| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | USA300TCH1516_ALE | 1,702,671 | G→C | 10.2% | I117M (ATC→ATG) | tylM1 ← | dTDP‑3‑amino‑3,6‑dideoxy‑alpha‑D‑glucopyranose N,N‑dimethyltransferase |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | USA300TCH1516_ALE | 1,702,671 | 0 | G | C | 10.2% | 384.0 / 29.2 | 117 | I117M (ATC→ATG) | tylM1 | dTDP‑3‑amino‑3,6‑dideoxy‑alpha‑D‑glucopyranose N,N‑dimethyltransferase |
| Reads supporting (aligned to +/- strand): ref base G (52/53); new base C (3/9); total (55/62) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.34e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.83e-01 | |||||||||||
Only 100 of 133 total aligned reads displayed.
ACTTTGATTATTAAACAAAGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACAAAAAATAGTGATGATATCAAATTGTTGTTGCAAATC > USA300TCH1516_ALE/1702581‑1702760 | aCTTTGATTATTAAACAAAGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATtg > 1:680815/1‑91 (MQ=255)aCTTTGATTATTAAACAAAGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATtg < 1:322613/91‑1 (MQ=255)aCTTTGATTATTAAACAAAGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATtg > 1:2510589/1‑91 (MQ=255) cTTTGATTATTAAACAAAGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATtga < 1:542259/91‑1 (MQ=255) cTTTGATTATTAAACAAAGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATtga < 1:1262148/91‑1 (MQ=255) tttGATTATTAAACAAAGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATtgat < 1:334279/91‑1 (MQ=255) tttGATTATTAAACAAAGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATtgat > 1:4133961/1‑91 (MQ=255) ttGATTATTAAACAAAGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATtgatg < 1:649709/91‑1 (MQ=255) tGATTATTAAACAAAGTCTTCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATtgatga < 1:2692974/91‑1 (MQ=255) gATTATTAAACAAAGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGaa < 1:1772995/91‑1 (MQ=255) gATTATTAAACAAAGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGaa < 1:1312742/91‑1 (MQ=255) ttattaAACAAAGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATg < 1:1038485/91‑1 (MQ=255) ttattaAACAAAGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATg > 1:1210257/1‑91 (MQ=255) ttattaAACAAAGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATg > 1:1210289/1‑91 (MQ=255) ttattaAACAAAGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTCATCAATg < 1:1111805/91‑1 (MQ=255) ttaAACAAAGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTCATCAATGttt < 1:1040184/91‑1 (MQ=255) ttaAACAAAGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTCATCAATGttt < 1:1122299/91‑1 (MQ=255) ttaAACAAAGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTCATCAATGttt < 1:1121953/91‑1 (MQ=255) aaaCAAAGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTCATCAATGtttat < 1:4103862/91‑3 (MQ=255) aaaCAAAGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTCATCAATGtttat < 1:4103842/91‑3 (MQ=255) aCAAAGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAAt > 1:3477090/1‑91 (MQ=255) cAAAGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATc < 1:2790748/91‑1 (MQ=255) aaaGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCa > 1:3660561/1‑91 (MQ=255) aaaGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCa < 1:3469537/91‑1 (MQ=255) aaGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCAc > 1:2114562/1‑91 (MQ=255) aaGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCAc < 1:2233006/91‑1 (MQ=255) aaGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCAc < 1:2660619/91‑1 (MQ=255) aaGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCAc < 1:1630391/91‑1 (MQ=255) aaGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCAc > 1:3425184/1‑91 (MQ=255) aGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACt > 1:392597/1‑91 (MQ=255) aGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACt > 1:390491/1‑91 (MQ=255) aGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACt > 1:518172/1‑91 (MQ=255) aGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACt > 1:516468/1‑91 (MQ=255) gTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTg < 1:2507396/91‑1 (MQ=255) tcatcaTTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGc < 1:1611012/91‑1 (MQ=255) atcatTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAg < 1:1163824/91‑1 (MQ=255) atcatTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAg > 1:2126020/1‑91 (MQ=255) atcatTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAg > 1:1934269/1‑91 (MQ=255) atcatTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAg < 1:2916449/91‑1 (MQ=255) atcatTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAg > 1:825577/1‑91 (MQ=255) tcatTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGt < 1:2141457/91‑1 (MQ=255) tcatTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGt < 1:2548414/91‑1 (MQ=255) tcatTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGt > 1:3856983/1‑91 (MQ=255) tcatTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACAGTGATGAATGTTTCAATCACTGCAGt > 1:3855418/1‑91 (MQ=255) catTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGtt < 1:1193600/91‑1 (MQ=255) atTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGttt < 1:2810677/91‑1 (MQ=255) atTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGttt < 1:2810428/91‑1 (MQ=255) tataAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATc > 1:1513350/1‑91 (MQ=255) aaCAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGc < 1:814319/91‑1 (MQ=255) aCAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCa > 1:882069/1‑91 (MQ=255) aGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCaaa < 1:1874554/91‑1 (MQ=255) aGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCaaa < 1:2589282/91‑1 (MQ=255) aGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCaaa < 1:3049135/91‑1 (MQ=255) gTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAaat < 1:214807/91‑1 (MQ=255) gTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAAtt > 1:1125750/1‑91 (MQ=255) tACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCACATAAttt > 1:611524/1‑91 (MQ=255) tACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAAttt > 1:2672732/1‑91 (MQ=255) aCATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTa > 1:3242824/1‑91 (MQ=255) aTCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTaga > 1:3943865/1‑91 (MQ=255) tCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTagag < 1:3645335/91‑1 (MQ=255) cAAAAATAAATACACCTGAATCAGTCAGATGATGATACACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTagaga > 1:3504488/1‑91 (MQ=255) cAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTagaga < 1:1275598/91‑1 (MQ=255) cAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTagaga > 1:3506943/1‑91 (MQ=255) cAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTagaga > 1:3503945/1‑91 (MQ=255) aaaaTAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGt < 1:3858178/91‑1 (MQ=255) aaataaatACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTc > 1:156452/1‑91 (MQ=255) aaataaatACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTc > 1:156571/1‑91 (MQ=255) aataCACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACaaa > 1:3931687/1‑91 (MQ=255) aataCACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACaaa > 1:2841854/1‑91 (MQ=255) aataCACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACaaa > 1:2841053/1‑91 (MQ=255) aataCACCTGAATCAGTCAGATGATGAT‑AACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACaaaa < 1:1881592/91‑1 (MQ=255) acacCTGAATCAGTCAGATGATGATAAACATTGATGAGTGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACaaaaaa > 1:3496698/1‑91 (MQ=255) ccTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACAAAAAATAg < 1:2230729/91‑1 (MQ=255) cTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACAAAAAATAGt > 1:251368/1‑91 (MQ=255) cTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACAAAAAATAGt < 1:3706505/91‑1 (MQ=255) tcagtcagATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACAAAAAATAGtgatga < 1:2976662/91‑1 (MQ=255) tcagtcagATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACAAAAAATAGtgatga < 1:2976996/91‑1 (MQ=255) gtcagATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACAAAAAATAGTGATGatat < 1:2424362/91‑1 (MQ=255) tcagATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACAAAAAATAGTGATGATATc < 1:1780690/91‑1 (MQ=255) tcagATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACAAAAAATAGTGATGATATc > 1:472988/1‑91 (MQ=255) agATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATATTTTAGAGAGTCACAAAAAATAGTGATGATATCaa > 1:361800/1‑91 (MQ=255) gatgatgatAAACATTGATGAATGTTTCATTCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACAAAAAATAGTGATGATATCaaa < 1:3321908/91‑1 (MQ=255) gatgatgatAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACAAAAAATAGTGATGATATCaaa > 1:2046471/1‑91 (MQ=255) gatgatgatAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACAAAAAATAGTGATGATATCaaa < 1:165199/91‑1 (MQ=255) gatgatgatAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACAAAAAATAGTGATGATATCaaa > 1:2566436/1‑91 (MQ=255) gatgatgatAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACAAAAAATAGTGATGATATCaaa > 1:2566320/1‑91 (MQ=255) gatgatgatAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACAAAAAATAGTGATGATATCaaa > 1:2052405/1‑91 (MQ=255) tgatgatAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACAAAAAATAGTGATGATATCAAAtt > 1:679092/1‑91 (MQ=255) tgatgatAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACAAAAAATAGTGATGATATCAAAtt < 1:954672/91‑1 (MQ=255) tgatAAACGTTGATGAATGTTTCAATAACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACAAAAAATAGTGATGATATCAAAttgtt > 1:2531105/1‑91 (MQ=255) attgaaaCATTCATCAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACAAAAAATAGTGATGATATCAAAttgtt > 1:3029304/5‑91 (MQ=255) gatAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACAAAAAATAGTGATGATATCAAAttgttg > 1:3233763/1‑91 (MQ=255) tAAACATTGATGAATGTTTCAATCACTGCTGTTTCATCTTGCAAATAATTTAGAGAGTCACAAAAAATAGTGATGATATCAAAttgttgtt < 1:4111450/91‑1 (MQ=255) tAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACAAAAAATAGTGATGATATCAAAttgttgtt > 1:2379390/1‑91 (MQ=255) aaaCATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACAAAAAATAGTGATGATATCAAAttgttgttg < 1:3701410/91‑1 (MQ=255) cATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACAAAAAATAGTGATGATATCAAATTGTTGTTGCaa < 1:2842785/91‑1 (MQ=255) cATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACAAAAAATAGTGATGATATCAAATTGTTGTTGCaa < 1:3163662/91‑1 (MQ=255) cATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACAAAAAATAGTGATGATATCAAATTGTTGTTGCaa > 1:832991/1‑91 (MQ=255) aTTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACAAAAAATAGTGATGATATCAAATTGTTGTTGCaaa < 1:3796161/91‑1 (MQ=255) tgatgaATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACAAAAAATAGTGATGATATCAAATTGTTGTTGCAAATc < 1:1616466/91‑1 (MQ=255) | ACTTTGATTATTAAACAAAGTCATCATTTTATAAACAGTATGTACATCAAAAATAAATACACCTGAATCAGTCAGATGATGATAAACATTGATGAATGTTTCAATCACTGCAGTTTCATCTTGCAAATAATTTAGAGAGTCACAAAAAATAGTGATGATATCAAATTGTTGTTGCAAATC > USA300TCH1516_ALE/1702581‑1702760 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |