| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 1,869,539 | 0 | G | C | 66.7% | 34.5 / 25.1 | 27 | P99A (CCG→GCG) | nimR | DNA‑binding transcriptional regulator NimR |
| Reads supporting (aligned to +/- strand): ref base G (3/6); new base C (9/9); total (12/15) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 6.83e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GCACGCTGAGTCGTCGTCCTGTTTGCCAGGGTTAAAATTAATTCCCGGCATAAGGGCGATATTTTCAATGTGCAACATGTTGTCGGCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTAGCTGTTACTTGATTGCTATGTTCCACCCCGCCCG > NZ_CP009273/1869454‑1869622 | gCACGCTGAGTCGTCGTCCTGTTTGCCAGGGTTAAAATTAATTCCCGGCATAAGGGCGATATTTTCAATGTGCAACATGTTGTCGGCAtt > 2:743629/1‑90 (MQ=255)gCACGCTGAGTCGTCGTCCTGTTTGCCAGGGTTAAAATTAATTCCCGGCATAAGGGCGATATTTTCAATGTGCAACATGTTGTCGCCAtt > 2:716161/1‑90 (MQ=255)gCACGCTGAGCCGTCGTCCTGTTTGCCAGGGTTAAAATTAATTCCCGGCATAAGGGCGATATTTTCAATGTGCAACATGTTGTCGCCAtt < 1:453197/90‑1 (MQ=255) aaaaTTAATTCCCGGCATAAGGGCGATATTTTCAATGTGCAACATGTTGTCGCCATTGTCACTGCGCTGGGTTCGATaaacagaaaacag < 1:7627/90‑1 (MQ=255) gttaattCCCGGCATAAGGGCGATATTTTCAATGTGCAACATGTTGTCGCCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGt < 2:781540/89‑1 (MQ=255) taattCCCGGCATAAGGGCGATATTTTCAATGTGCAACATGTTGTCGGCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTc < 1:743629/90‑1 (MQ=255) taattCCCGGCATAAGGGCGATATTTTCAATGTGCAACATGTTGTCGCCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTc < 1:426029/90‑1 (MQ=255) taattCCCGGCATAAGGGCGATATTTTCAATGTGCAACATGTTGTCGCCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTc > 2:35797/1‑90 (MQ=255) aattCCCGGCATAAGGGCGATATTTTCAATGTGCAACATGTTGTCGCCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCa < 1:60737/90‑1 (MQ=255) aattCCCGGCATAAGGGCGATATTTTCAATGTGCAACATGTTGTCGCCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCa < 2:742442/90‑1 (MQ=255) aattCCCGGCATAAGGGCGATATTTTCAATGTGCAACATGTTGTCGCCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCa > 2:389768/1‑90 (MQ=255) cccGGCTTAAGGGCGATGTCTTAAAAAAGCAAAAACTTGTGGGCAGTGTCACTGTTCTGGGTTCGATAAAAAGAAACCAGAGTCCAACAt < 2:756415/90‑1 (MQ=255) cGGCATAAGGGCGATATTTTCAATGTGCAACATGTTGTCGGCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTa > 1:290539/1‑90 (MQ=255) cGGCATAAGGGCGATATTTTCAATGTGCAACATGTTGTCGCCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTa > 1:366866/1‑90 (MQ=255) cATAAGGGCGATATTTTCAATGTGCAACATGTTGTCGGCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTAGCt < 2:817479/90‑1 (MQ=255) cATAAGGGCGATATTTTCAATGTGCAACATGTTGTCGGCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTAGCt < 2:259810/90‑1 (MQ=255) gATATTTTCAATGTGCAACATGTTGTCGCCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTAGCTGTTACTTGa > 1:44228/1‑90 (MQ=255) gATATTTTCAATGTGCAACATGTTGTCGCCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTAGCTGTTACTTGa > 1:131806/1‑90 (MQ=255) gATATTTTCAATGTGCAACATGTTGACGCCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTc < 2:322771/71‑1 (MQ=255) gATATTTTCAATGTGCAACATGTTGACGCCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTc > 1:322771/1‑71 (MQ=255) atatTTTCAATGTGCAACATGTTGTCGCCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTAGCTGTTACTTGAt < 1:738763/90‑1 (MQ=255) ttttCAATGTGCAACATGTTGTCGGCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTAGCTGTTACTTGATTGc < 1:229670/90‑1 (MQ=255) ttCAATGTGCAACATGTTGTCGGCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTAGCTGTTACTTGATTGCTa < 2:559430/90‑1 (MQ=255) tgtgCAACATGTTGTCGCCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTAGCTGTTACTTGATTGCTATGTTc > 1:757203/1‑90 (MQ=255) aCATGTTGTCGCCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTAGCTGTTACTTGATTGCTATGTTCCAcccc < 1:770527/90‑1 (MQ=255) ttgtCGGCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTAGCTGTTACTTGATTGCTATGTTCCACcccgcccg > 2:405132/1‑90 (MQ=255) ttgtCGCCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTAGCTGTTACTTGATTGCTATGTTCCACcccgcccg > 1:681761/1‑90 (MQ=255) | GCACGCTGAGTCGTCGTCCTGTTTGCCAGGGTTAAAATTAATTCCCGGCATAAGGGCGATATTTTCAATGTGCAACATGTTGTCGGCATTGTCACTGCGCTGGGTTCGATAAACAGAAAACAGAGTTCAGCATTAGCTGTTACTTGATTGCTATGTTCCACCCCGCCCG > NZ_CP009273/1869454‑1869622 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |