| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | USA300TCH1516_ALE | 1,231,396 | G→T | 19.0% | R14I (AGA→ATA) | stp → | Serine/threonine phosphatase stp |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | USA300TCH1516_ALE | 1,231,396 | 0 | G | T | 19.0% | 118.1 / 16.0 | 55 | R14I (AGA→ATA) | stp | Serine/threonine phosphatase stp |
| Reads supporting (aligned to +/- strand): ref base G (22/22); new base T (5/6); total (27/28) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
ATTAATGCCACAATACGTCGTGAACAAGGTTCGGATATTGACGCAGCTTGTGGTCAATTAAGAGCAAAGGAACGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTGATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATCCCGT > USA300TCH1516_ALE/1231257‑1231532 | aTTAATGCCACAATACGTCGTGAACAAGGTTCGGATATTGACGCAGCTTGTGGTCAATTAAGAGCAAAGGAACGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATaga < 2:425005/141‑1 (MQ=255) tAATGCCACAATACGTCGTGAACAAGGTTCGGATATTGACGCAGCTTGTGGTCAATTAAGAGCAAAGGAACGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAtaga < 1:323956/141‑1 (MQ=255) ccACAATACGTCGTGAACAAGGTTCGGATATTGACGCAGCTTGTGGTCAATTAAGAGCAAAGGAACGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGa > 2:725243/1‑141 (MQ=255) aaTACGTCGTGAACAAGGTTCGGATATTGACGCAGCTTGTGGTCAATTAAGAGCAAAGGAACGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAAtaa < 2:281888/141‑3 (MQ=255) aCGTCGTGAACAAGGTTCGGATATTGACGCAGCTTGTGGTCAATTAAGAGCAAAGGAACGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATATAGATAAGAATGAAGa < 1:528025/141‑1 (MQ=255) gtcgtGAACAAGGTTCGGATATTGACGCAGCTTGTGGTCAATTAAGAGCAAAGGAACGACAAGTAGAAACGAGGTAAAGACAAATGTTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATAAAGATg < 1:525858/141‑1 (MQ=255) gAACAAGGTTCGGATATTGACGCAGCTTGTGGTCAATTAAGAGCAAAGGAACGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATGAAGATGCGggt < 1:72650/141‑1 (MQ=255) aCAAGGTTCGGATATTGACGCAGCTTGTGGTCAATTAAGAGCAAAGGAACGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATAAAGATGCGggtgg < 1:517935/141‑1 (MQ=255) aCAAGGTTCGGATAGTGACGCAGCTTGTGGTCAATTAAGAGCAAAGGAACGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATAAAGATGCGggtgg < 2:639788/141‑1 (MQ=255) aGGTTCGGATATTGACGCAGCTTGTGGTCAATTAAGAGCAAAGGAACGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATAAAGATGCGGGTGGTAt > 1:37037/1‑141 (MQ=255) ggTTCGGATATTGACGCAGCTTGTGGTCAATTAAGCGCAAAGGAACGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGGATGAAGATGCGGGTGGTAtt < 1:212958/141‑1 (MQ=255) gggatgtGACGCAGCTTGGGGTCAATTAAGAGCAAAGGAACGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTta < 2:60553/135‑1 (MQ=255) gggagttGACGCAGCTTGTGGTCAATTAAGAGCAAAGGAACGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTta < 2:229655/136‑1 (MQ=255) ggctatTGACGCAGCTTGTGGTCAATTAAGAGGAAAGGAACGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTta < 2:509099/138‑1 (MQ=255) ggATATTGACGCTGCTTGTGGTCGATTAAGAGCAAAGGAACGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACTATTTTTTACTGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTta < 2:229927/141‑1 (MQ=255) gATATTGACGCAGCTTGTGGTCAATTAAGAGCAAAGGAACGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATATAGATAAGAATGAAGATGCGGGTGGTATTTTTtat < 1:643734/141‑1 (MQ=255) atTGACGCAGCTTGTGGTCAATTAAGAGCAAAGGAACGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATATAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAAt > 1:236510/1‑141 (MQ=255) aCGCAGCTTGTGGTCAATTAAGAGCAAAGGAACGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATAAAGATGCGGGTGGTATTTTTTATAATCaaa > 1:726982/1‑141 (MQ=255) cGCAGCTTGTGGTCAATTAAGAGCAAAGGAACGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATAAAGATGCGGGTGGTATTTTTTATAATCAAAc > 1:378390/1‑141 (MQ=255) cAGCTTGTGGTCAATTAAGAGCAAAGGAACGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATATAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTa < 1:677789/141‑1 (MQ=255) aGCTTGTGGTCAATTAAGAGCAAAGGAACGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATAAAGATGCGGGTGGTATTTTTTATAATCAAACTaa > 1:77991/1‑141 (MQ=255) ccTTGTGGTCAATTAAGAGCAAAGGAACGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATAAAGATGCGGGTGGTATTTTTTATAATCAAACTAAt < 1:390791/140‑1 (MQ=255) tgtgGTCAATTAAGAGCAAAGGGACGACAAGTAGACACGAGGTCAAGATAAATGCTAGCGGCACAATTTTTTACTGATACTGGACAACATATAGATAAGAATGAAGATGCGGGTGGTATTTTTTATCATCAAAGTAATcaa > 2:188302/1‑141 (MQ=255) gtgGTCAATTAAGAGCAAAGGAACGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATAAAGATGCGGGTGGTATTTTTTATAATCAAACTAATcaac > 1:404951/1‑141 (MQ=255) ctgGTCAATGAAGAGCAAAGGAACGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAAGGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATcaac < 2:656793/140‑1 (MQ=255) ggTCAATTAAGAGCAAAGGAACGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATATAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATcaacaa > 2:706768/1‑141 (MQ=255) ggTCAATTAAGAGCAAAGGAACGACAAGTAGAAACGAGGTAAAGACAAATACTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATAAAGATGCGGGTGGTATTTTTTATAATCAAACTAATcaacaa > 1:521562/1‑141 (MQ=255) gagCAAAGGAACGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATAAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTc > 1:147868/1‑141 (MQ=255) agCAAAGGAACGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATAAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCt > 1:164699/1‑141 (MQ=255) aaCGACAAGTAGAAACACGCAAGAGGTTAATGTTTGCGGCACAATATTTCGTTGAGTCTGTCCACCATAGAGTCATGTATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTGATg < 1:372310/141‑1 (MQ=255) aCGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATATAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTTTGAttg < 2:682528/141‑3 (MQ=255) aCGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTGATgg > 1:198958/1‑141 (MQ=255) aCGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTGATgg > 1:449959/1‑141 (MQ=255) cGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATAAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTGATGGt > 1:709379/1‑141 (MQ=255) cGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATAAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTGATGGt > 1:348248/1‑141 (MQ=255) caCAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCCGTGTGATGGTa < 1:733744/140‑1 (MQ=255) gTAGAAACGAGGTAAAAACCAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATATAGATAAGAATGAAGATGCGGGTGGGATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTGATGGTATgggg > 1:441947/1‑140 (MQ=255) aGAAATGAGGTAAAGACAAATGCTAGAGGCCAAAATTTTATGGGGTTCCGGACATCATATAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTGATGGTATGGGTgg < 2:754922/141‑1 (MQ=255) aaCGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATAAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAAGTTTTAGTTCTGTGTGATGGTATGGGCGGGCa > 1:292675/1‑141 (MQ=255) aaCGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATAAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTGATGGTATGGGTGGCCa > 1:39283/1‑141 (MQ=255) aCGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTGATGGTATGGGTGGCCAt < 2:688366/141‑1 (MQ=255) aCGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATAAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTGAGTTCTGTGTGATGGTATGGGTGGCCAt < 1:567333/141‑1 (MQ=255) aaGACAAATGCAGTAGGCACAATTTTTGACCGATACTGGACAACATAGAGATAAGAATAAAGATGCGGGTGGTATCTGTTATAATCAAACTAATCAACAACTTTTAGATCTGTGTGATGGTATGGGTGGCCATAAAGCacg < 2:217281/141‑3 (MQ=255) aCAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATAAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTGATGGTATGGGTGGCCATAAAGCAGgaga > 1:135133/1‑141 (MQ=255) tGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATAGCGAGTCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTGATGGTATGGGTGGCCATAAAGCAGGAGAAGTTg < 1:738975/141‑1 (MQ=255) gCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTGATGGTATGGGTGGCCATAAACCAGGATAAGTTGc > 2:287437/1‑141 (MQ=255) cTAGAGGCACAATTTTTTTCTTTTACTGGACAACAAATAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTGATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCa > 2:503824/1‑141 (MQ=255) agagGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATAAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTGATGGTATGGGTGGCCTTAAATCAGGAGAAGTTGCAAg < 1:405285/141‑1 (MQ=255) gcggCACAATTTTTTCCTGATACTGGACAACATAGAGATAAGAATAAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTGATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCAAGt < 1:92872/139‑1 (MQ=255) agGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATAAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTGATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTa > 2:139033/1‑141 (MQ=255) ggCACAATTTGTTACTGATACGGAACAACATATAAATAAGAATGAAGATGCGGGTAGTATTTTTTATAAGCAAACTAATCAACAACTTTTAGTTCTGTGTGATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTaa < 2:772516/141‑1 (MQ=255) ttttttACTAATACTGGACAACATAGAGATAAGAATAAAGAAGCGGGTGGTATTTTTTCTAATCAAACTAATCAACAACTTTTAGTTCGGTGTGATGGTATGAGTGGCCATAAAGAGGAAGAAGTTGCAGATTAATTTGtt > 2:339339/1‑141 (MQ=255) tttACTGATACTGGACAACATAGAGATAAGAATAAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTGATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACa > 1:191975/1‑141 (MQ=255) tGATACTGGACAACATAGAGATAAGAATAAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTGATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATgg > 1:320551/1‑140 (MQ=255) gATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTGATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAg > 1:183831/1‑141 (MQ=255) ggACAACAAAGGGATAAGAATAAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTTTGTGATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGaaa < 2:275265/141‑1 (MQ=255) caacaaAGAGATAAGAATAAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTGATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATcc < 2:649914/141‑1 (MQ=255) aatatAGATTAGGATGAAGGTGCTGGTTGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTGATGGTATGGGTGGCCCTAAAGCGGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATCCCGt < 2:539923/140‑1 (MQ=255) | ATTAATGCCACAATACGTCGTGAACAAGGTTCGGATATTGACGCAGCTTGTGGTCAATTAAGAGCAAAGGAACGACAAGTAGAAACGAGGTAAAGACAAATGCTAGAGGCACAATTTTTTACTGATACTGGACAACATAGAGATAAGAATGAAGATGCGGGTGGTATTTTTTATAATCAAACTAATCAACAACTTTTAGTTCTGTGTGATGGTATGGGTGGCCATAAAGCAGGAGAAGTTGCAAGTAAATTTGTTACAGATGAGTTGAAATCCCGT > USA300TCH1516_ALE/1231257‑1231532 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |