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 | 46.4% | 27.3 / 163.2 | 112 | intergenic (+711/‑6052) | recR/speA_2 | Recombination protein RecR/Arginine decarboxylase |
| * | USA300TCH1516_ALE | 111,512 | 0 | A | G | 37.5% | 53.7 / 72.1 | 64 | S194S (TCA→TCG) | USA300HOU_RS00520 | putative lipoprotein |
| * | USA300TCH1516_ALE | 111,516 | 0 | C | A | 37.5% | 81.2 / 73.5 | 64 | Q196K (CAA→AAA) | 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 | 2085296 = | 65 (1.280) | 8 (0.180) | 7/252 | 3.2 | 15.5% | coding (173/201 nt) | hlb_1 | Phospholipase C |
| ? | USA300TCH1516_ALE | = 2128343 | 29 (0.630) | coding (1/825 nt) | hlb_2 | Phospholipase C | |||||
| * | ? | USA300TCH1516_ALE | 2457361 = | 64 (1.260) | 4 (0.090) | 3/254 | 4.9 | 7.8% | intergenic (+40/+196) | USA300HOU_RS12645/mro | hypothetical protein/Aldose 1‑epimerase |
| ? | USA300TCH1516_ALE | 2457434 = | 37 (0.800) | intergenic (+113/+123) | USA300HOU_RS12645/mro | hypothetical protein/Aldose 1‑epimerase | |||||
| * | ? | USA300TCH1516_ALE | 1502317 = | 57 (1.120) | 3 (0.060) | 3/270 | 5.1 | 5.3% | intergenic (‑294/+104) | ebh_1/norB_4 | Extracellular matrix‑binding protein ebh/Quinolone resistance protein NorB |
| ? | USA300TCH1516_ALE | 1502366 = | 52 (1.060) | intergenic (‑343/+55) | ebh_1/norB_4 | Extracellular matrix‑binding protein ebh/Quinolone resistance protein NorB | |||||
| * | ? | USA300TCH1516_ALE | = 800928 | 52 (1.020) | 3 (0.060) | 3/266 | 5.1 | 6.2% | intergenic (+62/‑289) | hisC_1/USA300HOU_RS03915 | Histidinol‑phosphate aminotransferase/Putative 5'(3')‑deoxyribonucleotidase |
| ? | USA300TCH1516_ALE | 801948 = | 42 (0.870) | intergenic (+189/+435) | USA300HOU_RS03915/USA300HOU_RS03920 | Putative 5'(3')‑deoxyribonucleotidase/Putative lipid kinase | |||||
| * | ? | CP000731 | = 4399 | 155 (0.980) | 8 (0.010) | 4/258 | 13.4 | 1.0% | intergenic (+364/‑101) | USA300HOU_pUSA300HOUMR0006/cadR | hypothetical protein/cadmium binding protein |
| ? | NC_012417 | = 1963 | 1436 (1.030) | intergenic (+196/+130) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | CP000731 | = 2352 | 168 (1.070) | 8 (0.010) | 4/258 | 13.4 | 1.00% | intergenic (+132/+36) | USA300HOU_pUSA300HOUMR0003/USA300HOU_pUSA300HOUMR0004 | hypothetical protein/hypothetical protein |
| ? | NC_012417 | = 1963 | 1436 (1.030) | intergenic (+196/+130) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | CP000731 | = 4419 | 161 (1.020) | 7 (0.010) | 3/264 | 14.4 | 0.86% | intergenic (+384/‑81) | USA300HOU_pUSA300HOUMR0006/cadR | hypothetical protein/cadmium binding protein |
| ? | NC_012417 | = 1946 | 1468 (1.030) | intergenic (+179/+147) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | CP000731 | = 2372 | 159 (1.010) | 7 (0.010) | 3/264 | 14.4 | 0.86% | intergenic (+152/+16) | USA300HOU_pUSA300HOUMR0003/USA300HOU_pUSA300HOUMR0004 | hypothetical protein/hypothetical protein |
| ? | NC_012417 | = 1946 | 1468 (1.030) | intergenic (+179/+147) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_012417 | = 1974 | 1590 (1.050) | 8 (0.010) | 5/258 | 55.7 | 0.55% | intergenic (+207/+119) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein |
| ? | NC_012417 | = 2041 | 1448 (1.040) | intergenic (+274/+52) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_012417 | = 1954 | 1520 (1.000) | 6 (0.000) | 3/264 | 58.5 | 0.42% | intergenic (+187/+139) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein |
| ? | NC_012417 | = 2064 | 1391 (0.970) | intergenic (+297/+29) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||