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 30 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 4,604,344 | 0 | C | T | 45.9% | 91.8 / 98.4 | 122 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 770,897 | 0 | T | G | 34.2% | 128.5 / 19.8 | 76 | intergenic (+286/‑561) | mngB/cydA | alpha‑mannosidase/cytochrome bd‑I ubiquinol oxidase subunit I |
| * | NC_000913 | 4,111,747 | 0 | G | T | 31.6% | 164.9 / 46.0 | 76 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 4,101,507 | 0 | T | G | 30.0% | 144.6 / 13.0 | 70 | intergenic (+77/‑183) | sodA/kdgT | superoxide dismutase (Mn)/2‑dehydro‑3‑deoxy‑D‑gluconate:H(+) symporter |
| * | NC_000913 | 4,568,504 | 0 | T | G | 30.0% | 374.1 / 30.9 | 182 | T6P (ACC→CCC) | mdtM | multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| * | NC_000913 | 3,206,435 | 0 | C | T | 29.5% | 98.5 / 30.9 | 61 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 650,809 | 0 | T | G | 28.1% | 193.6 / 27.6 | 89 | T350P (ACC→CCC) | citC | citrate lyase synthetase |
| * | NC_000913 | 753,125 | 0 | T | A | 27.8% | 196.2 / 34.1 | 90 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 4,429,984 | 0 | T | G | 27.7% | 201.7 / 37.7 | 94 | L41V (TTG→GTG) | cycA | serine/alanine/glycine/cycloserine:H(+)symporter |
| * | NC_000913 | 501,564 | 0 | A | C | 27.0% | 156.6 / 37.5 | 74 | *559E (TAA→GAA) | ybaL | putative transporter YbaL |
| * | NC_000913 | 4,111,752 | 0 | T | C | 26.4% | 160.3 / 20.0 | 87 | K155E (AAA→GAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 501,575 | 0 | A | C | 26.1% | 161.5 / 20.5 | 69 | V555G (GTG→GGG) | ybaL | putative transporter YbaL |
| * | NC_000913 | 1,825,061 | 0 | G | A | 25.9% | 110.8 / 18.3 | 54 | intergenic (‑124/+79) | ves/spy | HutD family protein Ves/ATP‑independent periplasmic chaperone |
| * | NC_000913 | 4,101,514 | 0 | G | T | 24.6% | 168.8 / 22.5 | 65 | intergenic (+84/‑176) | sodA/kdgT | superoxide dismutase (Mn)/2‑dehydro‑3‑deoxy‑D‑gluconate:H(+) symporter |
| * | NC_000913 | 3,206,444 | 0 | T | A | 24.2% | 141.9 / 16.0 | 66 | intergenic (‑188/‑19) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 3,926,366 | 0 | A | C | 23.7% | 369.3 / 42.7 | 152 | G30G (GGT→GGG) | mioC | flavoprotein MioC |
| * | NC_000913 | 372,640 | 0 | T | G | 23.6% | 216.3 / 16.8 | 89 | L176V (TTA→GTA) | mhpD | 2‑hydroxypentadienoate hydratase |
| * | NC_000913 | 1,550,663 | 0 | A | C | 23.3% | 148.0 / 14.8 | 60 | N68T (AAC→ACC) | fdnH | formate dehydrogenase N subunit beta |
| * | NC_000913 | 4,209,827 | 0 | T | G | 23.0% | 148.1 / 13.1 | 74 | noncoding (54/76 nt) | gltV | tRNA‑Glu |
| * | NC_000913 | 1,068,173 | 0 | T | G | 22.4% | 362.4 / 42.5 | 143 | G31G (GGT→GGG) | ymdF | conserved protein YmdF |
| 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 = | 110 (0.710) | 14 (0.100) | 13/258 | 6.3 | 9.6% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 161 (1.110) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 4542690 | 102 (0.660) | 8 (0.060) | 8/258 | 7.9 | 5.9% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 161 (1.110) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 2744097 | 173 (1.120) | 4 (0.030) | 4/270 | 10.0 | 2.3% | coding (473/483 nt) | yfiB | lipoprotein YfiB |
| ? | NC_000913 | 2744101 = | 164 (1.080) | coding (477/483 nt) | yfiB | lipoprotein YfiB | |||||
| * | ? | NC_000913 | 1722616 = | 114 (0.740) | 3 (0.020) | 3/254 | 10.3 | 2.7% | coding (496/2013 nt) | ydhK | putative transporter YdhK |
| ? | NC_000913 | = 1722612 | 108 (0.760) | coding (492/2013 nt) | ydhK | putative transporter YdhK | |||||
| * | ? | NC_000913 | = 1829923 | 122 (0.790) | 3 (0.020) | 3/272 | 10.7 | 2.5% | coding (843/1035 nt) | astA | arginine N‑succinyltransferase |
| ? | NC_000913 | 1829927 = | 117 (0.770) | coding (839/1035 nt) | astA | arginine N‑succinyltransferase | |||||