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 | 1,825,061 | 0 | G | A | 34.3% | 51.1 / 16.0 | 35 | intergenic (‑124/+79) | ves/spy | HutD family protein Ves/ATP‑independent periplasmic chaperone |
| * | NC_000913 | 4,604,344 | 0 | C | T | 34.0% | 61.6 / 27.4 | 50 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 4,101,507 | 0 | T | G | 33.3% | 102.3 / 12.8 | 60 | intergenic (+77/‑183) | sodA/kdgT | superoxide dismutase (Mn)/2‑dehydro‑3‑deoxy‑D‑gluconate:H(+) symporter |
| * | NC_000913 | 2,001,918 | 0 | A | C | 32.4% | 59.6 / 12.5 | 37 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 753,125 | 0 | T | A | 31.2% | 55.3 / 13.8 | 32 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 1,679,688 | 0 | T | G | 28.2% | 64.1 / 10.1 | 39 | G44G (GGT→GGG) | ydgI | putative arginine:ornithine antiporter |
| * | NC_000913 | 4,101,514 | 0 | G | T | 26.8% | 148.1 / 18.0 | 56 | intergenic (+84/‑176) | sodA/kdgT | superoxide dismutase (Mn)/2‑dehydro‑3‑deoxy‑D‑gluconate:H(+) symporter |
| * | NC_000913 | 501,564 | 0 | A | C | 26.5% | 61.2 / 13.8 | 34 | *559E (TAA→GAA) | ybaL | putative transporter YbaL |
| * | NC_000913 | 29,496 | 0 | T | A | 25.0% | 71.6 / 14.7 | 36 | intergenic (+301/‑155) | dapB/carA | 4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl phosphate synthetase subunit alpha |
| * | NC_000913 | 4,111,747 | 0 | G | T | 25.0% | 109.8 / 14.8 | 40 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 2,628,625 | 0 | A | C | 24.4% | 83.4 / 10.6 | 41 | V105G (GTC→GGC) | pdeF | cyclic di‑GMP phosphodiesterase PdeF |
| * | NC_000913 | 4,287,719 | 0 | T | A | 20.5% | 177.2 / 23.2 | 73 | 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 | 48 (0.710) | 9 (0.140) | 9/258 | 4.3 | 16.7% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 45 (0.710) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 4542682 = | 48 (0.710) | 8 (0.130) | 8/258 | 4.6 | 15.1% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 45 (0.710) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 374922 = | NA (NA) | 9 (0.140) | 6/260 | 5.3 | NA | intergenic (+41/‑537) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377329 = | NA (NA) | intergenic (+18/+206) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | = 3251253 | 55 (0.810) | 5 (0.080) | 4/262 | 6.3 | 7.3% | coding (230/987 nt) | yqjG | glutathionyl‑hydroquinone reductase YqjG |
| ? | NC_000913 | = 3251312 | 75 (1.170) | coding (289/987 nt) | yqjG | glutathionyl‑hydroquinone reductase YqjG | |||||
| * | ? | NC_000913 | 467996 = | 61 (0.900) | 4 (0.060) | 4/264 | 6.3 | 5.7% | coding (585/819 nt) | cof | HMP‑PP phosphatase |
| ? | NC_000913 | 468078 = | 73 (1.130) | coding (667/819 nt) | cof | HMP‑PP phosphatase | |||||
| * | ? | NC_000913 | 353266 = | 56 (0.830) | 3 (0.050) | 3/252 | 6.7 | 5.1% | coding (561/1887 nt) | prpE | propionyl‑CoA synthetase |
| ? | NC_000913 | 353394 = | 60 (0.970) | coding (689/1887 nt) | prpE | propionyl‑CoA synthetase | |||||
| * | ? | NC_000913 | 1947787 = | 64 (0.950) | 3 (0.040) | 3/276 | 7.0 | 4.9% | coding (365/741 nt) | yebC | putative transcriptional regulator YebC |
| ? | NC_000913 | = 1947900 | 53 (0.780) | coding (252/741 nt) | yebC | putative transcriptional regulator YebC | |||||