| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 3,941,210 | 0 | C | T | 60.0% | 1.1 / 16.7 | 15 | E40K (GAA→AAA) | hdfR | HTH‑type transcriptional regulator HdfR |
| Reads supporting (aligned to +/- strand): ref base C (2/4); new base T (9/0); total (11/4) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.10e-02 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.47e-04 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
TATGCGCCACCTCCTTACGGGCGGCCTGCCAGGTGCTCATGAGCGTTTCTGCATAAGGCAGTAGTTTTTCACCGGCAGCGGTTAAACGGATATTGTTTCTGTGGCGGGTGAAAAGGTTCACACCCAGTTGATTTTCCAGTTGTCT‑GATTCGAAAGCTCACTGCTGACTGGGTCAGATAGAGCGATTCAGCCGCTCGACCAAAGTGACGCGTTCGGCTAACTTCCAGGAAAGTTTTTAACAATTCCGTATCCACAGTGCT > NZ_CP009273/3941075‑3941333 | tATGCGCCACCTCCTTACGGGCGGCCTGCCAGGTGCTCATGAGCGTTTCTGCATAAGGCAGTAGTTTTTCACCGGCAGCGGTTAAACGGATATTGTTTCTGTGGCGGGGTAAAAAGTTCACACCCAGTTGGTTTTTCAg > 2:48184/1‑139 (MQ=255) tGCGCCACCTCCTTACGGGCGGCCTGCCAGGTGCTCATGAGCGTTTCTGCATAAGGCAGTAGTTTTTCACCGGCAGCGGTTAAACGGATATTGTTTCTGTGGCGGGTGAAAAGGTTTCCACCCCGCTGATTTTTCAGtt > 1:27667/1‑139 (MQ=255) gcggcCTGCCAGGTGCTCATGAGCGTTTCTGCATAAGGCAGTAGTTTTTCACCGGCAGCGGTTAAACGGATATTGTTTCTGTGGCGGGTGGAAAGGGTCACCACCACATGATTTTTCTGTTTTTT‑GGTTTGGAAACTCa > 2:65201/1‑139 (MQ=255) gcCTGCCAGGTGCTCATGAGCGTTTCTGCATAAGGCAGTAGTTTTTCACCGGCAGCGGTTAAACGGATATTGTTTCTGTGGCGGGGGGAAAAGGTCACACCCAGATGGTTTTTCAGTTGTTT‑GGTTCGGAAACTCActg > 2:18466/1‑139 (MQ=255) ggCAGTAGTTTTTCACCGGCAGCGGTTAAACGGATATTGTTTCTGTGGCGGGCGAAAAAGGTCACACCCTGTTGATTTTTCTGTTGTCTGGATTGCAAAG‑TCACCGTCGACCGGGTTAGTTCGAGCGATTCAGCCGCTc > 2:177018/1‑139 (MQ=255) agtagtTTTTCACCGGCAGCGGTTAAACGGATATTGTTTCTGTGGCGGGTGAAAAAGGTCACACCCAGTTGATTTTTCCGTTGTCT‑GATTCGAAAACTCACTGCTGACTGGGTCAGATAGAGCGATTCAGCCGCTCGAc > 1:140724/1‑139 (MQ=255) tagtTTTTCACCGGCAGCGGTTAAACGGATATTGTTTCTGTGGCGGGTGAAAAGGGTCACACCCCGTTGATTTTTTTGTTGTCT‑TGTTTGGAAGATCACTGCTGACTGGGGCAGATTGAGGGGTTCAGCCGCTCGAcc > 2:224264/1‑138 (MQ=255) tagtTTTTCACCGGCAGCGGTTAAACGGATATTGTTTCTGTGGCGGGTGAAAAAGGTTACACCCAGGTGGTTTTTCAGTTTTTT‑GTTTCGAAAGATCACTGCTGACCGGGGCAGATAGAGGGGTTCTGCCCCTCGAcc > 2:95667/1‑138 (MQ=255) atTGTTTCTGTGGCGGGGGAAAAAGGTTAAAACCAGTTGGTTTTTCAATTTTTT‑GATTTGAAAACTCACTGCTGACTGGGGCAGGAAAAGCGATTCCACAGCTCGAACCAAGTGACGCGTTCGGCTAACTTCCAGGa > 1:120053/1‑137 (MQ=255) tgGCGGGTGAAAAGGTTCACACCCAGTTGATTTTCCAGTTGTCT‑GATTCGAAAGCTCACTGCTGACTGGGTCAGATAGAGCGATTCAGCCGCTCGACCAAAGTGACGCGTTCGGCTAACTTCCAGGAAAGTTTTTaa < 1:224264/137‑1 (MQ=255) gggTGAAAAGGTTCACACCCAGTTGATTTTCCAGTTGTCT‑GATTCGAAAGCTCACTGCTGACTGGGTCAGATAGAGCGATTCAGCCGCTCGACCAAAGTGACGCGTTCGGCTAACTTCCAGGAAAGTTTTTAACAATTc < 1:18466/139‑1 (MQ=255) tCACACCCAGTTGATTTTCCAGTTGTCT‑GATTCGAAAGCTCACTGCTGACTGGGTCAGATAGAGCGATTCAGCCGCTCGACCAAAGTGACGCGTTCGGCTAACTTCCAGGAAAGTTTTTAACAATTCCGTATCcaca > 1:159565/1‑137 (MQ=255) tCACACCCAGTTGATTTTCCAGTTGTCT‑GATTCGAAAGCTCACTGCTGACTGGGTCAGATAGAGCGATTCAGCCGCTCGACCAAAGTGACGCGTTCGGCTAACTTCCAGGAAAGTTTTTAACAATTCCGTATCcaca < 2:159565/137‑1 (MQ=255) gTTGATTTTCCAGTTGTCT‑GATTCGAAAGCTCACTGCTGACTGGGTCAGATAGAGCGATTCAGCCGCTCGACCAAAGTGACGCGTTCGGCTAACTTCCAGGAAAGTTTTTAACAATTCCGTATCCACAGTGct < 1:236638/133‑1 (MQ=255) gTTGATTTTCCAGTTGTCT‑GATTCGAAAGCTCACTGCTGACTGGGTCAGATAGAGCGATTCAGCCGCTCGACCAAAGTGACGCGTTCGGCTAACTTCCAGGAAAGTTTTTAACAATTCCGTATCCACAGTGct > 2:236638/1‑133 (MQ=255) | TATGCGCCACCTCCTTACGGGCGGCCTGCCAGGTGCTCATGAGCGTTTCTGCATAAGGCAGTAGTTTTTCACCGGCAGCGGTTAAACGGATATTGTTTCTGTGGCGGGTGAAAAGGTTCACACCCAGTTGATTTTCCAGTTGTCT‑GATTCGAAAGCTCACTGCTGACTGGGTCAGATAGAGCGATTCAGCCGCTCGACCAAAGTGACGCGTTCGGCTAACTTCCAGGAAAGTTTTTAACAATTCCGTATCCACAGTGCT > NZ_CP009273/3941075‑3941333 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |