| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | NZ_CP009273 | 3,339,127 | A→G | Q351R (CAG→CGG) | rpoN → | RNA polymerase factor sigma‑54 |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 3,339,127 | 0 | A | G | 86.4% | 52.2 / 3.3 | 22 | Q351R (CAG→CGG) | rpoN | RNA polymerase factor sigma‑54 |
| Reads supporting (aligned to +/- strand): ref base A (1/2); new base G (7/12); total (8/14) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.03e-01 | |||||||||||
CAGGATGCCAAATGGTTGATCAAGAGTCTGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTATCGTTGAACAGCAGCAAGCCTTCTTTGAGCAAGGTGAAGAATATATGAAACCGATGGTACTGGCCGATATCGCCCAGG > NZ_CP009273/3339045‑3339192 | cAGGATGCCAAATGGTTGATCAAGAGTCTGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTATCGTTGAACAGCGGCAAGcc < 1:162754/90‑1 (MQ=255)cAGGATGCCAAATGGTTGATCAAGAGTCTGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTATCGTTGAACAGCGGCAAGcc < 2:379197/90‑1 (MQ=255) ggATGCCAAATGGTTGATCAAGAGTCTGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTATCGTTGAACAGCGGCAAGCctt > 2:293562/1‑90 (MQ=255) tGCCAAATGGTTGATCAAGAGTCTGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTATCGTTGAACAGCGGCAAGCcttctt > 2:93713/1‑90 (MQ=255) aaaTGGTTGATCAAGAGTCTGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTATCGTTGAACAGCAGCAAGcc < 1:179240/81‑1 (MQ=255) aaaTGGTTGATCAAGAGTCTGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTATCGTTGAACAGCAGCAAGcc > 2:179240/1‑81 (MQ=255) aTGGTTGATCAAGAGTCTGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTATCGTTGAACAGCGGCAAGCCTTCTTTGAGCa < 1:433134/90‑1 (MQ=255) aTGGTTGATCAAGAGTCTGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTATCGTTGAACAGCGGCAAGCCTTCTTTGAGCa < 2:16578/90‑1 (MQ=255) gATCAAGAGTCTGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTATCGTTGAACAGCGGCAAGCCTTCTTTGAGCAAGGTga < 1:351968/90‑1 (MQ=255) gATCAAGAGTCTGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTATCGTTGAACAGCGGCAAGCCTTCTTTGAGCAAGGTga < 1:376416/90‑1 (MQ=255) aaGAGTCTGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTATCGTTGAACAGCGGCaa < 2:227538/66‑1 (MQ=255) aaGAGTCTGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTATCGTTGAACAGCGGCaa > 1:227538/1‑66 (MQ=255) gagTCTGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTATCGTTGAACAGCGGCaa < 1:329343/64‑1 (MQ=255) gagTCTGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTATCGTTGAACAGCGGCaa > 2:329343/1‑64 (MQ=255) cTGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTATCGTTGAACAGCGGCAAGCCTTCTTTGAGCAAGGTGAAGAATATATg > 2:377091/1‑90 (MQ=255) tGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTATCGTTGAACAGCAGCAAGCCTTCTTTGAGCAAGGTGAAGAATATATGa < 2:2758/90‑1 (MQ=255) ccGTAACGATACGCTACTGCGCGTGAGTCGCTGTATCGTTGAACAGCGGCAAGCCTTCTTTGAGCAAGGTGAAGAATATATGAAACCGAt < 1:377091/90‑1 (MQ=255) ccGTAACGATACGCTACTGCGCGTGAGTCGCTGTATCGTTGAACAGCGGCAAGCCTTCTTTGAGCAAGGTGAAGAATATATGAAACCGAt > 2:388689/1‑90 (MQ=255) aCGATACGCTACTGCGCGTGAGTCGCTGTATCGTTGAACAGCGGCAAGCCTTCTTTGAGCAAGGTGAAGAATATATGAAACCGATGGTAc < 2:431430/90‑1 (MQ=255) aCGCTACTGCGCGTGAGTCGCTGTATCGTTGAACAGCGCCAAGCCTTCTTTGAGCAAGGTGAAGAATATATGAAACCGATGGTACTGGcc < 1:475318/90‑1 (MQ=255) gcgTGAGTCGCTGTATCGTTGAACAGCGGCAAGCCTTCTTTGAGCAAGGTGAAGAATATATGAAACCGATGGTACTGGCCGATATCGccc < 1:391669/90‑1 (MQ=255) tGAGTCGCTGTATCGTTGAACAGCGGCAAGCCTTCTTTGAGCAAGGTGAAGAATATATGAAACCGATGGTACTGGCCGATATCGCCCAgg > 1:14962/1‑90 (MQ=255) | CAGGATGCCAAATGGTTGATCAAGAGTCTGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTATCGTTGAACAGCAGCAAGCCTTCTTTGAGCAAGGTGAAGAATATATGAAACCGATGGTACTGGCCGATATCGCCCAGG > NZ_CP009273/3339045‑3339192 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |