACAGATCGCGATAATAATCTTGAAAAAGTTATCGCGGCGGGTGc < 1:706131/138‑1 (MQ=255) | ATCGCGTTTTGATAAGCAGTTACTTAATTTAAGTGACGATCGCTAAAAACGACTGTCACTGTCCTAATCTTATACGACATCCGAATGAGATTAATTTATCGCCATCGCGGCGTTATTTCATTCGGATTTCATGTTCAAGCAACACCTGGTTGTTTCAGTCAACGGAGTATTACATGTCCAGAAGGCTTCGCAGAACAAAAATCGTTACCACGTTAGGCCCAGCAACAGATCGCGATAATAATCTTGAAAAAGTTATCGCGGCGGGTGCC > NZ_CP009273/1931733‑1932001 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |