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 | 45.4% | 62.8 / 295.3 | 218 | intergenic (+711/‑6052) | recR/speA_2 | Recombination protein RecR/Arginine decarboxylase |
| * | USA300TCH1516_ALE | 111,516 | 0 | C | A | 35.9% | 254.5 / 165.4 | 170 | Q196K (CAA→AAA) | USA300HOU_RS00520 | putative lipoprotein |
| * | USA300TCH1516_ALE | 111,512 | 0 | A | G | 35.6% | 195.0 / 179.0 | 175 | S194S (TCA→TCG) | USA300HOU_RS00520 | putative lipoprotein |
| Marginal new junction evidence (lowest skew 10 of 123 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | USA300TCH1516_ALE | = 1205323 | 93 (0.820) | 44 (0.530) +38 bp |
10/200 | 11.3 | 38.6% | intergenic (‑204/‑365) | USA300HOU_RS15290/lspA | hypothetical protein/Lipoprotein signal peptidase |
| ? | USA300TCH1516_ALE | 2478252 = | 100 (0.880) | intergenic (+139/‑436) | USA300HOU_RS12760/USA300HOU_RS12765 | hypothetical protein/hypothetical protein | |||||
| * | ? | USA300TCH1516_ALE | = 1205323 | 93 (0.820) | 44 (0.530) +38 bp |
10/200 | 11.3 | 38.5% | intergenic (‑204/‑365) | USA300HOU_RS15290/lspA | hypothetical protein/Lipoprotein signal peptidase |
| ? | USA300TCH1516_ALE | = 2072043 | 101 (0.890) | intergenic (+538/+35) | USA300HOU_RS10445/USA300HOU_RS10450 | hypothetical protein/hypothetical protein | |||||
| * | ? | USA300TCH1516_ALE | = 1205323 | 93 (0.820) | 44 (0.530) +38 bp |
10/200 | 11.3 | 39.5% | intergenic (‑204/‑365) | USA300HOU_RS15290/lspA | hypothetical protein/Lipoprotein signal peptidase |
| ? | USA300TCH1516_ALE | = 1443739 | NA (NA) | intergenic (‑312/+41) | USA300TCH1516_01342/brnQ_3 | hypothetical protein/Branched‑chain amino acid transport system 2 carrier protein | |||||
| * | ? | USA300TCH1516_ALE | = 1205323 | 93 (0.820) | 44 (0.530) +38 bp |
10/200 | 11.3 | 39.5% | intergenic (‑204/‑365) | USA300HOU_RS15290/lspA | hypothetical protein/Lipoprotein signal peptidase |
| ? | USA300TCH1516_ALE | 1426517 = | 93 (0.820) | intergenic (‑248/+724) | pstS/cvfB | Phosphate‑binding protein PstS/Conserved virulence factor B | |||||
| * | ? | USA300TCH1516_ALE | = 2609406 | 107 (0.940) | 9 (0.090) | 8/252 | 15.6 | 8.7% | intergenic (‑236/+325) | USA300HOU_RS13450/USA300HOU_RS13455 | hypothetical protein/putative lipoprotein |
| ? | USA300TCH1516_ALE | = 2609438 | 92 (0.880) | intergenic (‑268/+293) | USA300HOU_RS13450/USA300HOU_RS13455 | hypothetical protein/putative lipoprotein | |||||
| * | ? | USA300TCH1516_ALE | 1205383 = | 105 (0.920) | 27 (0.290) +25 bp |
6/226 | 15.6 | 30.1% | intergenic (‑264/‑305) | USA300HOU_RS15290/lspA | hypothetical protein/Lipoprotein signal peptidase |
| ? | USA300TCH1516_ALE | 2478476 = | 48 (0.420) | intergenic (+363/‑212) | USA300HOU_RS12760/USA300HOU_RS12765 | hypothetical protein/hypothetical protein | |||||
| * | ? | USA300TCH1516_ALE | 1205383 = | 105 (0.920) | 32 (0.340) +25 bp |
6/226 | 15.6 | 34.9% | intergenic (‑264/‑305) | USA300HOU_RS15290/lspA | hypothetical protein/Lipoprotein signal peptidase |
| ? | USA300TCH1516_ALE | 1426741 = | 41 (0.360) | intergenic (‑472/+500) | pstS/cvfB | Phosphate‑binding protein PstS/Conserved virulence factor B | |||||
| * | ? | USA300TCH1516_ALE | 329202 = | 135 (1.180) | 8 (0.080) | 8/256 | 15.8 | 6.2% | intergenic (+70/+73) | USA300HOU_RS01475/ssaA2_1 | hypothetical protein/Staphylococcal secretory antigen ssaA2 |
| ? | USA300TCH1516_ALE | 329255 = | 117 (1.110) | intergenic (+123/+20) | USA300HOU_RS01475/ssaA2_1 | hypothetical protein/Staphylococcal secretory antigen ssaA2 | |||||
| * | ? | USA300TCH1516_ALE | = 234750 | 124 (1.090) | 9 (0.090) | 8/256 | 15.8 | 7.0% | intergenic (+48/+217) | USA300HOU_RS01045/gsiA | hypothetical protein/Glutathione import ATP‑binding protein GsiA |
| ? | USA300TCH1516_ALE | = 234763 | 123 (1.160) | intergenic (+61/+204) | USA300HOU_RS01045/gsiA | hypothetical protein/Glutathione import ATP‑binding protein GsiA | |||||
| * | ? | USA300TCH1516_ALE | = 1954777 | 95 (0.830) | 8 (0.080) | 7/254 | 16.4 | 8.4% | intergenic (‑39/+26) | nisB/gdmA | Nisin biosynthesis protein NisB/Lantibiotic gallidermin |
| ? | USA300TCH1516_ALE | = 1954783 | 87 (0.830) | intergenic (‑45/+20) | nisB/gdmA | Nisin biosynthesis protein NisB/Lantibiotic gallidermin | |||||