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 (highest frequency 20 of 57 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP000730 | 76,180 | 0 | C | T | 71.3% | ‑1.0 / 61.4 | 87 | intergenic (+238/‑896) | USA300HOU_0072/USA300HOU_0075 | universal stress protein/lysophospholipase |
| * | CP000730 | 35,970 | 0 | T | C | 65.6% | 420.3 / inf | 352 | E194E (GAA→GAG) | tpn | IS431mec transposase |
| * | CP000730 | 1,929,872 | 0 | G | A | 63.6% | 73.4 / 86.2 | 88 | intergenic (‑955/‑213) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,848 | 0 | C | A | 63.2% | 50.9 / 116.0 | 87 | intergenic (‑931/‑237) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,861 | 0 | T | C | 63.2% | 91.4 / 84.2 | 87 | intergenic (‑944/‑224) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,875 | 0 | T | C | 63.2% | 99.6 / 78.4 | 87 | intergenic (‑958/‑210) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,917 | 0 | C | T | 63.2% | 65.2 / 95.7 | 88 | intergenic (‑1000/‑168) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 35,858 | 0 | T | A | 63.2% | 18.1 / 67.9 | 57 | intergenic (+89/+19) | rlmH/tpn | hypothetical protein/IS431mec transposase |
| * | CP000730 | 35,850 | 0 | C | T | 62.5% | 13.3 / 61.2 | 56 | intergenic (+81/+27) | rlmH/tpn | hypothetical protein/IS431mec transposase |
| * | CP000730 | 1,929,870 | 0 | A | C | 62.2% | 114.9 / 96.2 | 90 | intergenic (‑953/‑215) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,918 | 0 | A | G | 61.8% | 94.7 / 84.7 | 89 | intergenic (‑1001/‑167) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 36,269 | 0 | C | T | 61.4% | 236.4 / inf | 495 | A95T (GCA→ACA) | tpn | IS431mec transposase |
| * | CP000730 | 35,834 | 0 | A | . | 61.4% | 70.5 / 110.0 | 57 | intergenic (+65/+43) | rlmH/tpn | hypothetical protein/IS431mec transposase |
| * | CP000730 | 1,929,867 | 0 | G | T | 61.1% | 39.0 / 125.6 | 90 | intergenic (‑950/‑218) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 36,315 | 0 | G | A | 61.0% | 311.0 / inf | 525 | Y79Y (TAC→TAT) | tpn | IS431mec transposase |
| * | CP000730 | 1,929,842 | 0 | T | . | 60.4% | 58.4 / 180.0 | 91 | intergenic (‑925/‑243) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,843 | 0 | A | . | 60.4% | 60.1 / 177.7 | 91 | intergenic (‑926/‑242) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,866 | 0 | G | T | 60.2% | 33.2 / 128.8 | 90 | intergenic (‑949/‑219) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,873 | 0 | C | A | 60.2% | 47.0 / 116.6 | 88 | intergenic (‑956/‑212) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,928 | 0 | T | A | 59.7% | 53.6 / 115.7 | 77 | intergenic (‑1011/‑157) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP000730 | = 2850830 | 25 (0.860) | 3 (0.110) | 3/268 | 3.4 | 11.2% | intergenic (+29/+90) | pcp/USA300HOU_2693 | C15 family pyroglutamyl‑peptidase I/hypothetical protein |
| ? | CP000730 | = 2850851 | 25 (0.950) | intergenic (+50/+69) | pcp/USA300HOU_2693 | C15 family pyroglutamyl‑peptidase I/hypothetical protein | |||||