| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | AP009048 | 1,115,786 | T→C | 7.7% | intergenic (‑28/+55) | msyB ← / ← mdtG | hypothetical protein/predicted drug efflux system |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | AP009048 | 1,115,786 | 0 | T | C | 7.7% | 136.1 / 4.2 | 52 | intergenic (‑28/+55) | msyB/mdtG | hypothetical protein/predicted drug efflux system |
| Reads supporting (aligned to +/- strand): ref base T (24/24); new base C (2/2); total (26/26) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.91e-01 | |||||||||||
CAGCGTCAATGGCTTCTTCAAGCGTTGCGTACATGGTCATCACGATTCTCCCTTTGAGTTGATGAGGTTTCAGGGAAAAGGATAGCTGATTCTCCGCTTTTGCAAGTATGAAAGGCGAAAAATCAGTTCGATAC > AP009048/1115719‑1115852 | cAGCGTCAATGGCTTCTTCAAGCGTTGCGTACATGGTCATCACGATTCTCCCTTTGAGTTGATGAGGTTTc < 1:4035327/71‑1 (MQ=255) cGTCAATGGCTTCTTCAAGCGTTGCGTACATGGTCATCACGATTCTCCCTTTGAGTTGATGAGGTTTCAgg > 1:1459081/1‑71 (MQ=255) tCAATGGCTTCTTCAAGCGTTGCGTACATGGTCATCACGATTCTCCCTTTGAGTTGATGAGGTTTCAGGGa < 1:1778604/71‑1 (MQ=255) aaTGGCTTCTTCAAGCGTTGCGTACATGGTCATCACGATTCTCCCTTTGAGTTGATGAGGTTTCAGGGaa > 1:3787430/1‑70 (MQ=255) aaTGGCTTCTTCAAGCGTTGCGTACATGGTCATCACGATTCTCCCTTTGAGTTGATGAGGTTTCAGGGaa > 1:3792812/1‑70 (MQ=255) aaTGGCTTCTTCAAGCGTTGCGTACATGGTCATCACGATTCTCCCTTTGAGTTGATGAGGTTTCAGGGa > 1:548199/1‑69 (MQ=255) gCTTCTTCAAGCGTTGCGTACATGGTCATCACGATTCTCCCTTTGAGTTGATGAGGTTTCAGGGAAAAgg < 1:2904343/70‑1 (MQ=255) gCTTCTTCAAGCGTTGCGTACATGGTCATCACGATTCTCCCTTTGAGTTGATGAGGTTTCAGGGAAAAGGa < 1:3096625/71‑1 (MQ=255) gCTTCTTCAAGCGTTGCGTACATGGTCATCACGATTCTCCCTTTGAGTTGATGAGGTTTCAGGGAAAAGGa < 1:2136064/71‑1 (MQ=255) tcttcAAGCGTTGCGTACATGGTCATCACGATTCTCCCTTTGAGTTGATGAGttt < 1:2502856/55‑1 (MQ=255) cttcAAGCGTTGCGTACATGGTCATCACGATTCTCCCTTTGAGTTGATGAGGtt < 1:3464478/54‑1 (MQ=255) cttcAAGCGTTGCGTACATGGTCATCACGATTCTCCCTTTGAGTTGATGAGGTTTCAGGGAAAAGGATAg > 1:2292741/1‑70 (MQ=255) cttcAAGCGTTGCGTACATGGTCATCACGATTCTCCCTTTGAGTTGATGAGGTTTCAGGGAAAAGGATAGc > 1:4516084/1‑71 (MQ=255) ttcAAGCGTTGCGTACATGGTCATCACGATTCTCCCTTTGAGTTGATGAGGTTTCAGGGAAAAgg > 1:3793594/1‑65 (MQ=255) cAAGCGTTGCGTACATGGTCATCACGATTCTCCCTTTGAGTTGATGAGGTTTCAGGGAAAAGGATAGCt < 1:3814172/69‑1 (MQ=255) aGCGTTGCGTACATGGTCATCACGATTCTCCCTTTGAGTTGATGAGGTTTCAGGGAAAAGGATAGCTGAt > 1:1429521/1‑70 (MQ=255) gCGTTGCGTACATGGTCATCACGATTCTCCCTTTGAGTTGATGAGGTTTCAGGGAAAAGGATAGCt < 1:1819074/66‑1 (MQ=255) gTTGCGTACATGGTCATCACGATTCTCCCTTTGAGTTGATGAGGt < 1:1541358/45‑1 (MQ=255) ttGCGTACATGGTCATCACGATTCTCCCTTTGAGTTGATGAGGCTTCAGGGaa < 1:2144381/53‑1 (MQ=255) gCGTACATGGTCATCACGATTCTCCCTTTGAGTTGATGAGGTTTCAGGGaaaa > 1:1527552/1‑53 (MQ=255) aCATGGTCATCACGATTCTCCCTTTGAGTTGATGAGGTTTCAGGGAAAAGGATAGCTGATTCTCCGCtttt > 1:2759500/1‑71 (MQ=255) aCATGGTCATCACGATTCTCCCTTTGAGTTGATGAGGTTTCAGGGAAAAGGATAGCTGATTCTCCGCtttt > 1:2016024/1‑71 (MQ=255) aCATGGTCATCACGATTCTCCCTTTGAGTTGATGAGGTTTCAGGGAAAAGGATAGCTGATTCTCCGCtttt > 1:3415500/1‑71 (MQ=255) cATGGTCATCACGATTCTCCTTTTGAGTTGATGAGGTTTCAGGGAAAAGGa > 1:3345526/1‑51 (MQ=255) cATGGTCATCACGATTCTCCTTTTGAGTTGATGAGGTTTCAGGGAAAAGGa > 1:2131627/1‑51 (MQ=255) gTCATCACGATTCTCCCTTTGAGTTGATGAGGTTTCAGGGAAAAGGATAGCTGa > 1:13940/1‑54 (MQ=255) gTCATCACGATTCTCCCTTTGAGTTGATGAGGTTTCAGGGAAAAGGATAGCTGATTCTCCGCTTTTGCAAg < 1:1860232/71‑1 (MQ=255) tcaCGATTCTCCCTTTGAGTTGATGAGGTTTCAGGGAAAAg < 1:2666891/41‑1 (MQ=255) tcaCGATTCTCCCTTCGAGTTGATGAGGTTTCAGGGaaa < 1:4225725/39‑1 (MQ=255) caCGATTCTCCCTTTGAGTTGATGAGGTTTCAGGGAAAAGGATAGCTGa > 1:3089036/1‑49 (MQ=255) aCGATTCTCCCTTTGAGTTGATGAGGTTTCAGGGaaaa < 1:2910450/38‑1 (MQ=255) aCGATTCTCCCTTTGAGTTGATGAGGTTTCAGGGAAAAGGATAGCTGATTCTCCGCTTTTGCAAGTATGaa < 1:715821/71‑1 (MQ=255) aCGATTCTCCCTTTGAGTTGATGAGGTTTCAGGGAAAAGGATAGCTGATTCTCCGCTTTTGCAAGTATGaa < 1:158385/71‑1 (MQ=255) aCGATTCTCCCTTTGAGTTGATGAGGTTTCAGGGAAAAGGATAGCTGATTCTCCGCTTTTGCAAGTATGa < 1:4335714/70‑1 (MQ=255) aCGATTCTCCCTTTGAGTTGATGAGGCTTCAGGGAAAAGGATAGCTGATTCTCCGCTTTT‑CAAGTATGa > 1:3563783/1‑69 (MQ=255) cGATTCTCCCTTTGAGTTGATGAGGTTTCAGGGAAAAGGATAGCTGATTCTCCGCTTTTGCAAGTATGaaa < 1:3560077/71‑1 (MQ=255) gATTCTCCCTTTGAGTTGATGAGGTTTCAGGGAAAAGGATa > 1:4109523/1‑41 (MQ=255) tctcCCTTTGAGTTGATGAGGTTTCAGGGAAAAGGATAGCTGATTCTCCGCTTTTGCAAGTATGaaa > 1:1411322/1‑67 (MQ=255) tcCCTTTGAGTTGATGAGGTTTCAGGGAAAAGGATAGCTGATTCTCCGCTTTTGCAAGTATGAAAGGCg < 1:3947746/69‑1 (MQ=255) ccTTTGAGTTGATGAGGTTTCAGGGAAAAGGATAGCTGATTCTCCGCTTTTGCAAGTATGAAAGGCGaa < 1:1994015/69‑1 (MQ=255) tttGAGTTGATGAGGTTTCAGGGAAAAGGATAGCTGATTCTCCGCTTTTGc < 1:4186100/51‑1 (MQ=255) tttGAGTTGATGAGGTTTCAGGGAAAAGGATAGCTGATTCTCCGCTTTTGCAAGTATGAAAg < 1:4128731/62‑1 (MQ=255) tGAGTTGATGAGGTTTCAGGGAAAAGGATAGCTGATTCTCCGCtttt > 1:2535040/1‑47 (MQ=255) gAGTTGATGAGGCTTCAGGGAAAAGGATAGCTGATTCTCCGCTTTTGCAAGTATGaaa > 1:511541/1‑58 (MQ=255) gTTGATGAGGTTTCAGGGAAAAGGATAGCTGATTCTCCGCTTTTGCAAGTATGa < 1:2751129/54‑1 (MQ=255) gTTGATGAGGTTTCAGGGAAAAGGATAGCTGATTCTCCGCTTTTGCAAGTATGAAAGGCGAAAAATCAGtt > 1:2840679/1‑71 (MQ=255) ttGATGAGGTTTCAGGGAAAAGGATAGCTGATTCTcc < 1:2839896/37‑1 (MQ=255) ttGATGAGGTTTCAGGGAAAAGGATAGCTGATTCTCCGc > 1:537478/1‑39 (MQ=255) ttGATGAGGTTTCAGGGAAAAGGATAGCTGATTCTCCGCTTTTGCAAGTATGAAAGGCGaaaaa < 1:1134244/64‑1 (MQ=255) ttGATGAGGTTTCAGGGAAAAGGATAGCTGATTCTCCGCTTTTGCAAGTATGAAAGGCGaaaa > 1:4403052/1‑63 (MQ=255) ttGATGAGGTTTCAGGGAAAAGGATAGCTGATTCTCCGCTTTTGCAAGTATGAAAGGCGAAAAATCAGTTc < 1:4153071/71‑1 (MQ=255) ttGATGAGGTTTCAGGGAAAAGGATAGCTGATTCTCCGCTTTTGCAAGTATGAAAGGCGAAAAATCAGTTc < 1:2930793/71‑1 (MQ=255) gatgaGGTTTCAGGGAAAAGGATAGCTGATTCTCCGCTTTTGCAAGTATGaaa > 1:3757353/1‑53 (MQ=255) gaGGTTTCAGGGAAAAGGATAGCTGATTCTCCGCTTTTGCAAGTATGAAAGGCGAAAAATCAGTTCGATAc > 1:23513/1‑71 (MQ=255) aGGCTTCAGGGAAAAGGATAGCTGATTCTCCGCTTTTGCAAGTATGAAAGGCGAAAAATCAGTTCGATAc < 1:2297697/70‑1 (MQ=255) tttCAGGGAAAAGGATAGCTGATTCTCCGCTTTTGCAAGTATGAAAGGCGaaaaa < 1:3641046/55‑1 (MQ=255) | CAGCGTCAATGGCTTCTTCAAGCGTTGCGTACATGGTCATCACGATTCTCCCTTTGAGTTGATGAGGTTTCAGGGAAAAGGATAGCTGATTCTCCGCTTTTGCAAGTATGAAAGGCGAAAAATCAGTTCGATAC > AP009048/1115719‑1115852 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |