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 | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 4,604,344 | 0 | C | T | 39.2% | 52.9 / 31.7 | 51 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 753,125 | 0 | T | A | 34.2% | 59.4 / 23.9 | 41 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 2,326,450 | 0 | T | G | 31.8% | 70.2 / 25.0 | 44 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 753,114 | 0 | G | T | 30.2% | 102.9 / 11.9 | 43 | intergenic (‑319/+71) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 2,001,918 | 0 | A | C | 29.7% | 67.3 / 13.1 | 37 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 3,206,435 | 0 | C | T | 27.3% | 83.7 / 19.9 | 44 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 753,105 | 0 | A | T | 26.1% | 102.3 / 14.7 | 46 | intergenic (‑310/+80) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 4,101,507 | 0 | T | G | 25.9% | 117.3 / 11.7 | 58 | intergenic (+77/‑183) | sodA/kdgT | superoxide dismutase (Mn)/2‑dehydro‑3‑deoxy‑D‑gluconate:H(+) symporter |
| * | NC_000913 | 1,292,458 | 0 | T | A | 25.6% | 79.6 / 12.7 | 43 | intergenic (+93/+51) | galU/hns | UTP‑‑glucose‑1‑phosphate uridylyltransferase/DNA‑binding transcriptional dual regulator H‑NS |
| * | NC_000913 | 2,094,899 | 0 | A | C | 25.0% | 75.0 / 10.0 | 40 | Y122S (TAC→TCC) | hisH | imidazole glycerol phosphate synthase subunit HisH |
| * | NC_000913 | 3,740,909 | 0 | T | G | 24.0% | 100.5 / 13.7 | 50 | V402G (GTG→GGG) | avtA | valine‑‑pyruvate aminotransferase |
| * | NC_000913 | 3,531,440 | 0 | A | C | 23.6% | 116.6 / 12.9 | 55 | Y334D (TAT→GAT) | yhgE | putative transport protein YhgE |
| * | NC_000913 | 4,111,747 | 0 | G | T | 20.6% | 103.3 / 11.4 | 35 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 3,274,865 | 0 | T | G | 20.4% | 117.1 / 13.2 | 49 | T15P (ACC→CCC) | garP | galactarate/glucarate/glycerate transporter GarP |
| * | NC_000913 | 4,287,719 | 0 | T | A | 20.4% | 126.2 / 13.7 | 49 | intergenic (‑348/‑45) | acs/nrfA | acetyl‑CoA synthetase (AMP‑forming)/cytochrome c552 nitrite reductase |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 4542690 | 72 (1.100) | 12 (0.200) | 12/256 | 3.2 | 14.1% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 79 (1.290) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 4542682 = | 76 (1.160) | 5 (0.080) | 4/256 | 5.9 | 6.3% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 79 (1.290) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 3393268 | 75 (1.140) | 3 (0.050) | 3/272 | 6.7 | 3.8% | coding (2991/3801 nt) | yhdP | AsmA2 domain‑containing protein |
| ? | NC_000913 | 3393272 = | 78 (1.200) | coding (2987/3801 nt) | yhdP | AsmA2 domain‑containing protein | |||||
| * | ? | NC_000913 | = 1979340 | 34 (0.520) | 4 (0.060) | 3/274 | 6.7 | 10.5% | intergenic (‑125/‑413) | insA‑5/uspC | IS1 protein InsA/universal stress protein C |
| ? | NC_000913 | = 2102943 | NA (NA) | noncoding (1/1195 nt) | IS5 | repeat region | |||||