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 | 111,516 | 0 | C | A | 51.3% | 15.9 / 68.8 | 39 | Q196K (CAA→AAA) | USA300HOU_RS00520 | putative lipoprotein |
| * | USA300TCH1516_ALE | 111,512 | 0 | A | G | 47.6% | 11.2 / 55.4 | 42 | S194S (TCA→TCG) | USA300HOU_RS00520 | putative lipoprotein |
| * | USA300TCH1516_ALE | 512,643 | 0 | A | G | 45.7% | 13.7 / 91.6 | 70 | intergenic (+711/‑6052) | recR/speA_2 | Recombination protein RecR/Arginine decarboxylase |
| * | USA300TCH1516_ALE | 111,560 | 0 | T | C | 24.0% | 48.1 / 12.1 | 25 | R210R (CGT→CGC) | USA300HOU_RS00520 | putative lipoprotein |
| * | USA300TCH1516_ALE | 941,744 | 0 | C | T | 21.7% | 97.8 / 19.4 | 46 | D96N (GAT→AAT) | ptlE | Neopentalenolactone D synthase |
| * | USA300TCH1516_ALE | 2,565,423 | 0 | A | G | 21.1% | 72.8 / 18.5 | 38 | T517T (ACA→ACG) | nhaK_2 | Sodium, potassium, lithium and rubidium/H(+) antiporter |
| * | USA300TCH1516_ALE | 252,141 | 0 | T | G | 20.0% | 41.1 / 12.0 | 25 | S140A (TCA→GCA) | gfo_2 | Glucose‑‑fructose oxidoreductase |
| 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 | 2085296 = | 29 (0.830) | 4 (0.130) | 4/252 | 3.2 | 14.8% | coding (173/201 nt) | hlb_1 | Phospholipase C |
| ? | USA300TCH1516_ALE | = 2128343 | 20 (0.640) | coding (1/825 nt) | hlb_2 | Phospholipase C | |||||
| * | ? | USA300TCH1516_ALE | = 800928 | 28 (0.800) | 4 (0.120) | 4/266 | 3.4 | 14.9% | intergenic (+62/‑289) | hisC_1/USA300HOU_RS03915 | Histidinol‑phosphate aminotransferase/Putative 5'(3')‑deoxyribonucleotidase |
| ? | USA300TCH1516_ALE | 801948 = | 19 (0.570) | intergenic (+189/+435) | USA300HOU_RS03915/USA300HOU_RS03920 | Putative 5'(3')‑deoxyribonucleotidase/Putative lipid kinase | |||||
| * | ? | CP000731 | 4323 = | 96 (0.950) | 9 (0.020) | 5/266 | 9.9 | 1.7% | intergenic (+288/‑177) | USA300HOU_pUSA300HOUMR0006/cadR | hypothetical protein/cadmium binding protein |
| ? | NC_012417 | 2035 = | 937 (1.060) | intergenic (+268/+58) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | CP000731 | 2276 = | 110 (1.090) | 9 (0.020) | 5/266 | 9.9 | 1.7% | intergenic (+56/+112) | USA300HOU_pUSA300HOUMR0003/USA300HOU_pUSA300HOUMR0004 | hypothetical protein/hypothetical protein |
| ? | NC_012417 | 2035 = | 937 (1.060) | intergenic (+268/+58) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | CP000731 | 4294 = | 95 (0.940) | 10 (0.020) | 4/264 | 10.5 | 2.1% | intergenic (+259/‑206) | USA300HOU_pUSA300HOUMR0006/cadR | hypothetical protein/cadmium binding protein |
| ? | NC_012417 | 2073 = | 848 (0.970) | intergenic (+306/+20) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | CP000731 | 2247 = | 117 (1.160) | 10 (0.020) | 3/264 | 11.2 | 2.0% | intergenic (+27/+141) | USA300HOU_pUSA300HOUMR0003/USA300HOU_pUSA300HOUMR0004 | hypothetical protein/hypothetical protein |
| ? | NC_012417 | 2073 = | 848 (0.970) | intergenic (+306/+20) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_012417 | 1976 = | 968 (1.040) | 10 (0.010) | 6/266 | 60.0 | 1.1% | intergenic (+209/+117) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein |
| ? | NC_012417 | 2035 = | 936 (1.060) | intergenic (+268/+58) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_012417 | 1947 = | 978 (1.050) | 10 (0.010) | 4/264 | 62.2 | 1.1% | intergenic (+180/+146) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein |
| ? | NC_012417 | 2073 = | 848 (0.970) | intergenic (+306/+20) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||