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 | 49.5% | ‑4.0 / 129.2 | 99 | intergenic (+711/‑6052) | recR/speA_2 | Recombination protein RecR/Arginine decarboxylase |
| * | USA300TCH1516_ALE | 111,512 | 0 | A | G | 26.4% | 120.9 / 37.0 | 73 | S194S (TCA→TCG) | USA300HOU_RS00520 | putative lipoprotein |
| * | USA300TCH1516_ALE | 111,516 | 0 | C | A | 25.0% | 119.4 / 34.3 | 69 | Q196K (CAA→AAA) | USA300HOU_RS00520 | putative lipoprotein |
| Marginal new junction evidence (lowest skew 10 of 19 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | USA300TCH1516_ALE | 52495 = | 72 (1.260) | 161 (2.840) +T |
9/266 | 3.6 | 67.8% | intergenic (+105/‑568) | USA300HOU_RS00215/USA300HOU_RS00220 | hypothetical protein/hypothetical protein |
| ? | USA300TCH1516_ALE | = 52988 | 82 (1.430) | intergenic (+598/‑75) | USA300HOU_RS00215/USA300HOU_RS00220 | hypothetical protein/hypothetical protein | |||||
| * | ? | USA300TCH1516_ALE | 52489 = | 74 (1.290) | 33 (0.650) | 5/238 | 4.6 | 31.5% | intergenic (+99/‑574) | USA300HOU_RS00215/USA300HOU_RS00220 | hypothetical protein/hypothetical protein |
| ? | USA300TCH1516_ALE | = 52983 | 78 (1.540) | intergenic (+593/‑80) | USA300HOU_RS00215/USA300HOU_RS00220 | hypothetical protein/hypothetical protein | |||||
| * | ? | USA300TCH1516_ALE | 37094 = | 77 (1.350) | 4 (0.080) | 4/248 | 5.2 | 5.3% | intergenic (+118/‑719) | USA300HOU_RS14915/ugpQ_1 | hypothetical protein/Glycerophosphodiester phosphodiesterase, cytoplasmic |
| ? | USA300TCH1516_ALE | 37188 = | 72 (1.360) | intergenic (+212/‑625) | USA300HOU_RS14915/ugpQ_1 | hypothetical protein/Glycerophosphodiester phosphodiesterase, cytoplasmic | |||||
| * | ? | USA300TCH1516_ALE | = 614093 | 124 (2.170) | 6 (0.110) | 3/264 | 6.0 | 4.8% | coding (2405/2844 nt) | sdrC | Serine‑aspartate repeat‑containing protein C |
| ? | USA300TCH1516_ALE | 614118 = | 114 (2.020) | coding (2430/2844 nt) | sdrC | Serine‑aspartate repeat‑containing protein C | |||||
| * | ? | USA300TCH1516_ALE | = 456294 | 44 (0.770) | 3 (0.050) | 3/262 | 6.0 | 7.1% | intergenic (+216/‑150) | speC_5/tst_4 | Exotoxin type C/Toxic shock syndrome toxin‑1 |
| ? | USA300TCH1516_ALE | = 456337 | 35 (0.630) | intergenic (+259/‑107) | speC_5/tst_4 | Exotoxin type C/Toxic shock syndrome toxin‑1 | |||||
| * | ? | CP000731 | = 4381 | 230 (0.960) | 4 (0.010) | 4/254 | 18.5 | 0.58% | intergenic (+346/‑119) | USA300HOU_pUSA300HOUMR0006/cadR | hypothetical protein/cadmium binding protein |
| ? | NC_012417 | = 1975 | 1153 (1.160) | intergenic (+208/+118) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | CP000731 | 2365 = | 282 (1.180) | 4 (0.010) | 4/252 | 18.5 | 0.56% | intergenic (+145/+23) | USA300HOU_pUSA300HOUMR0003/USA300HOU_pUSA300HOUMR0004 | hypothetical protein/hypothetical protein |
| ? | NC_012417 | 1955 = | 1167 (1.180) | intergenic (+188/+138) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | CP000731 | 2365 = | 282 (1.180) | 4 (0.020) | 4/252 | 18.5 | 1.4% | intergenic (+145/+23) | USA300HOU_pUSA300HOUMR0003/USA300HOU_pUSA300HOUMR0004 | hypothetical protein/hypothetical protein |
| ? | CP000731 | 4302 = | 282 (1.260) | intergenic (+267/‑198) | USA300HOU_pUSA300HOUMR0006/cadR | hypothetical protein/cadmium binding protein | |||||
| * | ? | CP000731 | = 2334 | 292 (1.220) | 4 (0.010) | 4/254 | 18.5 | 0.56% | intergenic (+114/+54) | USA300HOU_pUSA300HOUMR0003/USA300HOU_pUSA300HOUMR0004 | hypothetical protein/hypothetical protein |
| ? | NC_012417 | = 1975 | 1153 (1.160) | intergenic (+208/+118) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||
| * | ? | CP000731 | 4311 = | 284 (1.190) | 6 (0.010) | 3/246 | 19.1 | 0.92% | intergenic (+276/‑189) | USA300HOU_pUSA300HOUMR0006/cadR | hypothetical protein/cadmium binding protein |
| ? | NC_012417 | 2053 = | 1037 (1.080) | intergenic (+286/+40) | USA300HOU_RS14895/USA300HOU_RS14900 | hypothetical protein/hypothetical protein | |||||