mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | USA300TCH1516_ALE | 512,643 | 0 | A | G | 43.1% | 28.1 / 88.8 | 72 | intergenic (+711/‑6052) | recR/speA_2 | Recombination protein RecR/Arginine decarboxylase |
| * | USA300TCH1516_ALE | 111,516 | 0 | C | A | 34.6% | 78.0 / 49.7 | 52 | Q196K (CAA→AAA) | USA300HOU_RS00520 | putative lipoprotein |
| * | USA300TCH1516_ALE | 111,512 | 0 | A | G | 34.0% | 59.9 / 44.1 | 53 | S194S (TCA→TCG) | USA300HOU_RS00520 | putative lipoprotein |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | USA300TCH1516_ALE | 1426517 = | 43 (0.980) | 3 (0.080) | 3/262 | 4.4 | 9.4% | intergenic (‑248/+724) | pstS/cvfB | Phosphate‑binding protein PstS/Conserved virulence factor B |
| ? | USA300TCH1516_ALE | 2317537 = | 19 (0.480) | intergenic (+190/‑266) | iucC_3/USA300TCH1516_02193 | Aerobactin synthase/hypothetical protein | |||||
| * | ? | USA300TCH1516_ALE | 1426517 = | 43 (0.980) | 3 (0.080) | 3/262 | 4.4 | 8.3% | intergenic (‑248/+724) | pstS/cvfB | Phosphate‑binding protein PstS/Conserved virulence factor B |
| ? | USA300TCH1516_ALE | = 1893405 | 28 (0.710) | intergenic (‑266/+81) | USA300TCH1516_01750/ytpA | hypothetical protein/Phospholipase YtpA | |||||
| * | ? | USA300TCH1516_ALE | 1426517 = | 43 (0.980) | 3 (0.080) | 3/262 | 4.4 | 7.2% | intergenic (‑248/+724) | pstS/cvfB | Phosphate‑binding protein PstS/Conserved virulence factor B |
| ? | USA300TCH1516_ALE | = 1804978 | NA (NA) | intergenic (‑266/+375) | USA300TCH1516_01684/pyk | hypothetical protein/Pyruvate kinase | |||||
| * | ? | USA300TCH1516_ALE | 1426517 = | 43 (0.980) | 3 (0.080) | 3/262 | 4.4 | 10.1% | intergenic (‑248/+724) | pstS/cvfB | Phosphate‑binding protein PstS/Conserved virulence factor B |
| ? | USA300TCH1516_ALE | = 1443693 | 15 (0.380) | intergenic (‑266/+87) | USA300TCH1516_01342/brnQ_3 | hypothetical protein/Branched‑chain amino acid transport system 2 carrier protein | |||||
| * | ? | USA300TCH1516_ALE | 318719 = | 20 (0.450) | 3 (0.080) | 3/262 | 4.4 | 9.7% | intergenic (+82/‑146) | USA300HOU_RS01425/USA300TCH1516_00272 | hypothetical protein/hypothetical protein |
| ? | USA300TCH1516_ALE | 1426532 = | 38 (0.960) | intergenic (‑263/+709) | pstS/cvfB | Phosphate‑binding protein PstS/Conserved virulence factor B | |||||
| * | ? | USA300TCH1516_ALE | = 245997 | 39 (0.890) | 3 (0.070) | 3/276 | 4.6 | 7.5% | intergenic (+324/‑59) | lytM_1/ugpC | Glycyl‑glycine endopeptidase LytM/sn‑glycerol‑3‑phosphate import ATP‑binding protein UgpC |
| ? | USA300TCH1516_ALE | = 246015 | 37 (0.890) | intergenic (+342/‑41) | lytM_1/ugpC | Glycyl‑glycine endopeptidase LytM/sn‑glycerol‑3‑phosphate import ATP‑binding protein UgpC | |||||
| * | ? | NC_012417 | = 2937 | 1919 (1.200) | 7 (0.000) | 6/282 | 71.5 | 0.38% | intergenic (‑263/–) | USA300HOU_RS14900/– | hypothetical protein/– |
| ? | NC_012417 | = 2949 | 1778 (1.150) | intergenic (‑275/–) | USA300HOU_RS14900/– | hypothetical protein/– | |||||
| * | ? | NC_012417 | = 3069 | 576 (0.360) | 5 (0.000) | 4/278 | 73.5 | 1.8% | intergenic (‑395/–) | USA300HOU_RS14900/– | hypothetical protein/– |
| ? | NC_012417 | = 3118 | 0 (0.000) | intergenic (‑444/–) | USA300HOU_RS14900/– | hypothetical protein/– | |||||