| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | CP009273 | 3,433,439 | C→A | R317L (CGC→CTC) | rpoA ← | RNA polymerase, alpha subunit |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 3,433,439 | 0 | C | A | 95.2% | 123.8 / ‑1.3 | 42 | R317L (CGC→CTC) | rpoA | RNA polymerase, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base C (1/1); new base A (18/22); total (19/23) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.59e-01 | |||||||||||
AAAACCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACC > CP009273/3433377‑3433503 | aaaaCCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGAGCATg > 1:4653563/1‑68 (MQ=255) aaCCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGAGCATGcc < 1:3447597/68‑1 (MQ=255) aaCCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGAGCATGcc < 1:3961128/68‑1 (MQ=255) aaCCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGAGCATGcc < 1:2185077/68‑1 (MQ=255) aaCCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGAGCATGcc < 1:2648274/68‑1 (MQ=255) aaCCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGAGCATGcc < 1:2390560/68‑1 (MQ=255) aaCCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGAGCATGcc < 1:2455634/68‑1 (MQ=255) aaCCTTAACCTGTGATCCGGTTACTAGTCAGCGATTCTTGCCGGTGGCCAGTTTTCAAGGAGCAttac < 1:4353982/68‑4 (MQ=255) aCCTTAACCTGTGATCCGGTTACTCGTCAGCGATCCTTGCCTGTGGCCAGTTTTCCAGGAGTATGccc > 1:3720930/1‑68 (MQ=255) aCCTTAACCTGTGATCCGGTGACGCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCGCATGccc > 1:3431603/1‑68 (MQ=255) ccTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGAGCATGCCCAGAGCCa > 1:1550670/1‑68 (MQ=255) ccTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGAGCATGCCCAGAGACa > 1:4167235/1‑68 (MQ=255) ccTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGAGCATGCCCAGAGACa > 1:4540949/1‑68 (MQ=255) ccTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGAGCATGCCCAGAGACa > 1:3942488/1‑68 (MQ=255) cTGTGATCCGGTTACTCGTCAGCGATGCTTGCTGGTGGCCAGTTTTCCAGGAGCATGCCCAGAGACAg > 1:1764907/1‑68 (MQ=255) tctgATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGAGCATGCCCAGAGACAGt < 1:4380334/66‑1 (MQ=255) tCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGAGCATGCCCAGAGACAGTCCACg < 1:2660489/68‑1 (MQ=255) tCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGAGCATGCCCAGAGACAGTCCACg < 1:2939412/68‑1 (MQ=255) tCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGAGCATGCCCAGAGACAGTCAACg > 1:3610547/1‑68 (MQ=255) cGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGAGCATGCCCAGAGACAGTCCACGGGAAGCCAGc > 1:1611234/1‑68 (MQ=255) aGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGt < 1:3910800/68‑1 (MQ=255) gCGATGCTTGCCGGTGGCCAGTTTTCCAGGAGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTc < 1:432823/68‑1 (MQ=255) gCGATGCTTGCCGGTGGCCAGTTTTCCAGGAGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTc < 1:959124/68‑1 (MQ=255) gCGATGCTTGCCGGTGGCCAGTTTTCCAGGAGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTc < 1:1599893/68‑1 (MQ=255) gCGATGCTTGCCGGTGGCCAGTTTTCCAGGAGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTc < 1:2360470/68‑1 (MQ=255) gCGATGCTTGCCGGTGGCCAGTTTTCCAGGAGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTc < 1:2577457/68‑1 (MQ=255) gCGATGCTTGCCGGTGGCCAGTTTTCCAGGAGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTc < 1:2604116/68‑1 (MQ=255) gCGATGCTTGCCGGTGGCCAGTTTTCCAGGAGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTc < 1:3064495/68‑1 (MQ=255) gATGCTTGCCGGTGGCCAGTTTTCCAGGAGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCtt > 1:1081433/1‑68 (MQ=255) gATGCTTGCCGGTGGCCAGTTTTCCAGGAGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCtt > 1:3349733/1‑68 (MQ=255) ccGGTGGCCAGTTTTCCAGGAGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCa > 1:3968786/1‑68 (MQ=255) ccGGTGGCCAGTTTACCAGGAGCATGCCCAGAGACAGTCCACCGGAAGCCAGCACGTCTTTAATCTCa > 1:3878405/1‑68 (MQ=255) ggTGGCCAGTTTTCCAGGAGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGt < 1:1882578/68‑1 (MQ=255) ggTGGCCAGTTTTCCAGGAGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGt < 1:937350/68‑1 (MQ=255) ggTGGCCAGTTTTCCAGGAGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGt < 1:3748173/68‑1 (MQ=255) aGTTTTCCAGGAGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGAt < 1:4528295/68‑1 (MQ=255) gTTTTCCAGGAGCATGCCCAGAGACAGTCCATGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGAtt < 1:4170524/68‑1 (MQ=255) aGGAGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTAcc > 1:4022776/1‑68 (MQ=255) aGGAGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTAcc > 1:3632049/1‑68 (MQ=255) aGGAGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTAcc > 1:3638493/1‑68 (MQ=255) aGGAGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTAcc > 1:4467430/1‑68 (MQ=255) aGGAGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTAcc > 1:763812/1‑68 (MQ=255) | AAAACCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACC > CP009273/3433377‑3433503 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |