| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | USA300TCH1516_ALE | 1,870,864 | A→G | 7.0% | 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 | 7.0% | 745.8 / 32.5 | 242 | intergenic (‑351/+199) | srkA/dat | Stress response kinase A/D‑alanine aminotransferase |
| Reads supporting (aligned to +/- strand): ref base A (116/108); new base G (7/10); total (124/118) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.57e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.73e-01 | |||||||||||
Only 100 of 263 total aligned reads displayed.
CTCTAGTTTTCAAAATAATTGCTATCCCA‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACTTTTTACTAATA > USA300TCH1516_ALE/1870774‑1870954 | ctctAGTTTTCAAAATAATTGCTATCCCA‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGca > 2:1650236/1‑91 (MQ=255) tctAGTTTTCAAAATAATTGCTATCCCA‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGcac < 2:3868154/91‑1 (MQ=255) tctAGTTTTCAAAATAATTGCTATCCCA‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGcac > 1:2958200/1‑91 (MQ=255) tctAGTTTTCAAAATAATTGCTATCCCA‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGcac > 2:232799/1‑91 (MQ=255) tctAGTTTTCAAAATAATTGCTATCCCA‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGcac > 2:2307139/1‑91 (MQ=255) ctAGTTTTCAAAATAATTGCTATCCCA‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGcaca < 1:94196/91‑1 (MQ=255) ctAGTTTTCAAAATAATTGCTATCCCA‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGcaca < 2:2122618/91‑1 (MQ=255) ctAGTTTTCAAAATAATTGCTATCCCA‑TTTTCATGGTTAGAATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGcaca > 1:1544368/1‑91 (MQ=255) ctAGTTTTCAAAAGAATTGCTATCCCA‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGcaca < 2:1729504/91‑1 (MQ=255) aGTTTTCAAAATAATTGCTATCCCA‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGTGcatc < 1:2591447/91‑1 (MQ=255) ttttCAAAATAATTGCTATCCCATTTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCAcatca < 1:3056716/91‑1 (MQ=255) ttttCAAAATAATTGCTATCCCA‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCAcatcat > 1:532538/1‑91 (MQ=255) tttCAAAATAATTGCTATCCCA‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGTGCATCata < 1:2420086/91‑1 (MQ=255) tttCAAAATAATTGCTATCCCA‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCata < 1:1145537/91‑1 (MQ=255) ttCAAAATAATTGCTATCCCA‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCatat > 2:1566307/1‑91 (MQ=255) tCAAAATAATTGCTATCCCA‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATAtt > 1:3826252/1‑91 (MQ=255) aaaaTAATTGCTATCCCA‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGTGCATCATAtttt < 1:2123825/91‑2 (MQ=255) taatTGCTATCCCA‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAAc > 2:2504238/1‑91 (MQ=255) atTGCTATCCCA‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTc > 2:2854347/1‑91 (MQ=255) ttGCTATCCCA‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCa > 1:390035/1‑91 (MQ=255) ttGCTATCCCA‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCa < 1:976388/91‑1 (MQ=255) gCTATCCCA‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATa > 1:904780/1‑91 (MQ=255) gCTATCCCA‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATa < 1:736708/91‑1 (MQ=255) gCTATCCCA‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATa > 2:3447356/1‑91 (MQ=255) gCTATCCCA‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATa > 1:2618967/1‑91 (MQ=255) cTATCCCA‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAg < 1:1448855/91‑1 (MQ=255) aTCCCA‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGcac > 1:3661838/1‑69 (MQ=255) cA‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAAtt < 1:3091428/91‑1 (MQ=255) cA‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAAtt < 1:555727/91‑1 (MQ=255) a‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAAttt < 1:576536/91‑1 (MQ=255) a‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAAttt < 2:2765690/91‑1 (MQ=255) ttttCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAAtttt < 2:2440835/91‑1 (MQ=255) ttttCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAAtttt < 1:727077/91‑1 (MQ=255) ttttCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAAtttt < 1:1592170/91‑1 (MQ=255) tttCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTta > 2:1232977/1‑91 (MQ=255) ttCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTtat < 1:1440742/91‑1 (MQ=255) ttCATGGTTAGCATAAATTTATGAACTGTAACATATACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTtat < 2:823405/91‑1 (MQ=255) tCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTtata < 1:1245005/91‑1 (MQ=255) tCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTtata > 2:1462158/1‑91 (MQ=255) tCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTtata > 2:3032294/1‑91 (MQ=255) cATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATaa < 2:3671218/91‑1 (MQ=255) tGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAAtt > 1:3503259/1‑91 (MQ=255) tGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAAtt > 1:1960984/1‑91 (MQ=255) ggTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAAttt > 1:322308/1‑91 (MQ=255) gCATAAATTTATGAACTGTAACATTTTCGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATc > 2:3217987/1‑91 (MQ=255) gCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGTTGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATc < 1:3495485/91‑1 (MQ=255) gCAGAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATc < 1:267476/91‑1 (MQ=255) cATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCa < 1:2480844/91‑1 (MQ=255) aaaTTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATta < 2:2019612/91‑1 (MQ=255) aTTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATtata > 1:1977237/1‑91 (MQ=255) ttATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATAtt < 1:33827/91‑1 (MQ=255) ttATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATAtt > 2:2727528/1‑91 (MQ=255) aTGAACTGTAACATTTACGTACTTAGTAAAATATGATTCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTc > 2:2525131/1‑91 (MQ=255) aTGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTc < 2:2549934/91‑1 (MQ=255) tGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCa < 2:580905/91‑1 (MQ=255) tGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCa < 2:3775020/91‑1 (MQ=255) tGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCa > 1:3452783/1‑91 (MQ=255) gAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCaa < 1:2866474/91‑1 (MQ=255) gAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCaa < 1:1313690/91‑1 (MQ=255) aaCTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCa < 2:3085631/79‑1 (MQ=255) aaCTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAAc > 2:1162969/1‑91 (MQ=255) aaCTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAAc > 1:2044824/1‑91 (MQ=255) tGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGa > 1:2368080/1‑91 (MQ=255) gTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGaa > 2:2042259/1‑91 (MQ=255) gTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGaa > 2:3341079/1‑91 (MQ=255) gTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGaa > 2:221430/1‑91 (MQ=255) tAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGaaa < 1:1813215/91‑1 (MQ=255) aaCATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGaaaa > 2:2585771/1‑91 (MQ=255) aCATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAAt > 1:2497056/1‑91 (MQ=255) tttACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATgag < 1:3541584/91‑1 (MQ=255) tttACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATgag > 2:643309/1‑91 (MQ=255) tttACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATgag < 1:3541075/91‑1 (MQ=255) ttACGTACTTATTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATgaga < 2:2958838/91‑1 (MQ=255) tACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGaa < 1:193851/91‑1 (MQ=255) tACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGaa < 1:2778566/91‑1 (MQ=255) aCGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGaaa < 2:2093074/91‑1 (MQ=255) cGTACTTAGTAAAATATGATGCACATTATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAAc > 2:2279011/1‑91 (MQ=255) cGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATCTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAAc > 2:3415371/1‑91 (MQ=255) aCTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACaaa < 1:3624160/91‑1 (MQ=255) cTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACaaaa > 2:755473/1‑91 (MQ=255) ttAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAAt < 1:3346206/91‑1 (MQ=255) ctAGTAAAATATGATGCACATCATATTTGTAACTCAAAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAAt < 2:3845656/90‑1 (MQ=255) gTAAAATATGATGCACATCATATTTGTAACTCATAGTAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGc < 2:3504177/91‑1 (MQ=255) gTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGc < 1:1534637/91‑1 (MQ=255) gTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGc > 1:660292/1‑91 (MQ=255) gTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGc > 2:3584840/1‑91 (MQ=255) gTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGc > 1:3773479/1‑91 (MQ=255) tAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCa < 2:3630181/91‑1 (MQ=255) tAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCa < 1:3708087/91‑1 (MQ=255) aaaTATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACt < 1:3144832/91‑1 (MQ=255) aaTATGATGTGCATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACtt > 2:162395/1‑91 (MQ=255) aaTATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACtt > 2:1007927/1‑91 (MQ=255) tatGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACtttt < 2:2606272/91‑1 (MQ=255) atgatgTGCATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACttttt > 1:302077/1‑91 (MQ=255) tgatgTGCATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACTTTTTa > 1:1471702/1‑91 (MQ=255) tgatgCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACTTTTTa > 1:232761/1‑91 (MQ=255) atgCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACTTTTTACt > 2:2091250/1‑91 (MQ=255) tgCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACTTTTTACTa > 1:2001515/1‑91 (MQ=255) gCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGc > 2:354904/1‑79 (MQ=255) cacaTCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACTTTTTACTAat < 2:2641711/91‑1 (MQ=255) | CTCTAGTTTTCAAAATAATTGCTATCCCA‑TTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACTTTTTACTAATA > USA300TCH1516_ALE/1870774‑1870954 |
| 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: ‑ |