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 21 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 | 45.5% | 74.3 / 83.2 | 99 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 1,825,061 | 0 | G | A | 39.6% | 55.8 / 25.4 | 48 | intergenic (‑124/+79) | ves/spy | HutD family protein Ves/ATP‑independent periplasmic chaperone |
| * | NC_000913 | 770,897 | 0 | T | G | 34.5% | 91.7 / 15.1 | 55 | intergenic (+286/‑561) | mngB/cydA | alpha‑mannosidase/cytochrome bd‑I ubiquinol oxidase subunit I |
| * | NC_000913 | 4,111,747 | 0 | G | T | 34.5% | 109.3 / 40.5 | 58 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 4,101,514 | 0 | G | T | 28.8% | 140.6 / 26.0 | 59 | intergenic (+84/‑176) | sodA/kdgT | superoxide dismutase (Mn)/2‑dehydro‑3‑deoxy‑D‑gluconate:H(+) symporter |
| * | NC_000913 | 1,645,034 | 0 | A | C | 28.4% | 148.3 / 22.4 | 74 | intergenic (‑132/+85) | rem/hokD | Qin prophage; protein Rem/Qin prophage; toxic protein HokD |
| * | NC_000913 | 2,001,918 | 0 | A | C | 28.3% | 125.0 / 21.4 | 60 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 4,209,827 | 0 | T | G | 28.0% | 87.4 / 16.4 | 50 | noncoding (54/76 nt) | gltV | tRNA‑Glu |
| * | NC_000913 | 4,568,504 | 0 | T | G | 27.2% | 264.9 / 18.6 | 126 | T6P (ACC→CCC) | mdtM | multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| * | NC_000913 | 4,296,060 | 0 | C | T | 27.0% | 179.1 / 68.3 | 100 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 3,206,435 | 0 | C | T | 26.9% | 90.2 / 25.5 | 52 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 3,206,444 | 0 | T | A | 26.0% | 90.7 / 15.0 | 50 | intergenic (‑188/‑19) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 501,575 | 0 | A | C | 25.9% | 120.1 / 13.9 | 54 | V555G (GTG→GGG) | ybaL | putative transporter YbaL |
| * | NC_000913 | 1,550,663 | 0 | A | C | 25.0% | 149.1 / 15.7 | 68 | N68T (AAC→ACC) | fdnH | formate dehydrogenase N subunit beta |
| * | NC_000913 | 4,287,719 | 0 | T | A | 24.0% | 232.3 / 46.5 | 104 | intergenic (‑348/‑45) | acs/nrfA | acetyl‑CoA synthetase (AMP‑forming)/cytochrome c552 nitrite reductase |
| * | NC_000913 | 1,068,173 | 0 | T | G | 22.1% | 189.0 / 14.5 | 77 | G31G (GGT→GGG) | ymdF | conserved protein YmdF |
| * | NC_000913 | 29,496 | 0 | T | A | 21.8% | 134.4 / 17.3 | 55 | intergenic (+301/‑155) | dapB/carA | 4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl phosphate synthetase subunit alpha |
| * | NC_000913 | 501,564 | 0 | A | C | 21.6% | 121.8 / 14.6 | 51 | *559E (TAA→GAA) | ybaL | putative transporter YbaL |
| * | NC_000913 | 2,326,450 | 0 | T | G | 21.2% | 192.8 / 32.2 | 80 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 753,125 | 0 | T | A | 21.0% | 209.6 / 20.3 | 81 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| 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 = | 98 (0.830) | 9 (0.080) | 8/258 | 6.4 | 8.3% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 107 (0.970) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 339959 = | NA (NA) | 4 (0.040) +28 bp |
3/220 | 8.0 | NA | coding (167/297 nt) | yahH | putative uncharacterized protein YahH |
| ? | NC_000913 | 377433 = | NA (NA) | intergenic (+122/+102) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | = 4542690 | 91 (0.770) | 3 (0.030) | 3/258 | 8.7 | 3.0% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 106 (0.960) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 2504990 | 68 (0.580) | 3 (0.030) | 3/272 | 8.9 | 4.3% | coding (558/1038 nt) | ypdE | broad‑specificity exoaminopeptidase |
| ? | NC_000913 | 2504994 = | 66 (0.570) | coding (554/1038 nt) | ypdE | broad‑specificity exoaminopeptidase | |||||