| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | NZ_CP009273 | 4,172,602 | A→C | E477A (GAG→GCG) | rpoB → | DNA‑directed RNA polymerase subunit beta |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 4,172,602 | 0 | A | C | 98.5% | 238.2 / ‑3.3 | 67 | E477A (GAG→GCG) | rpoB | DNA‑directed RNA polymerase subunit beta |
| Reads supporting (aligned to +/- strand): ref base A (0/1); new base C (36/30); total (36/31) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.63e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.37e-01 | |||||||||||
CGTAACGGTAAAGGCGAAGTCGATGATATCGACCACCTCGGCAACCGTCGTATCCGTTCCGTTGGCGAAATGGCGGAAAACCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGAGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGAACAACCCGCT > NZ_CP009273/4172478‑4172734 | cGTAACGGTAAAGGCGAAGTCGATGATATCGACCACCTCGGCAACCGTCGTATCCGTTCCGTTGGCGAAATGGCGGAAAACCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTgg < 2:622873/139‑1 (MQ=255) tAACGGTAAAGGCGAAGTCGATGATATCGACCACCTCGGCAACCGTCGTATCCGTTCCGTTGGCGAAATGGCGGAAAACCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGc < 2:567081/139‑1 (MQ=255) aaCGGTAAAGGCGAAGTCGATGATATCGACCACCTCGGCAACCGTCGTATCCGTTCCGTTGGCGAAATGGCGGAAAACCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGc > 1:338691/1‑138 (MQ=255) aaCGGTAAAGGCGAAGTCGATGATATCGACCACCTCGGCAACCGTCGTATCCGTTCCGTTGGCGAAATGGCGGAAAACCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGc > 2:358754/1‑138 (MQ=255) aCGGTAAAGGCGAAGTCGATGATATCGACCACCTCGGCAACCGTCGTATCCGTTCCGTTGGCGAAATGGCGGACAACCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGa < 2:145234/139‑1 (MQ=255) aGTCGATGATATCGACCACCTCGGCAACCGTCGTATCCGTTCCGTTGGCGAAATGGCGGAAAACCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCt > 1:22313/1‑138 (MQ=255) tgatATCGACCACCTCGGCAACCGTCGTATCCGTTCCGTTGGCGAAATGGCGGAAAACCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCca < 1:467570/139‑1 (MQ=255) tgatATCGACCACCTCGGCAACCGTCGTATCCGTTCCGTTGGCGAAATGGCGGAAAACCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCca > 2:199882/1‑139 (MQ=255) gACCACCTCGGCAACCGTCGTATCCGTTCCGTTGGCGAAATGGCGGAAAACCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGata < 2:682209/139‑1 (MQ=255) accaccTCGGCAACCGTCGTATCCGTTCCGTTGGCGAAATGGCGGAAAACCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGatat > 1:206631/1‑139 (MQ=255) accTCGGCAACCGTCGTATCCGTTCCGTTGGCGAAATGGCGGAAAACCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGAt < 2:662446/139‑1 (MQ=255) gtcgtATCCGTTCCGTTGGCGAAATGGCGGAAAACCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGcc > 2:178582/1‑139 (MQ=255) gtcgtATCCGTTCCGTTGGCGAAATGGCGGAAAACCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGcc > 2:730850/1‑139 (MQ=255) gtATCCGTTCCGTTGGCGAAATGGCGGAAAACCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGAt > 1:787534/1‑139 (MQ=255) gttccgttGGCGAAATGGCGGAAAACCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCgc < 1:358754/139‑1 (MQ=255) gttccgttGGCGAAATGGCGGAAAACCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCgc < 2:787534/139‑1 (MQ=255) ttccgttGGCGAAATGGCGGAAAACCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCg > 2:836181/1‑137 (MQ=255) tccgttGGCGAAATGGCGGAAAACCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCgcag > 1:638102/1‑139 (MQ=255) ccgttGGCGAAATGGCGGAAAACCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCgcag < 1:450098/138‑1 (MQ=255) gttGGCGAAATGGCGGAAAACCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCcac > 2:601733/1‑103 (MQ=255) gttGGCGAAATGGCGGAAAACCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCcac < 1:601733/103‑1 (MQ=255) tGGCGAAATGGCGGAAAACCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGt > 1:851454/1‑138 (MQ=255) cGAAATGGCGGAAAACCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGaaa < 2:545786/139‑1 (MQ=255) gAAATGGCGGAAAACCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGa > 1:715670/1‑91 (MQ=255) gAAATGGCGGAAAACCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGa < 2:715670/91‑1 (MQ=255) cGGAAAACCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGttctt < 1:628120/139‑1 (MQ=255) cGGAAAACCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGttctt < 1:777689/139‑1 (MQ=255) cGGAAAACCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGttctt < 1:836181/139‑1 (MQ=255) aaCCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGtt < 2:804979/139‑1 (MQ=255) gTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTccagc > 1:135914/1‑139 (MQ=255) cgTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGAt > 2:737911/1‑61 (MQ=255) cgTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGAt < 1:737911/61‑1 (MQ=255) gCCTGGTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGtctcc < 1:171518/139‑2 (MQ=255) gTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTa < 1:603787/139‑1 (MQ=255) gTACGTGTAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTa < 1:199882/139‑1 (MQ=255) tgtAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTGTGGAc > 1:730501/1‑139 (MQ=255) tgtAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGAc > 1:747230/1‑139 (MQ=255) tgtAGAGCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTGCGGTTCCAGCCAGCTGTCTCAGTTTATGGAc < 2:190394/139‑1 (MQ=255) agCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCt < 1:344258/46‑1 (MQ=255) agCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCt > 2:344258/1‑46 (MQ=255) agCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTa > 1:804820/1‑129 (MQ=255) agCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTa < 2:804820/129‑1 (MQ=255) agCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGAc < 2:574074/134‑1 (MQ=255) agCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGAc > 1:574074/1‑134 (MQ=255) agCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGaa > 1:444495/1‑139 (MQ=255) agCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGaa > 1:174823/1‑139 (MQ=255) agCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGaa > 2:106006/1‑139 (MQ=255) gCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCcac > 2:43085/1‑53 (MQ=255) gCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCcac < 1:43085/53‑1 (MQ=255) gCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCgcag > 2:158806/1‑86 (MQ=255) gCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCgcag < 1:158806/86‑1 (MQ=255) gCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGaa > 2:618041/1‑138 (MQ=255) gCGTGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGaa > 1:622976/1‑138 (MQ=255) tGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTa < 1:737887/125‑1 (MQ=255) tGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTa > 2:737887/1‑125 (MQ=255) tGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGaacaac > 1:418436/1‑139 (MQ=255) tGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGaacaac > 1:617670/1‑139 (MQ=255) tGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGaacaac > 2:754320/1‑139 (MQ=255) tGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGaacaac > 1:666634/1‑139 (MQ=255) tGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGaacaac > 1:229417/1‑139 (MQ=255) tGCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCAAGCTGTCTCAGTTTATGGACCAGaacaac > 2:738185/1‑139 (MQ=255) tGCAGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCcac < 1:160886/50‑1 (MQ=255) tGCAGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCcac > 2:160886/1‑50 (MQ=255) gCGGTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGAACAAcc > 2:100985/1‑139 (MQ=255) ggTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGAACAACCCg < 2:747230/139‑1 (MQ=255) ggTGAAAGCGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGAACAACCCg < 1:106006/139‑1 (MQ=255) tGAAAGAGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGAACAACCCGCt < 1:124632/139‑1 (MQ=255) | CGTAACGGTAAAGGCGAAGTCGATGATATCGACCACCTCGGCAACCGTCGTATCCGTTCCGTTGGCGAAATGGCGGAAAACCAGTTCCGCGTTGGCCTGGTACGTGTAGAGCGTGCGGTGAAAGAGCGTCTGTCTCTGGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGAACAACCCGCT > NZ_CP009273/4172478‑4172734 |
| 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: ‑ |