| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | USA300TCH1516_ALE | 1,870,864 | A→G | 5.6% | intergenic (‑351/+199) | srkA ← / ← dat | Stress response kinase A/D‑alanine aminotransferase |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | USA300TCH1516_ALE | 1,870,864 | 0 | A | G | 5.6% | 404.1 / 9.8 | 124 | intergenic (‑351/+199) | srkA/dat | Stress response kinase A/D‑alanine aminotransferase |
| Reads supporting (aligned to +/- strand): ref base A (72/45); new base G (4/3); total (76/48) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.85e-01 | |||||||||||
Only 100 of 136 total aligned reads displayed.
CTCTAGTTTTCAAAATAATTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACTTTTTACTAAT > USA300TCH1516_ALE/1870774‑1870953 | tctAGTTTTCAAAATAATTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGcac < 1:3611140/91‑1 (MQ=255) tctAGTATTCAAAATAATTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGcac < 1:2424996/91‑1 (MQ=255) ctAGTTTTCAAAATAATTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGcaca > 1:566539/1‑91 (MQ=255) ctAGTTTTCAAAATAATTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGcaca > 1:2986309/1‑91 (MQ=255) tAGTTTTCAAAATAATTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCAcat > 1:1366761/1‑91 (MQ=255) tttCAAAATAATTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGTGCATCata < 1:3689463/91‑1 (MQ=255) tttCAAAATAATTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGTGCATCata < 1:4040621/91‑1 (MQ=255) tttCAAAATAATTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCata < 1:418973/91‑1 (MQ=255) tgaaaaTAATTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATAtt > 1:291364/3‑91 (MQ=255) cAAAATAATTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATAttt > 1:2022999/1‑91 (MQ=255) ataatTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTCCGTACTTAGTAAAATATGATGCACATCATATTTGTaa > 1:2917367/1‑91 (MQ=255) taatTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAAc > 1:427933/1‑91 (MQ=255) aatTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACt > 1:2466026/1‑91 (MQ=255) atTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTc > 1:561798/1‑91 (MQ=255) atTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTc > 1:563860/1‑91 (MQ=255) tGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCAt < 1:139190/91‑1 (MQ=255) tGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCAt < 1:2099078/91‑1 (MQ=255) gCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCGTa > 1:935097/1‑91 (MQ=255) gCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATa > 1:527969/1‑91 (MQ=255) gCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATa > 1:436528/1‑91 (MQ=255) cTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAg > 1:1702784/1‑91 (MQ=255) cTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAg > 1:1751066/1‑91 (MQ=255) cTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAg > 1:1256606/1‑91 (MQ=255) cTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAg > 1:1257170/1‑91 (MQ=255) ccATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAAt > 1:1065470/1‑91 (MQ=255) ccATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAAt > 1:766700/1‑91 (MQ=255) aTTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAAttt < 1:81669/91‑1 (MQ=255) ttCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTtat > 1:3935675/1‑91 (MQ=255) ttCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTtat < 1:413700/91‑1 (MQ=255) cATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATaa > 1:1879125/1‑91 (MQ=255) cATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATaa > 1:2165551/1‑91 (MQ=255) cATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATaa > 1:2165583/1‑91 (MQ=255) tGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAAtt > 1:3415150/1‑91 (MQ=255) ggTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAAttt < 1:3439763/91‑1 (MQ=255) ggTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAAttt > 1:2396395/1‑91 (MQ=255) ggTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAAttt > 1:2397943/1‑91 (MQ=255) ggTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAAttt > 1:1549375/1‑91 (MQ=255) ggTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAAttt > 1:1519009/1‑91 (MQ=255) ggTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAAttt > 1:719879/1‑91 (MQ=255) ggTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAAttt < 1:2187291/91‑1 (MQ=255) ggTCAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAAttt < 1:3345359/91‑1 (MQ=255) gTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAAtttt > 1:3126402/1‑91 (MQ=255) tAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTa > 1:3927319/1‑91 (MQ=255) tAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTa < 1:1495606/91‑1 (MQ=255) aTAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCAt < 1:1167753/91‑1 (MQ=255) tAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCAtt < 1:2465826/91‑1 (MQ=255) aaaTTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATta < 1:3954434/91‑1 (MQ=255) aaaTTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATta < 1:537486/91‑1 (MQ=255) aaTTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATtat < 1:3728566/91‑1 (MQ=255) tATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATAttt > 1:1896403/1‑91 (MQ=255) aTGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTc > 1:360266/1‑91 (MQ=255) tGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCa > 1:1332792/1‑91 (MQ=255) gAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCaa > 1:1229356/1‑91 (MQ=255) aaCTGTCACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAAc > 1:3222649/1‑91 (MQ=255) aaCTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAAc < 1:161282/91‑1 (MQ=255) aaCTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAAc < 1:3771927/91‑1 (MQ=255) cTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTg < 1:2376869/91‑1 (MQ=255) cATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATg > 1:347525/1‑91 (MQ=255) aTTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATga < 1:3416542/91‑1 (MQ=255) ttACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATgaga < 1:541720/91‑1 (MQ=255) tACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGaa > 1:2994790/1‑91 (MQ=255) tACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGaa < 1:2915769/91‑1 (MQ=255) aCGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGaaa > 1:628342/1‑91 (MQ=255) cGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAAc < 1:985378/91‑1 (MQ=255) cGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAAc > 1:872917/1‑91 (MQ=255) cTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACaaaa < 1:3454167/91‑1 (MQ=255) ttAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAAt < 1:1983452/91‑1 (MQ=255) ttAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAAt < 1:1281448/91‑1 (MQ=255) ttAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAAt < 1:410414/91‑1 (MQ=255) ttAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAAt < 1:1280226/91‑1 (MQ=255) tAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATg > 1:1266541/1‑91 (MQ=255) aGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATgg < 1:890150/91‑1 (MQ=255) aGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATgg < 1:1349766/91‑1 (MQ=255) aGTAAAATATGACGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATgg < 1:2795401/91‑1 (MQ=255) gTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGc < 1:32214/91‑1 (MQ=255) tAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCa < 1:863270/91‑1 (MQ=255) aaaaTATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCAc > 1:837065/1‑91 (MQ=255) aaaTATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACt > 1:402559/1‑91 (MQ=255) aaaTATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACt > 1:2947137/1‑91 (MQ=255) aaaTATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACt > 1:2946939/1‑91 (MQ=255) aaaTATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACt > 1:1836444/1‑91 (MQ=255) aaTATGATGTGCATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACtt > 1:3723125/1‑91 (MQ=255) aaTATGATGTGCATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACtt > 1:1056797/1‑91 (MQ=255) aaTATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACtt > 1:3875619/1‑91 (MQ=255) tatGATGTGCATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACtttt > 1:686825/1‑91 (MQ=255) tatGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAGCTGAAAATGAGAAACAAAATGGCACtttt > 1:3326871/1‑91 (MQ=255) atgatgCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACttttt < 1:1756710/91‑1 (MQ=255) atgaagCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACttttt > 1:3277240/1‑91 (MQ=255) tgatgCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACTTTTTa > 1:2553661/1‑91 (MQ=255) tgatgCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACTTTTTa > 1:1514619/1‑91 (MQ=255) tgatgCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACTTTTTa > 1:3780709/1‑91 (MQ=255) tgatgCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACTTTTTa > 1:3175725/1‑91 (MQ=255) atgCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACTTTTTACt > 1:609916/1‑91 (MQ=255) atgCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACTTTTTACt < 1:861886/91‑1 (MQ=255) tgCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACTTTTTACTa < 1:3394751/91‑1 (MQ=255) gCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACTTTTTACTaa > 1:2580295/1‑91 (MQ=255) cacaTCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACTTTTTACTAat < 1:4129201/91‑1 (MQ=255) cacaTCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACTTTTTACTAat < 1:133127/91‑1 (MQ=255) cacaTCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACTTTTTACTAat < 1:2757493/91‑1 (MQ=255) cacaTCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACTTTTTACTAat > 1:2645426/1‑91 (MQ=255) | CTCTAGTTTTCAAAATAATTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACTTTTTACTAAT > USA300TCH1516_ALE/1870774‑1870953 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |