| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | AP009048 | 596,030 | T→G | 10.2% | I403S (ATT→AGT) | cusC → | copper/silver efflux system, outer membrane component |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | AP009048 | 596,030 | 0 | T | G | 10.2% | 138.9 / 12.9 | 59 | I403S (ATT→AGT) | cusC | copper/silver efflux system, outer membrane component |
| Reads supporting (aligned to +/- strand): ref base T (25/28); new base G (2/4); total (27/32) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 6.78e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.71e-01 | |||||||||||
GCGCTGGCATTACGTCAAAGCCTGAACGATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAATTACTTTGCAACGGGCGCGGGCATTATATCAGCACGGCGCAGTAAGTTATCTGGAAGTGCTGGATGCCGAG > AP009048/595960‑596100 | gcgcTGGCATTACGTCAAAGCCTGAACGATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAAt > 1:6550127/1‑71 (MQ=255) cgcTGGCATTACGTCAAAGCCTGAACGATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAAtt < 1:3874655/71‑1 (MQ=255) cgcTGGCATTACGTCAAAGCCTGAACGATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAAt < 1:3598764/70‑1 (MQ=255) cgcTGGCATTACGTCAAAGCCTGAACGATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAAt > 1:3448405/1‑70 (MQ=255) cgcTGGCATTACGTCAAAGCCTGAACGATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAAt < 1:2527866/70‑1 (MQ=255) cgcTGGCATTACGTCAAAGCCTGAACGATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAAt > 1:63098/1‑70 (MQ=255) tGGCATTACGTCAAAGCCTGAACGATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAATTACt > 1:4009883/1‑71 (MQ=255) tGGCATTACGTCAAAGCCTGAACGATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAATTACt > 1:3514905/1‑71 (MQ=255) tGGCATTACGTCAAAGCCTGAACGATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAATTACt > 1:3358192/1‑71 (MQ=255) cggCATTACGTCAAAGCCTGAACGATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAATTACt < 1:1901776/70‑1 (MQ=255) gCATTACGTCAAAGCCTGAACGATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAATTACttt > 1:2072698/1‑71 (MQ=255) gCATTACGTCAAAGCCTGAACGATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAATTACttt > 1:6352642/1‑71 (MQ=255) gCATTACGTCAAAGCCTGAACGATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAATTACtt < 1:5299000/70‑1 (MQ=255) gCATTACGTCAAAGCCTGAACGATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAATTACtt < 1:2284103/70‑1 (MQ=255) gCATTACGTCAAAGCCTGAACGATCAAACTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAATTACttt > 1:2576518/1‑71 (MQ=255) cATTACGTCAAAGCCTGAACGATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAATTACTTTg > 1:3980598/1‑71 (MQ=255) ttACGTCAAAGCCTGAACGATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAATTACTTTGCa < 1:3864640/71‑1 (MQ=255) aCGTCAAAGCCTGAACGATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAATTACTTTGCaa > 1:3958934/1‑70 (MQ=255) cAAAGCCTGAACGATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAATTACTTTGCAACGGgc > 1:5547358/1‑71 (MQ=255) aaaGCCTGAACGATCAAATTAGCGCCAAGCAGCGTTATCTGGCATCGCTGCAAATTACTTTGCAACGGgcg > 1:6409482/1‑71 (MQ=255) gCCTGAACGATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAATTACTTTGCAACGGGCGCgg < 1:3318244/71‑1 (MQ=255) gCCTGAACGATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAATTACTTTGCAACGGGCGCgg < 1:6552179/71‑1 (MQ=255) gCCTGAACGATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAATTACTTTGCAACGGGCGCgg < 1:7173435/71‑1 (MQ=255) cTGAACGATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGTTGCAAAGTAATTTGCAGCga > 1:3535287/1‑62 (MQ=25) cTGAACGATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGTTGCAAAGTAATTTGCAGCga > 1:6915771/1‑62 (MQ=25) aaCGATCAAATTAGCGCCCAGCAGCGTTATCTTGCATCGCTGCAAATTACTTTGCAACGGGCGCGGGCAtt < 1:6683464/71‑1 (MQ=255) aaCGATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAATTACTTTGCAACGGGCGCGGGCAtt < 1:6499853/71‑1 (MQ=255) aCGATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAATTACTTTGCAACGGGCGCGGGCATta < 1:6392013/71‑1 (MQ=255) aCGATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAATTACTTTGCAACGGGCGCGGGCATta < 1:6865748/71‑1 (MQ=255) cGATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAATTACTTTGCAACGGGCGCGGGCATtat < 1:5202587/71‑1 (MQ=255) gATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGTTGCAAAGTAATTTGCAGCg < 1:7609151/56‑1 (MQ=25) gATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGTTGCAAAGTAATTTGCAGCg < 1:874019/56‑1 (MQ=25) gATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGTTGCAAAGTAATTTGCAGCg < 1:3196670/56‑1 (MQ=25) gATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGTTGCAAAGTAATTTGCAGCg < 1:3306117/56‑1 (MQ=25) gATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAATTACt < 1:4879591/48‑1 (MQ=255) gATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAATTACt < 1:2518660/48‑1 (MQ=255) aTCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAATTACTTTGCAACGGGCGCGGGCATTatat < 1:1304688/71‑1 (MQ=255) tCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAATTACTTTGCAACGGGCGCGGGCATTATATc < 1:3960053/71‑1 (MQ=255) cAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAATTACTTTGCAACGGGCGCGGGCATTatat > 1:4151418/1‑69 (MQ=255) aaaTTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAATTACTTTGCAACGGGCGCGGGCATTATATCAg > 1:6068348/1‑71 (MQ=255) aaaTTAGCGCCCACCAGCGTTATCTGGCATCGCTGCAAATTACTTTg > 1:4170647/1‑47 (MQ=255) aaTTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAATTACttt > 1:7533301/1‑45 (MQ=255) aaTTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAATTACttt > 1:3406035/1‑45 (MQ=255) cagcagCGTTATCTGGCATCGCTGCAAATTACTTTGCAACGGGCGCGGGCATTatat < 1:7731789/57‑1 (MQ=255) cagcGTTATCTGGCATCGCTGCAAATTACTTTGCAACGGGCGCGGGCATTatat < 1:3659883/54‑1 (MQ=255) cagcGTTATCTGGCATCGCTGCAAATTACTTTGCAACGGGCGCGGGCATTATATCAGCACGGCGCAGTAAg > 1:2951240/1‑71 (MQ=255) gcGTTATCTGGCATCGCTGCAAATTACTTTGCAACGGGCGCGGGCATTATATCAGCACGGCGCAGTAAGtt < 1:4474330/71‑1 (MQ=255) aTCTGGCATCGCTGCAAATTACTTTGCAACGGGCGCGGGCATTATATCAGCACGGCGCAGTAAGTTATCt < 1:1023197/70‑1 (MQ=255) aTCTGGCATCGCTGCAAATTACTTTGCAACGGGCGCGGGCATTATATCAGCACGGCGCAGTAAGTTATCTg > 1:2620666/1‑71 (MQ=255) aTCTGGCATCGCTGCAAATTACTTTGCAACGGGCGCGGGCATTATATCAGCACGGCGCAGTAAGTTATCTg > 1:1567690/1‑71 (MQ=255) aTCTGGCATCGCTGCAAATTACTTTGCAACGGGCGCGGGCATTATATCAGCA‑GGCGCAGTAAGTTATCTg > 1:5135076/1‑70 (MQ=255) tCTGGCATCGCTGCAAATTACTTTGCAACGGGCGCGGGCATTATATCAGCACGGCGCAGTAAGTTATCTg < 1:2436064/70‑1 (MQ=255) tCTGGCATCGCTGCAAATTACTTTGCAACGGGCGCGGGCATTATATCAGCACGGCGCAGTAAGTTATCTg > 1:5587244/1‑70 (MQ=255) tCTGGCATCGCTGCAAATTACTTTGCAACGGGCGCGGGCATTATATCAGCACGGCGCAGTAAGTTATCTg < 1:4065360/70‑1 (MQ=255) tGGCATCGCTGCAAATTACTTTGCAACGGGCGCGGGCATTATATCAGCACGgcg > 1:4735622/1‑54 (MQ=255) gCATCGCTGCAAATTACTTTGCAACGGGCGCGGGCATTATATCAGCACGgcg > 1:194468/1‑52 (MQ=255) gCATCGCTGCAAATTACTTTGCAACGGGCGCGGGCATTATATCAGCACGGCGCAGTAAGTTATCTgg < 1:5482397/67‑1 (MQ=255) gCATCGCTGCAAATTACTTTGCAACGGGCGCGGGCATTATATCAGCACGGCGCAGTAAGTTATCTgg < 1:5188235/67‑1 (MQ=255) aTCGCTGCAAATTACTTTGCAACGGGCGCGGGCATTATATCAGCACGGCGCAGTAAGTTATCTGGAAGTg > 1:1875117/1‑70 (MQ=255) aTCGCTGCAAATCACTTTGCAACGGGCGCGGGCATTATATCAGCACGGCGCAGTAAGTTATCTGGAAGTGc < 1:5760480/71‑1 (MQ=255) tCGCTGCAAATTACTTTGCAACGGGCGCGGGCATTATATCAGCACGGCGCAGTAAGTTATCTgg < 1:1342302/64‑1 (MQ=255) tCGCTGCAAATTACTTTGCAACGGGCGCGGGCATTATATCAGCACGGCGCAGTAAGTTATCTGGAAGTGCt > 1:1823231/1‑71 (MQ=255) cAAATTACTTTGCAACGGGCGCGGGCATTATATCAGCACGGCGCAGTAAGTTATCTGGAAGTGCTGGAt < 1:3941568/69‑1 (MQ=255) aaaTTACTTTGCAACGGGCGCGGGCATTATATCAGCACGGCGCAGTAAGt > 1:4042549/1‑50 (MQ=255) aaaTTACTTTGCAACGGGCGCGGGCATTATATCAGCACGGCGCAGTAAGTTATCTGGAAGTGCTGGATGcc < 1:5316797/71‑1 (MQ=255) ttACTTTGCAACGGGCGCGGGCATTATATCAGCACGGCGCAGTAAGTTATCTGGAAGTGCTGGATGc < 1:3237690/67‑1 (MQ=255) ttACTTTGCAACGGGCGCGGGCATTATATCAGCACGGCGCAGTAAGTTATCTGGAAGTGCTGGATGCCGAg > 1:4797560/1‑71 (MQ=255) | GCGCTGGCATTACGTCAAAGCCTGAACGATCAAATTAGCGCCCAGCAGCGTTATCTGGCATCGCTGCAAATTACTTTGCAACGGGCGCGGGCATTATATCAGCACGGCGCAGTAAGTTATCTGGAAGTGCTGGATGCCGAG > AP009048/595960‑596100 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |