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 | 38.5% | 37.2 / 49.7 | 52 | intergenic (+711/‑6052) | recR/speA_2 | Recombination protein RecR/Arginine decarboxylase |
| * | USA300TCH1516_ALE | 111,516 | 0 | C | A | 34.1% | 44.6 / 32.1 | 44 | Q196K (CAA→AAA) | USA300HOU_RS00520 | putative lipoprotein |
| * | USA300TCH1516_ALE | 111,512 | 0 | A | G | 31.8% | 43.0 / 32.9 | 45 | 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 | = 800928 | 25 (0.820) | 4 (0.140) | 4/266 | 3.2 | 16.4% | intergenic (+62/‑289) | hisC_1/USA300HOU_RS03915 | Histidinol‑phosphate aminotransferase/Putative 5'(3')‑deoxyribonucleotidase |
| ? | USA300TCH1516_ALE | 801948 = | 17 (0.590) | intergenic (+189/+435) | USA300HOU_RS03915/USA300HOU_RS03920 | Putative 5'(3')‑deoxyribonucleotidase/Putative lipid kinase | |||||
| * | ? | USA300TCH1516_ALE | = 613929 | 21 (0.690) | 5 (0.180) | 3/262 | 3.6 | 18.3% | coding (2241/2844 nt) | sdrC | Serine‑aspartate repeat‑containing protein C |
| ? | USA300TCH1516_ALE | 614110 = | 25 (0.880) | coding (2422/2844 nt) | sdrC | Serine‑aspartate repeat‑containing protein C | |||||
| * | ? | CP000731 | = 4399 | 96 (1.010) | 8 (0.020) | 3/258 | 11.9 | 1.7% | intergenic (+364/‑101) | USA300HOU_pUSA300HOUMR0006/cadR | hypothetical protein/cadmium binding protein |
| ? | NC_012417 | = 1963 | 816 (1.000) | intergenic (+196/+130) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | CP000731 | = 2352 | 91 (0.960) | 8 (0.020) | 3/258 | 11.9 | 1.7% | intergenic (+132/+36) | USA300HOU_pUSA300HOUMR0003/USA300HOU_pUSA300HOUMR0004 | hypothetical protein/hypothetical protein |
| ? | NC_012417 | = 1963 | 816 (1.000) | intergenic (+196/+130) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | CP000731 | = 4419 | 88 (0.930) | 7 (0.020) | 3/264 | 12.1 | 1.5% | intergenic (+384/‑81) | USA300HOU_pUSA300HOUMR0006/cadR | hypothetical protein/cadmium binding protein |
| ? | NC_012417 | = 1946 | 847 (1.010) | intergenic (+179/+147) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | CP000731 | = 2372 | 94 (0.990) | 7 (0.020) | 3/264 | 12.1 | 1.5% | intergenic (+152/+16) | USA300HOU_pUSA300HOUMR0003/USA300HOU_pUSA300HOUMR0004 | hypothetical protein/hypothetical protein |
| ? | NC_012417 | = 1946 | 847 (1.010) | intergenic (+179/+147) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_012417 | = 1057 | 819 (0.920) | 4 (0.010) | 3/236 | 56.7 | 0.59% | coding (138/192 nt) | USA300HOU_RS15665 | hypothetical protein |
| ? | NC_012417 | = 1103 | 658 (0.880) | coding (92/192 nt) | USA300HOU_RS15665 | hypothetical protein | |||||
| * | ? | NC_012417 | = 1974 | 918 (1.030) | 8 (0.010) | 3/258 | 59.3 | 0.95% | intergenic (+207/+119) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein |
| ? | NC_012417 | = 2041 | 815 (1.000) | intergenic (+274/+52) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_012417 | = 1954 | 877 (0.990) | 7 (0.010) | 3/264 | 60.0 | 0.84% | intergenic (+187/+139) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein |
| ? | NC_012417 | = 2064 | 826 (0.990) | intergenic (+297/+29) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||