| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | NC_000913 | 2,564,501 | T→C | intergenic (+129/‑22) | yffR → / → yffS | CPZ‑55 prophage; uncharacterized protein/CPZ‑55 prophage; uncharacterized protein |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,564,501 | 0 | T | C | 84.3% | 204.5 / 24.6 | 83 | intergenic (+129/‑22) | yffR/yffS | CPZ‑55 prophage; uncharacterized protein/CPZ‑55 prophage; uncharacterized protein |
| Reads supporting (aligned to +/- strand): ref base T (6/7); new base C (38/32); total (44/39) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 7.64e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.48e-01 | |||||||||||
CCCGGCCCCTCGCCGGGTTTTTTGTGATCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATGAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACG > NC_000913/2564405‑2564596 | cccGGCCCCTCGCCGGGTTTTTTGTGATCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATg < 1:679033/100‑1 (MQ=255) ccGGCCCCTCGCCGGGTTTTTTGTGATCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATga < 2:460023/100‑1 (MQ=255) cTCGCCGGGTTTTTTGTGATCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGga < 1:856981/100‑1 (MQ=255) cTCGCCGGGTTTTTTGTGATCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGga < 1:897886/100‑1 (MQ=255) tCGCCGGGTTTTGTGTGATCTGCGTCAATATTCCCGTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGgat < 1:882291/100‑2 (MQ=255) ccGGGTTTTTTGTGATCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATa < 1:747589/100‑1 (MQ=255) gTTTTTTGTGATCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATaaaaa < 2:874023/100‑1 (MQ=255) gTTTTTTGTGATCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATaaaaa > 2:1425928/1‑100 (MQ=255) gTTTTTTGTGATCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATaaaaa > 2:476727/1‑100 (MQ=255) ttttttGTGATCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAAt < 1:712059/100‑1 (MQ=255) ttttttGTGATCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAAt < 1:314439/100‑1 (MQ=255) tttttGTGATCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATc > 2:853224/1‑100 (MQ=255) tttttGTGATCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATc < 2:237583/100‑1 (MQ=255) tttttGTGATCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATc > 1:473243/1‑100 (MQ=255) tttttGTGATCTGCGTCAATACTCCCTTCCGTGCCGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGTATTCTATGAGATTGGAGATaaaaa < 1:1453050/98‑1 (MQ=255) ttttGTGATCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCa < 1:1112145/100‑1 (MQ=255) tttGTGATCTGCGTCATTATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCAt < 1:1138908/100‑1 (MQ=255) tttGTGATCTGCGTCATTATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCAt < 1:1137632/100‑1 (MQ=255) ttGTGATCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCAta < 1:187722/100‑2 (MQ=255) gtgATCTGCGTCAATATTCCCTCCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGTAGATAAAAATCATGAg < 2:455214/100‑1 (MQ=255) gATCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGtt > 2:1102017/1‑100 (MQ=255) gATCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGtt > 1:566660/1‑100 (MQ=255) gATCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGtt > 2:1395894/1‑100 (MQ=255) tCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑Ac < 1:853223/100‑1 (MQ=255) tGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGa > 2:547680/1‑100 (MQ=255) gCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGaa < 1:1118174/100‑1 (MQ=255) cGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGaaa > 2:1893266/1‑100 (MQ=255) cGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCAGGAGATGGGAGATAAAAATCATAAGTT‑ACGaaa > 1:1618686/1‑100 (MQ=255) tatTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCaaaa > 1:50769/1‑100 (MQ=255) tatTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCaaaa < 2:37443/100‑1 (MQ=255) atTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAAt > 2:12860/1‑100 (MQ=255) ttCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAAtt < 1:161808/100‑1 (MQ=255) ttCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAAtt > 1:1272431/1‑100 (MQ=255) ttCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCAT‑AGTTGACGAAATCAAAAt > 1:159087/1‑99 (MQ=255) cccTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATGAGTT‑ACGAAATCAAAATTTg > 1:1935901/1‑100 (MQ=255) cccTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTg > 1:928686/1‑100 (MQ=255) cTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATGAGTT‑ACGGAATCAAAATTTGCg > 1:1322688/1‑100 (MQ=255) cTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCg < 2:1887521/100‑1 (MQ=255) cTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCg < 2:1153686/100‑1 (MQ=255) cTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCg < 1:1102016/100‑1 (MQ=255) cTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCg > 1:1229707/1‑100 (MQ=255) ttCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGa < 1:1012669/100‑1 (MQ=255) ccGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACa < 2:1673920/100‑1 (MQ=255) gTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATc > 1:336652/1‑100 (MQ=255) tACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCt < 2:706360/100‑1 (MQ=255) cGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCa < 1:903109/100‑1 (MQ=255) cTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCaaa > 1:1147042/1‑100 (MQ=255) tACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGAAGGGAGATAAAAATCATAAGTT‑CCGAAATCAAAATTTGCGACATCATCAAAg > 1:873479/1‑99 (MQ=255) cccTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGgcg > 2:371599/1‑100 (MQ=255) cccTCCACCAATACGCGTGTTAACCTACCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGgcg > 2:1183355/1‑100 (MQ=255) ccTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGgcgc < 1:765580/100‑1 (MQ=255) ccTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGgcgc > 1:659909/1‑100 (MQ=255) ccTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGgcgc > 2:1142124/1‑100 (MQ=255) ccTCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGgcgc > 1:817284/1‑100 (MQ=255) tCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTg < 2:50769/100‑1 (MQ=255) tCCACCAATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTg > 2:1793078/1‑100 (MQ=255) ccaccaATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGc > 1:775817/1‑100 (MQ=255) ccaccaATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGc > 2:1273239/1‑100 (MQ=255) ccaATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATGAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGAt > 2:1934099/1‑100 (MQ=255) caATACGCGTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATg > 1:650028/1‑100 (MQ=255) cgcgTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATGAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAgg > 2:1837354/1‑100 (MQ=255) cgcgTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAg < 1:179626/99‑1 (MQ=255) cgcgTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAgg > 1:73731/1‑100 (MQ=255) cgTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGAc < 1:979119/100‑1 (MQ=255) cgTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGAc > 1:1149763/1‑100 (MQ=255) cgTGTTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGAc < 2:1641434/100‑1 (MQ=255) gtgtTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATGAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACa > 2:627628/1‑100 (MQ=255) gtgtTAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACa < 1:346862/100‑1 (MQ=255) tAACCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGAGATGGAAGGACAatat > 1:1901371/1‑100 (MQ=255) aaCCTCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAAtata > 1:529475/1‑100 (MQ=255) tCCCAATGGATTCTATGAGATGGGAGATAAAAATCATGAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAggg < 2:1748969/100‑1 (MQ=255) tCCCAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAggg < 1:1395886/100‑1 (MQ=255) cccAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATGTAAGGgc > 1:753623/1‑100 (MQ=255) ccAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGgcg > 1:1173339/1‑100 (MQ=255) ccAATGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGgcg > 2:1279320/1‑100 (MQ=255) cAATGGATTCTATGAGATGGGAGATAAAAATCATGAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGgcgc < 2:1238591/100‑1 (MQ=255) aaTGGATTCTATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCt < 2:1057826/100‑1 (MQ=255) aaTGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCt > 2:1610756/1‑100 (MQ=255) aaTGGATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCt > 2:659447/1‑100 (MQ=255) ggATTCCATGAGATGGGAGATAAAAATCATAAGTG‑ACGAAATCAAAATTTGCGCAAACCTCAAAGGCACTGCGATGGAAGGAGAATATAAGGgcgaaca > 1:1925103/1‑95 (MQ=255) gATTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAAc < 2:936532/100‑1 (MQ=255) aTTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACg < 2:1229711/100‑1 (MQ=255) aTTCCATGAGATGGGAGATAAAAATCATAAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACg > 1:410806/1‑100 (MQ=255) | CCCGGCCCCTCGCCGGGTTTTTTGTGATCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATGAGTT‑ACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACG > NC_000913/2564405‑2564596 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |