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 | 60.6% | 95.8 / 150.9 | 137 | intergenic (+711/‑6052) | recR/speA_2 | Recombination protein RecR/Arginine decarboxylase |
| * | USA300TCH1516_ALE | 111,512 | 0 | A | G | 33.9% | 80.8 / 51.1 | 67 | S194S (TCA→TCG) | USA300HOU_RS00520 | putative lipoprotein |
| * | USA300TCH1516_ALE | 111,516 | 0 | C | A | 32.8% | 79.5 / 45.7 | 62 | 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 | 52495 = | 40 (0.690) | 91 (1.570) +T |
5/292 | 5.3 | 62.5% | intergenic (+105/‑568) | USA300HOU_RS00215/USA300HOU_RS00220 | hypothetical protein/hypothetical protein |
| ? | USA300TCH1516_ALE | = 52988 | 70 (1.200) | intergenic (+598/‑75) | USA300HOU_RS00215/USA300HOU_RS00220 | hypothetical protein/hypothetical protein | |||||
| * | ? | USA300TCH1516_ALE | 68659 = | 61 (1.050) | 3 (0.060) | 3/258 | 5.8 | 5.3% | coding (775/852 nt) | USA300TCH1516_00061 | hypothetical protein |
| ? | USA300TCH1516_ALE | = 68655 | 53 (1.040) | coding (771/852 nt) | USA300TCH1516_00061 | hypothetical protein | |||||
| * | ? | CP000731 | = 4329 | 524 (1.340) | 6 (0.010) | 5/280 | 34.2 | 0.60% | intergenic (+294/‑171) | USA300HOU_pUSA300HOUMR0006/cadR | hypothetical protein/cadmium binding protein |
| ? | NC_012417 | = 2027 | 1484 (1.100) | intergenic (+260/+66) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | CP000731 | 1596 = | 366 (0.940) | 6 (0.020) | 4/270 | 34.6 | 1.7% | intergenic (+381/‑475) | repA/USA300HOU_pUSA300HOUMR0003 | replication protein A/hypothetical protein |
| ? | CP000731 | 1624 = | 366 (1.020) | intergenic (+409/‑447) | repA/USA300HOU_pUSA300HOUMR0003 | replication protein A/hypothetical protein | |||||
| * | ? | CP000731 | = 4329 | 524 (1.340) | 5 (0.010) | 4/280 | 35.3 | 1.0% | intergenic (+294/‑171) | USA300HOU_pUSA300HOUMR0006/cadR | hypothetical protein/cadmium binding protein |
| ? | CP000731 | = 4374 | 478 (1.290) | intergenic (+339/‑126) | USA300HOU_pUSA300HOUMR0006/cadR | hypothetical protein/cadmium binding protein | |||||
| * | ? | CP000731 | = 2334 | 480 (1.230) | 5 (0.010) | 3/280 | 36.4 | 1.0% | intergenic (+114/+54) | USA300HOU_pUSA300HOUMR0003/USA300HOU_pUSA300HOUMR0004 | hypothetical protein/hypothetical protein |
| ? | CP000731 | = 4322 | 505 (1.360) | intergenic (+287/‑178) | USA300HOU_pUSA300HOUMR0006/cadR | hypothetical protein/cadmium binding protein | |||||
| * | ? | CP000731 | 4334 = | 516 (1.320) | 4 (0.000) | 3/282 | 36.5 | 0.40% | intergenic (+299/‑166) | USA300HOU_pUSA300HOUMR0006/cadR | hypothetical protein/cadmium binding protein |
| ? | NC_012417 | 2027 = | 1485 (1.100) | intergenic (+260/+66) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | CP000731 | 2287 = | 432 (1.110) | 4 (0.000) | 3/282 | 36.5 | 0.42% | intergenic (+67/+101) | USA300HOU_pUSA300HOUMR0003/USA300HOU_pUSA300HOUMR0004 | hypothetical protein/hypothetical protein |
| ? | NC_012417 | 2027 = | 1485 (1.100) | intergenic (+260/+66) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_012417 | 1987 = | 1644 (1.160) | 4 (0.000) | 3/282 | 76.5 | 0.26% | intergenic (+220/+106) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein |
| ? | NC_012417 | 2027 = | 1485 (1.100) | intergenic (+260/+66) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||