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 | 47.1% | 44.3 / 64.1 | 70 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 2,326,450 | 0 | T | G | 35.6% | 43.6 / 36.5 | 45 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 3,404,215 | 0 | T | G | 31.4% | 73.4 / 23.9 | 51 | G244G (GGT→GGG) | yhdH | acrylyl‑CoA reductase |
| * | NC_000913 | 501,564 | 0 | A | C | 30.8% | 30.8 / 15.6 | 26 | *559E (TAA→GAA) | ybaL | putative transporter YbaL |
| * | NC_000913 | 646,747 | 0 | T | G | 28.6% | 50.9 / 19.2 | 35 | T255P (ACC→CCC) | citG | triphosphoribosyl‑dephospho‑CoA synthase |
| * | NC_000913 | 372,640 | 0 | T | G | 27.8% | 93.0 / 14.9 | 54 | L176V (TTA→GTA) | mhpD | 2‑hydroxypentadienoate hydratase |
| * | NC_000913 | 3,404,218 | 0 | T | G | 27.5% | 89.8 / 15.5 | 51 | G245G (GGT→GGG) | yhdH | acrylyl‑CoA reductase |
| * | NC_000913 | 753,125 | 0 | T | A | 26.3% | 87.3 / 12.2 | 38 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 3,206,435 | 0 | C | T | 25.8% | 54.8 / 11.1 | 31 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 2,001,918 | 0 | A | C | 25.6% | 69.9 / 10.4 | 39 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 1,550,663 | 0 | A | C | 25.5% | 85.0 / 13.9 | 47 | N68T (AAC→ACC) | fdnH | formate dehydrogenase N subunit beta |
| * | NC_000913 | 4,296,060 | 0 | C | T | 25.3% | 143.7 / 46.1 | 75 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 4,568,504 | 0 | T | G | 25.2% | 197.6 / 11.4 | 99 | T6P (ACC→CCC) | mdtM | multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| * | NC_000913 | 650,809 | 0 | T | G | 24.7% | 145.0 / 21.7 | 73 | T350P (ACC→CCC) | citC | citrate lyase synthetase |
| * | NC_000913 | 175,694 | 0 | T | G | 23.3% | 85.9 / 10.3 | 43 | G196G (GGT→GGG) | clcA | chloride:H(+) antiporter ClcA |
| * | NC_000913 | 3,926,366 | 0 | A | C | 22.4% | 161.9 / 19.9 | 76 | G30G (GGT→GGG) | mioC | flavoprotein MioC |
| * | NC_000913 | 376,401 | 0 | T | G | 22.2% | 147.7 / 13.7 | 72 | L315V (TTG→GTG) | mhpT | 3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| * | NC_000913 | 1,068,173 | 0 | T | G | 20.8% | 154.6 / 15.1 | 72 | G31G (GGT→GGG) | ymdF | conserved protein YmdF |
| * | NC_000913 | 3,740,909 | 0 | T | G | 20.0% | 128.5 / 10.5 | 60 | V402G (GTG→GGG) | avtA | valine‑‑pyruvate aminotransferase |
| 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 | 4542682 = | 61 (0.810) | 8 (0.110) | 8/258 | 5.1 | 10.8% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 75 (1.060) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 967030 = | 97 (1.280) | 3 (0.040) | 3/256 | 7.3 | 3.2% | coding (410/1749 nt) | msbA | ATP‑binding lipopolysaccharide transport protein |
| ? | NC_000913 | = 967026 | 91 (1.300) | coding (406/1749 nt) | msbA | ATP‑binding lipopolysaccharide transport protein | |||||
| * | ? | NC_000913 | = 2727463 | NA (NA) | 4 (0.050) | 3/268 | 7.5 | NA | noncoding (1722/2904 nt) | rrlG | 23S ribosomal RNA |
| ? | NC_000913 | 2727469 = | NA (NA) | noncoding (1716/2904 nt) | rrlG | 23S ribosomal RNA | |||||