| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | USA300TCH1516_ALE | 293,940 | C→T | 25.0% | intergenic (+57/‑471) | gatD → / → tarI' | Galactitol‑1‑phosphate 5‑dehydrogenase/Ribitol‑5‑phosphate cytidylyltransferase 2 |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | USA300TCH1516_ALE | 293,940 | 0 | C | T | 25.0% | 96.7 / 34.3 | 60 | intergenic (+57/‑471) | gatD/tarI' | Galactitol‑1‑phosphate 5‑dehydrogenase/Ribitol‑5‑phosphate cytidylyltransferase 2 |
| Reads supporting (aligned to +/- strand): ref base C (20/25); new base T (10/5); total (30/30) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 2.33e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.70e-01 | |||||||||||
CCGTTAGAAAAAGGCCCGGAGACATTTGATAAATTAGTTAACAAGAAAGA‑ACGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGTATACTTAAAATGAGATGGCAATATT > USA300TCH1516_ALE/293800‑294074 | ccGTTAGAAAAAGGCCCGGAGACATTTGATAAATTAGTTAACAAGAAAGA‑ACGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGc < 1:139310/141‑1 (MQ=255) cgtgcaaaaaaGGCTCGGAGACATTTGATAAATGAGTTCACAAGAATGAGACG‑TTTGTTTAAGTCATGTTTACGATTTATTAGGATTGTCCTTTTAGGACGAAAACGTTGGTATAGTTATAGCTATGAAAGTGCGAATGcc < 2:161575/135‑1 (MQ=255) aaaaGGCCCGGAGACATTTGATAAATTAGTTAACAAGAAAGA‑ACGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGt > 1:623513/1‑141 (MQ=255) aGGCCCGGAGACATTTGATAAATTAGTTAACAAGAAAGA‑ACGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCta > 1:138942/1‑141 (MQ=255) aGGCCCGGAGACATTTGATAAATTAGTTAACAAGAAAGA‑ACGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGGCTGGTCta > 1:159618/1‑141 (MQ=255) gagaTATTTGTTAAATTAGTTAACAAGAAAGA‑ACGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGATAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATAc < 2:576725/141‑1 (MQ=255) agaCATTTGATAAATTAGTTAACAAGAAAGA‑ACGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACt > 1:584100/1‑141 (MQ=255) gaCATTTGATAAATTAGTTAACAAGAAAGA‑ACGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTa < 1:119902/141‑1 (MQ=255) gaCATTTGATAAATTAGTTAACAAGAAAGA‑ACGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTa < 1:720522/141‑1 (MQ=255) aCATTTGATAAATTAGTTAACAAGAAAGA‑ACGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGATATGAAAGTGTGAATGCCGTCTGGACTATAGAtattat > 1:560773/1‑141 (MQ=255) aaaTTAGTTAACAAGAAAGA‑ACGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGCGAACCCAAACGCTGGTATATGCCTTGCTAGGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAaataat < 1:764461/141‑1 (MQ=255) ttAGTTAACAAGAAAGA‑ACGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTCTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCa > 1:595410/1‑141 (MQ=255) attAACAAGAAAGA‑ACGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCt < 2:582003/140‑1 (MQ=255) agaaaga‑aCGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGGCGAAAAGGCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATATTATCGTAATAATTCATCTTCGAatt > 1:572968/1‑140 (MQ=255) aga‑aCGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACg > 1:333971/1‑141 (MQ=255) aCGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTg < 1:427791/141‑1 (MQ=255) cGATTTGATAAAGTCATGTTCACGACTTATTAGTATGCACCTTTGAGGACGAAAACGCTGCTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCCAATCTCCGTTGa > 2:164206/1‑141 (MQ=255) aaTTTGATAAAGTCATGTTTACGATTTATTAGTACGCACCTTTGAGGACGAAAACGCTGGTATAGTTATATCTATGAAAGTGCGAATGCCGTCTGGCCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGAt < 1:76427/140‑1 (MQ=255) tGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAAt < 2:311918/141‑1 (MQ=255) gATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATa > 2:384378/1‑141 (MQ=255) gTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGt > 1:52089/1‑141 (MQ=255) gTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGt > 1:35068/1‑141 (MQ=255) gTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACt < 2:244839/141‑1 (MQ=255) tttACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACtt > 1:64480/1‑141 (MQ=255) aTGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTtg > 2:90258/1‑141 (MQ=255) gCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTtgtg > 2:30449/1‑141 (MQ=255) cACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGa > 2:706131/1‑141 (MQ=255) tttGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCg < 1:5696/141‑1 (MQ=255) tttGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCg < 1:195360/141‑1 (MQ=255) aGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGgttg > 2:469200/1‑141 (MQ=255) aGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTACCACTAAAGTAGACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGgttg > 1:177723/1‑141 (MQ=255) aGGACCAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGgttg < 2:133447/141‑1 (MQ=255) ggACGAAAACGCTGGTATAGTTATAGCTATGAGAGAGCGAAAACCTTCTGTTCTAGAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGgttgt < 2:159618/141‑1 (MQ=255) ggACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGgttgt < 2:138942/141‑1 (MQ=255) ggACGAAAACGCTGGTATAGGTATAGCTATGAAAGTGCGAATGCCGTCTGGGCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAATTATGTTTATGAGTCGgtttt > 2:656688/1‑139 (MQ=255) gACGAAAACGCTGGTACAGTTATAGCTATGAAAGTGCGAATGCCGTCTCGTCTATAGATACTATCGAAATAATTCATCTTCGAATATATGTTTATAAATCGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGgttgtt < 1:566882/141‑1 (MQ=255) aCGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGttt < 2:622567/141‑1 (MQ=255) aCGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGttt < 2:22832/141‑1 (MQ=255) aCGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGttt < 2:273799/141‑1 (MQ=255) aCGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCTTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGttt < 1:210610/141‑1 (MQ=255) aaaaCGCTTGTATAGTTATAGCGATGAAAGTGCGAATGCCGTCTGGTCTAGAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGc < 1:608508/141‑1 (MQ=255) aaCGCTGGTGTAGTTATAGCTATGAAAGTGCGAGTGCCGTCTGGTCTATAGATGCTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCAt < 2:232011/141‑1 (MQ=255) aCGCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCAtt > 1:64683/1‑141 (MQ=255) cGCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCAttt < 1:638939/141‑1 (MQ=255) cGCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTAACTTGTGTGAAATATGCTGGTGAATCGGTTGTTTTGCAttt > 2:122759/1‑141 (MQ=255) gCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCAtttt > 2:328914/1‑141 (MQ=255) cTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCCTTTTg > 1:519152/1‑141 (MQ=255) tGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGt > 1:62589/1‑141 (MQ=255) tGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGACGGTTTACTTGTGTGAAATATGATTGTGAATCGGTTGTTTTGGATTTTGt > 2:711840/1‑141 (MQ=255) ggTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGta < 2:627120/141‑1 (MQ=255) tataGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGtata < 2:333971/141‑1 (MQ=255) ataGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGTATAc < 1:30449/141‑1 (MQ=255) taGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGTATACTTAAAAt < 1:770144/141‑1 (MQ=255) gCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGTATACTTAAAATga > 1:772483/1‑141 (MQ=255) gCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGTATACTTAAAATga < 1:378517/141‑1 (MQ=255) gCTATGAAAGTGCAAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCACCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGTATACTTAAATTga < 1:556122/141‑1 (MQ=255) tATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGTATACTTAAAATgaga > 2:397373/1‑141 (MQ=255) tGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGCGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGTATACTTAAAATGAGATg < 2:473442/141‑1 (MQ=255) aGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGTATACTTAGAATGAGATGGCaa > 2:556833/1‑141 (MQ=255) aGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGTATACTTAAAATGAGATGGCaa > 2:719698/1‑141 (MQ=255) cGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCATCGAATATACGCTGATAAATAGCCGGTTGACTTGTGTGAAATATGCTTGTGCATCGGCTGTTTTTCATTTTGTATACTTAAAATGAGATCGCAATCtt > 1:739389/1‑141 (MQ=255) cGAACGCCGTCTGGTCGATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGTATACTTAAAATGAGATGGCAATAtt < 1:164206/141‑1 (MQ=255) | CCGTTAGAAAAAGGCCCGGAGACATTTGATAAATTAGTTAACAAGAAAGA‑ACGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGTATACTTAAAATGAGATGGCAATATT > USA300TCH1516_ALE/293800‑294074 |
| 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: ‑ |