| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 3,941,183 | 0 | T | G | 60.0% | 10.5 / 16.1 | 15 | T49P (ACC→CCC) | hdfR | HTH‑type transcriptional regulator HdfR |
| Reads supporting (aligned to +/- strand): ref base T (0/6); new base G (9/0); total (9/6) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 2.00e-04 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.47e-04 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GCCTGCCAGGTGCTCATGAGCGTTTCTGCATAAGGCAGTAGTTTTTCACCGGCAGCGGTTAAACGGATATTGTTTCTGTGGCGGGTGAAAAGGTTCACACCCAGTTGATTTTCCAGTTGTCTGATTCGAAAGCTCACTGCTGACTGGGTCAGATAGAGCGATTCAGCCGCT > NZ_CP009273/3941098‑3941268 | gcCTGCCAGGTGCTCATGAGCGTTTCTGCATAAGGCAGTAGTTTTTCACCGGCAGCGGTTAAACGGATATTGTTTCTGTGGCGGGTGaaa < 2:464066/90‑1 (MQ=255) tCATGAGCGTTTCTGCATAAGGCAGTAGTTTTTCACCGGCAGCGGTTAAACGGATATTGTTTCTGTGGCGGGTGAAAAGGTTCACACCCa < 2:210518/90‑1 (MQ=255) gCGTTTCTGCATAAGGCAGTAGTTTTTCACCGGCAGCGGTTAAACGGATATTGTTTCTGTGGCGGGTGAAAAg < 2:430999/73‑1 (MQ=255) gCGTTTCTGCATAAGGCAGTAGTTTTTCACCGGCAGCGGTTAAACGGATATTGTTTCTGTGGCGGGGGAAAAg > 1:430999/1‑73 (MQ=255) aGGCAGTAGTTTTTCACCGGCAGCGGTTAAACGGATATTGTTTCTGTGGCGGGGGAAAAAGTTCACACCCAGTTGATTTTCCAGTTGTCt > 1:82947/1‑90 (MQ=255) aGGCAGTAGTTTTTCACCGGCAGCGGTTAAACGGATATTGTTTCTGTGGCGGGGGAAAAAGGTTACACCCAGTTGATTTTTCAGTTGttt > 1:197972/1‑88 (MQ=255) gtagtTTTTCACCGGCAGCGGTTAAACGGATATTGTTTCTGTGGCGGGGGGAAAAGGTCACACCCCGGTGATTTTTCCGTTGTTTGGTTc > 2:139283/1‑90 (MQ=255) gtagtTTTTCACCGGCAGCGGTTAAACGGATATTGTTTCTGTGGCGGGGGAAAAGGTTCACACCCAGTTGATTTTTCAGTTGTCTGATTc > 1:129586/1‑90 (MQ=255) gtTTTTCACCGGCAGCGGTTAAACGGATATTGTTTCTGTGGCGGGTGAAAAGGTTCACACCCAGTTGATTTTCCAGTTGTCTGATTCGaa < 2:159792/90‑1 (MQ=255) ggCAGCGGTTAAACGGATATTGTTTCTGTGGCGGGTGAAAAGGTTCACACCCAGTTGATTTTCCAGTTGTCTGATTCGAAAGCTCActgc < 1:72707/90‑1 (MQ=255) gATATTGTTTCTGTGGCGGGGGAAAAAGGTTACACCCAGTTGATTTTTCCGTTGTCTTATTTGAAAACCCACTGCTGACTGGGGCAGATa > 1:368598/1‑90 (MQ=255) tatTGTTTCTGTGGCGGGTGAAAAGGTTCACACCCAGTTGATTTTCCAGTTGTCTGATTCGAAAGCTCACTGCTGACTGGGTCAGATaga < 2:96438/90‑1 (MQ=255) gTTTCTGTGGCGGGGGAAAAAGTTCACACCCCGTTGTTTTTTCAGTTTTTTGTTTTTAAAACTCACTTCTGACTGGGGCAGATAGAGCgg > 1:329980/1‑89 (MQ=255) cGGGGGAAAAAGGTCACACCCCGGTGATTTTTCCGTTGTTTGATTTGAAAGATCACTGCTGACTGGGGCAGATAGAGCGATTTAGCCGCt > 2:338947/1‑90 (MQ=255) cGGGGGAAAAAGGTCACACCCAGTTGATTTTTCAGTTGTTTTGTTTGAAAACTCACTGCTGACTGGGGCAGATAGAGGGATTTAGCCCCt > 2:494162/1‑90 (MQ=255) | GCCTGCCAGGTGCTCATGAGCGTTTCTGCATAAGGCAGTAGTTTTTCACCGGCAGCGGTTAAACGGATATTGTTTCTGTGGCGGGTGAAAAGGTTCACACCCAGTTGATTTTCCAGTTGTCTGATTCGAAAGCTCACTGCTGACTGGGTCAGATAGAGCGATTCAGCCGCT > NZ_CP009273/3941098‑3941268 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |