mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 50 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | JE3692‑4 | 699,722 | 0 | A | G | 63.9% | 41.7 / 97.2 | 83 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | JE3692‑4 | 4,820,330 | 0 | C | T | 60.9% | ‑6.6 / 26.0 | 23 | intergenic (‑295/‑260) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | JE3692‑4 | 4,820,331 | 0 | G | T | 60.9% | ‑3.9 / 29.3 | 23 | intergenic (‑296/‑259) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | JE3692‑4 | 1,327,121 | 0 | C | T | 51.7% | 64.2 / 241.4 | 147 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | JE3692‑4 | 4,360,849 | 0 | A | G | 44.1% | 129.1 / 284.1 | 188 | intergenic (‑70/+404) | PP_3820/PP_3821 | Group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | JE3692‑4 | 2,184,200 | 0 | G | A | 42.1% | 126.0 / 61.2 | 109 | T268T (ACG→ACA) | PP_1931 | conserved protein of unknown function |
| * | JE3692‑4 | 2,184,203 | 0 | T | C | 42.1% | 97.5 / 99.8 | 114 | N269N (AAT→AAC) | PP_1931 | conserved protein of unknown function |
| * | JE3692‑4 | 3,636,954 | 0 | G | C | 35.8% | 79.6 / 59.6 | 90 | G226G (GGC→GGG) | PP_3195 | conserved protein of unknown function |
| * | JE3692‑4 | 324,670 | 0 | C | T | 32.0% | 177.0 / 74.7 | 125 | intergenic (‑430/‑45) | PP_0267/PP_0268 | putative Outer membrane ferric siderophore receptor/outer‑membrane porin D |
| * | JE3692‑4 | 195,634 | 0 | C | T | 31.3% | 463.3 / 241.6 | 246 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 2,184,204 | 0 | G | C | 29.4% | 221.3 / 54.3 | 115 | V270L (GTC→CTC) | PP_1931 | conserved protein of unknown function |
| * | JE3692‑4 | 196,351 | 0 | C | G | 29.1% | 432.1 / 280.1 | 254 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 4,350,637 | 0 | A | G | 27.9% | 84.2 / 14.0 | 43 | intergenic (+113/+29) | PP_3812/PP_5632 | putative Lipase/enzyme subunit involved in allo‑isoleucine metabolism |
| * | JE3692‑4 | 3,941,931 | 0 | C | T | 26.1% | 164.3 / 12.1 | 69 | intergenic (+10/+28) | PP_3464/PP_5603 | conserved exported protein of unknown function/putative FAD dependent oxidoreductase |
| * | JE3692‑4 | 4,365,327 | 0 | C | G | 25.8% | 60.6 / 11.1 | 36 | G103G (GGC→GGG) | PP_3827 | 2‑nitropropane dioxygenase |
| * | JE3692‑4 | 6,053,162 | 0 | C | G | 25.6% | 206.0 / 39.1 | 90 | G265G (GGC→GGG) | PP_5295 | conserved protein of unknown function |
| * | JE3692‑4 | 2,982,613 | 0 | C | A | 25.5% | 215.0 / 37.0 | 94 | intergenic (+101/+48) | PP_2603/PP_2604 | conserved protein of unknown function/major facilitator family transporter |
| * | JE3692‑4 | 1,904,632 | 0 | A | C | 24.4% | 182.1 / 20.7 | 83 | intergenic (+70/‑450) | PP_t18/PP_1703 | tRNA‑Asp/assimilatory nitrate reductase/sulfite reductase |
| * | JE3692‑4 | 2,750,794 | 0 | A | G | 24.3% | 248.6 / 21.5 | 104 | intergenic (+5/+30) | PP_2399/PP_2400 | conserved protein of unknown function/conserved protein of unknown function |
| * | JE3692‑4 | 3,605,469 | 0 | C | G | 24.2% | 124.4 / 24.3 | 68 | R121G (CGC→GGC) | PP_3171 | conserved protein of unknown function |
| Marginal new junction evidence (lowest skew 10 of 209 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | JE3692‑4 | = 5566684 | 4 (0.030) | 78 (0.530) +GCC |
53/188 | 3.0 | 95.3% | intergenic (‑84/+87) | PP_4887/PP_4888 | conserved protein of unknown function/putative methyl‑accepting chemotaxis transducer |
| ? | JE3692‑4 | 5566685 = | 4 (0.030) | intergenic (‑85/+86) | PP_4887/PP_4888 | conserved protein of unknown function/putative methyl‑accepting chemotaxis transducer | |||||
| * | ? | JE3692‑4 | = 4992729 | 4 (0.030) | 63 (0.430) +GGC |
52/188 | 3.2 | 94.2% | intergenic (‑24/+44) | PP_4387/PP_4388 | conserved exported protein of unknown function/Flagellar hook protein FlgE |
| ? | JE3692‑4 | 4992730 = | 4 (0.030) | intergenic (‑25/+43) | PP_4387/PP_4388 | conserved exported protein of unknown function/Flagellar hook protein FlgE | |||||
| * | ? | JE3692‑4 | = 1644999 | 0 (0.000) | 68 (0.450) | 47/192 | 4.2 | 100% | intergenic (‑258/‑188) | PP_1443/araE (Ppu opt) | DNA‑binding, ATP‑dependent protease/– |
| ? | JE3692‑4 | = 1652985 | 0 (0.000) | intergenic (+174/+34) | nahF (Ppu opt)/PP_1445 | –/carbohydrate‑selective porin | |||||
| * | ? | JE3692‑4 | = 652782 | 117 (0.770) | 48 (0.400) | 31/154 | 5.3 | 50.8% | coding (1961/1962 nt) | PP_0562 | Methyl‑accepting chemotaxis protein CtpL |
| ? | JE3692‑4 | = 4820303 | 0 (0.000) | intergenic (‑268/‑287) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | JE3692‑4 | = 4820323 | 5 (0.030) | 34 (0.280) | 25/154 | 7.0 | 49.6% | intergenic (‑288/‑267) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | JE3692‑4 | = 6000025 | 65 (0.540) | intergenic (+243/‑303) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | JE3692‑4 | = 4820323 | 5 (0.030) | 43 (0.320) | 26/170 | 7.7 | 43.6% | intergenic (‑288/‑267) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | JE3692‑4 | 5999841 = | 107 (0.800) | intergenic (+59/‑487) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | JE3692‑4 | = 652783 | 114 (0.750) | 22 (0.230) | 15/124 | 8.3 | 37.6% | coding (1960/1962 nt) | PP_0562 | Methyl‑accepting chemotaxis protein CtpL |
| ? | JE3692‑4 | 4820353 = | 0 (0.000) | intergenic (‑318/‑237) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | JE3692‑4 | 4820318 = | 26 (0.170) | 25 (0.220) | 15/142 | 9.8 | 34.0% | intergenic (‑283/‑272) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | JE3692‑4 | 5999855 = | 78 (0.700) | intergenic (+73/‑473) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | JE3692‑4 | = 5999835 | 124 (0.820) | 14 (0.100) | 13/180 | 13.4 | 12.3% | intergenic (+53/‑493) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| ? | JE3692‑4 | 6000027 = | 85 (0.600) | intergenic (+245/‑301) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | JE3692‑4 | = 2556265 | NA (NA) | 14 (0.100) | 11/182 | 14.6 | NA | intergenic (+160/‑84) | PP_t36/PP_23SF | tRNA‑Ala/23S ribosomal RNA |
| ? | JE3692‑4 | = 2556295 | NA (NA) | intergenic (+190/‑54) | PP_t36/PP_23SF | tRNA‑Ala/23S ribosomal RNA | |||||