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 24 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 | 38.8% | 122.3 / 68.1 | 104 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 3,206,435 | 0 | C | T | 33.3% | 67.3 / 35.5 | 51 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 2,001,918 | 0 | A | C | 31.7% | 103.3 / 26.3 | 60 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 650,809 | 0 | T | G | 30.6% | 118.7 / 14.1 | 62 | T350P (ACC→CCC) | citC | citrate lyase synthetase |
| * | NC_000913 | 501,575 | 0 | A | C | 30.4% | 84.0 / 16.5 | 46 | V555G (GTG→GGG) | ybaL | putative transporter YbaL |
| * | NC_000913 | 4,111,747 | 0 | G | T | 28.9% | 108.3 / 22.2 | 45 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 4,568,504 | 0 | T | G | 28.0% | 252.3 / 21.9 | 127 | T6P (ACC→CCC) | mdtM | multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| * | NC_000913 | 372,640 | 0 | T | G | 27.5% | 138.0 / 21.9 | 69 | L176V (TTA→GTA) | mhpD | 2‑hydroxypentadienoate hydratase |
| * | NC_000913 | 29,496 | 0 | T | A | 27.3% | 158.3 / 37.8 | 77 | intergenic (+301/‑155) | dapB/carA | 4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl phosphate synthetase subunit alpha |
| * | NC_000913 | 2,628,625 | 0 | A | C | 26.4% | 112.4 / 15.5 | 53 | V105G (GTC→GGC) | pdeF | cyclic di‑GMP phosphodiesterase PdeF |
| * | NC_000913 | 1,825,061 | 0 | G | A | 25.5% | 95.8 / 19.9 | 51 | intergenic (‑124/+79) | ves/spy | HutD family protein Ves/ATP‑independent periplasmic chaperone |
| * | NC_000913 | 1,377,140 | 0 | A | C | 24.7% | 216.8 / 12.2 | 93 | K103N (AAA→AAC) | ycjS | putative oxidoreductase YcjS |
| * | NC_000913 | 3,740,909 | 0 | T | G | 24.4% | 196.5 / 25.1 | 90 | V402G (GTG→GGG) | avtA | valine‑‑pyruvate aminotransferase |
| * | NC_000913 | 888,014 | 0 | T | G | 24.4% | 198.7 / 17.5 | 86 | noncoding (44/81 nt) | rybB | small regulatory RNA RybB |
| * | NC_000913 | 1,491,098 | 0 | A | C | 24.1% | 241.2 / 19.7 | 108 | Y66S (TAC→TCC) | cybB | cytochrome b561 |
| * | NC_000913 | 3,206,444 | 0 | T | A | 24.1% | 110.2 / 14.6 | 54 | intergenic (‑188/‑19) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 729,659 | 0 | T | G | 24.0% | 177.0 / 15.2 | 75 | V26G (GTA→GGA) | rhsC | rhs element protein RhsC |
| * | NC_000913 | 4,296,060 | 0 | C | T | 23.7% | 224.5 / 67.2 | 114 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 2,326,450 | 0 | T | G | 23.1% | 201.1 / 42.2 | 91 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 4,223,593 | 0 | T | G | 21.6% | 212.2 / 11.5 | 88 | K12N (AAA→AAC) | iclR | DNA‑binding transcriptional repressor IclR |
| 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 | 374922 = | NA (NA) | 12 (0.150) | 6/202 | 6.6 | NA | intergenic (+41/‑537) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377430 = | NA (NA) | intergenic (+119/+105) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | 608007 = | NA (NA) | 8 (0.090) | 6/224 | 7.1 | 7.7% | noncoding (1/1345 nt) | IS186 | repeat region |
| ? | NC_000913 | 609352 = | 96 (1.100) | intergenic (+175/+107) | insL‑2/entD | IS186/IS421 transposase/phosphopantetheinyl transferase EntD | |||||
| * | ? | NC_000913 | = 2130916 | 94 (0.880) | 4 (0.040) | 4/258 | 8.9 | 3.9% | coding (1155/1218 nt) | wcaC | putative colanic acid biosynthesis glycosyl transferase |
| ? | NC_000913 | = 2131044 | 107 (1.070) | coding (1027/1218 nt) | wcaC | putative colanic acid biosynthesis glycosyl transferase | |||||
| * | ? | NC_000913 | 1934785 = | 88 (0.820) | 4 (0.040) | 4/260 | 9.0 | 4.5% | intergenic (‑181/+54) | edd/zwf | phosphogluconate dehydratase/NADP(+)‑dependent glucose‑6‑phosphate dehydrogenase |
| ? | NC_000913 | 1934838 = | 86 (0.850) | intergenic (‑234/+1) | edd/zwf | phosphogluconate dehydratase/NADP(+)‑dependent glucose‑6‑phosphate dehydrogenase | |||||
| * | ? | NC_000913 | 818758 = | 137 (1.280) | 4 (0.040) | 3/256 | 9.5 | 3.1% | coding (189/486 nt) | moaC | cyclic pyranopterin monophosphate synthase |
| ? | NC_000913 | 818886 = | 126 (1.270) | coding (317/486 nt) | moaC | cyclic pyranopterin monophosphate synthase | |||||