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 | 59.6% | 56.7 / 138.9 | 109 | intergenic (+711/‑6052) | recR/speA_2 | Recombination protein RecR/Arginine decarboxylase |
| * | USA300TCH1516_ALE | 111,516 | 0 | C | A | 30.6% | 58.7 / 28.9 | 36 | Q196K (CAA→AAA) | USA300HOU_RS00520 | putative lipoprotein |
| * | USA300TCH1516_ALE | 111,512 | 0 | A | G | 28.9% | 45.9 / 26.8 | 38 | S194S (TCA→TCG) | USA300HOU_RS00520 | putative lipoprotein |
| * | USA300TCH1516_ALE | 2,089,541 | 0 | C | . | 23.5% | 43.4 / 10.7 | 17 | coding (14/492 nt) | sak | Staphylokinase |
| Marginal new junction evidence (lowest skew 10 of 50 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP000731 | 1569 = | 192 (0.920) | 14 (0.020) | 9/232 | 3.1 | 2.8% | intergenic (+354/‑502) | repA/USA300HOU_pUSA300HOUMR0003 | replication protein A/hypothetical protein |
| ? | NC_012417 | 1090 = | 811 (0.850) | coding (105/192 nt) | USA300HOU_RS15665 | hypothetical protein | |||||
| * | ? | CP000731 | = 4419 | 83 (0.400) | 14 (0.020) | 9/252 | 3.2 | 2.1% | intergenic (+384/‑81) | USA300HOU_pUSA300HOUMR0006/cadR | hypothetical protein/cadmium binding protein |
| ? | NC_012417 | = 1946 | 1227 (1.180) | intergenic (+179/+147) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | CP000731 | 4323 = | 166 (0.790) | 26 (0.040) | 9/254 | 3.2 | 3.1% | intergenic (+288/‑177) | USA300HOU_pUSA300HOUMR0006/cadR | hypothetical protein/cadmium binding protein |
| ? | NC_012417 | 2035 = | 1482 (1.420) | intergenic (+268/+58) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | CP000731 | 4294 = | 205 (0.980) | 23 (0.040) | 9/252 | 3.2 | 2.5% | intergenic (+259/‑206) | USA300HOU_pUSA300HOUMR0006/cadR | hypothetical protein/cadmium binding protein |
| ? | NC_012417 | 2073 = | 1625 (1.570) | intergenic (+306/+20) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | CP000731 | = 2372 | 368 (1.760) | 14 (0.020) | 9/252 | 3.2 | 1.7% | intergenic (+152/+16) | USA300HOU_pUSA300HOUMR0003/USA300HOU_pUSA300HOUMR0004 | hypothetical protein/hypothetical protein |
| ? | NC_012417 | = 1946 | 1227 (1.180) | intergenic (+179/+147) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | CP000731 | 2276 = | 321 (1.540) | 26 (0.040) | 9/254 | 3.2 | 2.8% | intergenic (+56/+112) | USA300HOU_pUSA300HOUMR0003/USA300HOU_pUSA300HOUMR0004 | hypothetical protein/hypothetical protein |
| ? | NC_012417 | 2035 = | 1482 (1.420) | intergenic (+268/+58) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | CP000731 | 2247 = | 321 (1.540) | 23 (0.040) | 9/252 | 3.2 | 2.3% | intergenic (+27/+141) | USA300HOU_pUSA300HOUMR0003/USA300HOU_pUSA300HOUMR0004 | hypothetical protein/hypothetical protein |
| ? | NC_012417 | 2073 = | 1625 (1.570) | intergenic (+306/+20) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | USA300TCH1516_ALE | = 329211 | 63 (0.810) | 6 (0.080) | 6/248 | 3.4 | 10.1% | intergenic (+79/+64) | USA300HOU_RS01475/ssaA2_1 | hypothetical protein/Staphylococcal secretory antigen ssaA2 |
| ? | USA300TCH1516_ALE | = 329244 | 49 (0.680) | intergenic (+112/+31) | USA300HOU_RS01475/ssaA2_1 | hypothetical protein/Staphylococcal secretory antigen ssaA2 | |||||
| * | ? | CP000731 | = 4381 | 123 (0.590) | 12 (0.020) | 7/254 | 3.5 | 1.7% | intergenic (+346/‑119) | USA300HOU_pUSA300HOUMR0006/cadR | hypothetical protein/cadmium binding protein |
| ? | NC_012417 | = 1975 | 1295 (1.240) | intergenic (+208/+118) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | CP000731 | 4311 = | 178 (0.850) | 15 (0.020) | 7/246 | 3.5 | 1.8% | intergenic (+276/‑189) | USA300HOU_pUSA300HOUMR0006/cadR | hypothetical protein/cadmium binding protein |
| ? | NC_012417 | 2053 = | 1504 (1.490) | intergenic (+286/+40) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||