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 | 48.6% | ‑5.3 / 44.0 | 35 | intergenic (+711/‑6052) | recR/speA_2 | Recombination protein RecR/Arginine decarboxylase |
| * | USA300TCH1516_ALE | 111,512 | 0 | A | G | 33.3% | 36.3 / 28.2 | 39 | S194S (TCA→TCG) | USA300HOU_RS00520 | putative lipoprotein |
| * | USA300TCH1516_ALE | 111,516 | 0 | C | A | 28.9% | 42.8 / 20.7 | 38 | Q196K (CAA→AAA) | USA300HOU_RS00520 | putative lipoprotein |
| * | USA300TCH1516_ALE | 110,660 | 0 | T | A | 24.0% | 42.9 / 11.0 | 25 | I173I (ATT→ATA) | USA300HOU_RS00515 | 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 | 895785 = | 26 (1.150) | 5 (0.250) | 5/244 | 1.9 | 18.2% | coding (806/822 nt) | metQ_2 | Methionine‑binding lipoprotein MetQ |
| ? | USA300TCH1516_ALE | = 909740 | 22 (1.110) | intergenic (‑663/‑371) | USA300HOU_RS04500/csbD_1 | hypothetical protein/Stress response protein CsbD | |||||
| * | ? | CP000731 | = 4419 | 54 (0.790) | 5 (0.010) | 4/262 | 9.5 | 1.5% | intergenic (+384/‑81) | USA300HOU_pUSA300HOUMR0006/cadR | hypothetical protein/cadmium binding protein |
| ? | NC_012417 | = 1946 | 614 (1.020) | intergenic (+179/+147) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | CP000731 | = 2372 | 65 (0.950) | 5 (0.010) | 4/262 | 9.5 | 1.5% | intergenic (+152/+16) | USA300HOU_pUSA300HOUMR0003/USA300HOU_pUSA300HOUMR0004 | hypothetical protein/hypothetical protein |
| ? | NC_012417 | = 1946 | 614 (1.020) | intergenic (+179/+147) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_012417 | = 1954 | 633 (0.990) | 6 (0.010) | 5/262 | 46.4 | 1.1% | intergenic (+187/+139) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein |
| ? | NC_012417 | = 2064 | 518 (0.860) | intergenic (+297/+29) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_012417 | = 2937 | 673 (1.050) | 8 (0.010) | 5/268 | 46.9 | 1.3% | intergenic (‑263/–) | USA300HOU_RS14900/– | hypothetical protein/– |
| ? | NC_012417 | = 2949 | 593 (0.960) | intergenic (‑275/–) | USA300HOU_RS14900/– | hypothetical protein/– | |||||