| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | USA300TCH1516_ALE | 1,870,863 | C→T | 7.0% | intergenic (‑350/+200) | 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 | 1,870,863 | 0 | C | T | 7.0% | 768.4 / 30.6 | 242 | intergenic (‑350/+200) | srkA/dat | Stress response kinase A/D‑alanine aminotransferase |
| Reads supporting (aligned to +/- strand): ref base C (117/107); new base T (7/10); total (124/118) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.55e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.39e-01 | |||||||||||
Only 100 of 265 total aligned reads displayed.
ACTCTAGTTTTCAAAATAATTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACTTTTTACTAAT > USA300TCH1516_ALE/1870773‑1870953 | aCTCTAGTTTTCAAAATAATTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGc < 2:219953/91‑1 (MQ=255) tctAGTTTTCAAAATAATTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGcac < 2:3868154/91‑1 (MQ=255) tctAGTTTTCAAAATAATTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGcac > 1:2958200/1‑91 (MQ=255) ctAGTTTTCAAAATAATTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGcaca < 1:94196/91‑1 (MQ=255) ctAGTTTTCAAAATAATTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGcaca < 2:2122618/91‑1 (MQ=255) ctAGTTTTCAAAATAATTGCTATCCCATTTTCATGGTTAGAATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGcaca > 1:1544368/1‑91 (MQ=255) ctAGTTTTCAAAAGAATTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGcaca < 2:1729504/91‑1 (MQ=255) aGTTTTCAAAATAATTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGTGcatc < 1:2591447/91‑1 (MQ=255) ttttCAAAATAATTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGTGcatcat < 2:2559065/91‑1 (MQ=255) ttttCAAAATAATTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCAcatcat > 1:532538/1‑91 (MQ=255) tttCAAAATAATTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGTGCATCata < 1:2420086/91‑1 (MQ=255) tttCAAAATAATTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCata < 1:1145537/91‑1 (MQ=255) ttCAAAATAATTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCatat > 2:1566307/1‑91 (MQ=255) aaaaTAATTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGTGCATCATAtttt < 1:2123825/91‑2 (MQ=255) ataatTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTaa > 2:3406959/1‑91 (MQ=255) atTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTc > 2:2854347/1‑91 (MQ=255) ttGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCa < 1:976388/91‑1 (MQ=255) ttGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCa > 1:390035/1‑91 (MQ=255) gCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATa < 2:1671933/91‑1 (MQ=255) gCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATa > 2:3447356/1‑91 (MQ=255) gCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATa < 1:736708/91‑1 (MQ=255) gCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATa > 1:904780/1‑91 (MQ=255) cTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAg < 1:1448855/91‑1 (MQ=255) cATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAAtt < 1:555727/91‑1 (MQ=255) cATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAAtt < 1:3091428/91‑1 (MQ=255) aTTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAAttt > 2:2102132/1‑91 (MQ=255) aTTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAAttt < 1:576536/91‑1 (MQ=255) aTTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAAttt < 2:2765690/91‑1 (MQ=255) ttttCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAAtttt < 1:3199011/91‑1 (MQ=255) ttttCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAAtttt < 1:727077/91‑1 (MQ=255) ttttCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAAtttt < 1:1592170/91‑1 (MQ=255) ttttCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAAtttt < 2:2440835/91‑1 (MQ=255) tttCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTta > 2:1232977/1‑91 (MQ=255) ttCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTtat < 1:1440742/91‑1 (MQ=255) ttCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTtat < 2:2486280/91‑1 (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 > 1:3504177/1‑91 (MQ=255) tGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAAtt > 1:1960985/1‑91 (MQ=255) tAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTa < 2:2284221/91‑1 (MQ=255) tAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTa < 2:3079890/91‑1 (MQ=255) gCATAAATTTATGAACTGTAACATTTTCGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATc > 2:3217987/1‑91 (MQ=255) gCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGTTGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATc < 1:3495485/91‑1 (MQ=255) gCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATc < 2:2718652/91‑1 (MQ=255) gCAGAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATc < 1:267476/91‑1 (MQ=255) cATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCa < 1:2485817/91‑1 (MQ=255) tAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCAtt < 1:2887675/91‑1 (MQ=255) aaaTTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATta < 2:2019612/91‑1 (MQ=255) aaTTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATtat > 1:3387120/1‑91 (MQ=255) aTTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATtata > 1:1977237/1‑91 (MQ=255) tATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATAttt < 2:3521328/91‑1 (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) gAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCaa < 1:1313690/91‑1 (MQ=255) aaCTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAAc > 1:2045831/1‑91 (MQ=255) aaCTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAAc > 2:1162969/1‑91 (MQ=255) aCTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACt < 1:3064256/91‑1 (MQ=255) gTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGaa > 2:3341079/1‑91 (MQ=255) gTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGaa > 2:2042259/1‑91 (MQ=255) tAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGaaa < 1:1813215/91‑1 (MQ=255) aCATTTACGTACTTAGTAAAATATGATGCACATCATACTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAAt > 1:3258049/1‑91 (MQ=255) tttACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATgag < 1:3541117/91‑1 (MQ=255) tttACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATgag > 2:643309/1‑91 (MQ=255) tttACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACCGAAAATgag > 1:3718508/1‑91 (MQ=255) ttACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATgaga > 1:3807365/1‑91 (MQ=255) tACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGaa < 1:2778566/91‑1 (MQ=255) tACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGaa < 1:193851/91‑1 (MQ=255) cGTACTTAGTAAAATATGATGCACATTATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAAc > 2:2279011/1‑91 (MQ=255) cGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATTGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAAc > 2:2326267/1‑91 (MQ=255) cTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACaaaa > 2:755473/1‑91 (MQ=255) ttAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAAt < 1:2504238/91‑1 (MQ=255) ttAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAAt < 2:2894088/91‑1 (MQ=255) ttAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAAt < 1:3346206/91‑1 (MQ=255) ctAGTAAAATATGATGCACATCATATTTGTAACTCAAAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAAt < 2:3845656/90‑1 (MQ=255) gTAAAATATGATGCACATCATATTTGTAACTCATAGTAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGc < 2:3504177/91‑1 (MQ=255) gTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGc > 1:660292/1‑91 (MQ=255) gTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGc > 1:3773479/1‑91 (MQ=255) gTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGc > 2:3584840/1‑91 (MQ=255) gTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGc < 1:1534637/91‑1 (MQ=255) tAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCa < 2:3630181/91‑1 (MQ=255) tAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCa > 1:3630095/1‑91 (MQ=255) caaaTATGATGTGCATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCAc > 1:367667/2‑91 (MQ=255) aaaaTATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCAc > 1:238817/1‑91 (MQ=255) aaaaTATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCAc > 1:3461928/1‑91 (MQ=255) aaTATGATGTGCATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACtt > 2:162395/1‑91 (MQ=255) aaTATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACtt > 2:1007927/1‑91 (MQ=255) atatGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACttt > 1:2625601/1‑91 (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 < 1:354904/79‑1 (MQ=255) cacaTCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACTTTTTACTAat < 2:2641711/91‑1 (MQ=255) | ACTCTAGTTTTCAAAATAATTGCTATCCCATTTTCATGGTTAGCATAAATTTATGAACTGTAACATTTACGTACTTAGTAAAATATGATGCACATCATATTTGTAACTCATAGAAAATTTTATAATTTTTATCATTATATTTCAACTGAAAATGAGAAACAAAATGGCACTTTTTACTAAT > USA300TCH1516_ALE/1870773‑1870953 |
| 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: ‑ |