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 | 3,363,514 | 0 | A | G | 54.7% | 87.1 / 297.0 | 223 | G236G (GGA→GGG) | yhcD | putative fimbrial usher protein YhcD |
| * | NC_000913 | 3,363,326 | 0 | T | C | 47.8% | 15.7 / 302.8 | 203 | S174P (TCC→CCC) | yhcD | putative fimbrial usher protein YhcD |
| * | NC_000913 | 4,296,060 | 0 | C | T | 43.1% | 43.7 / 69.9 | 58 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 4,604,344 | 0 | C | T | 42.9% | 47.0 / 29.2 | 49 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 4,111,747 | 0 | G | T | 34.2% | 83.5 / 18.0 | 38 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 4,073,402 | 0 | T | C | 33.9% | 66.6 / 60.0 | 65 | D57G (GAT→GGT) | yihU | 3‑sulfolactaldehyde reductase |
| * | NC_000913 | 29,496 | 0 | T | A | 33.3% | 59.0 / 15.7 | 33 | intergenic (+301/‑155) | dapB/carA | 4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl phosphate synthetase subunit alpha |
| * | NC_000913 | 206,730 | 0 | A | G | 33.3% | 54.0 / 45.4 | 51 | K535K (AAA→AAG) | dnaE | DNA polymerase III subunit alpha |
| * | NC_000913 | 1,491,103 | 0 | A | C | 33.3% | 59.5 / 15.8 | 42 | T68P (ACC→CCC) | cybB | cytochrome b561 |
| * | NC_000913 | 3,206,435 | 0 | C | T | 31.6% | 54.7 / 19.6 | 38 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 646,747 | 0 | T | G | 30.8% | 63.9 / 19.5 | 39 | T255P (ACC→CCC) | citG | triphosphoribosyl‑dephospho‑CoA synthase |
| * | NC_000913 | 3,404,215 | 0 | T | G | 27.3% | 86.0 / 14.1 | 44 | G244G (GGT→GGG) | yhdH | acrylyl‑CoA reductase |
| * | NC_000913 | 3,270,480 | 1 | . | C | 22.9% | 72.9 / 33.7 | 35 | noncoding (113/377 nt) | rnpB | RNase P catalytic RNA component |
| * | NC_000913 | 753,125 | 0 | T | A | 22.6% | 132.4 / 14.5 | 53 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 3,240,985 | 0 | T | G | 22.6% | 118.0 / 10.4 | 54 | S348A (TCT→GCT) | sstT | serine/threonine:Na(+) symporter |
| * | NC_000913 | 4,141,511 | 0 | A | G | 22.6% | 114.0 / 32.8 | 62 | R237R (CGT→CGC) | ptsA | putative PTS multiphosphoryl transfer protein PtsA |
| * | NC_000913 | 3,740,909 | 0 | T | G | 21.3% | 132.9 / 12.0 | 61 | V402G (GTG→GGG) | avtA | valine‑‑pyruvate aminotransferase |
| * | NC_000913 | 3,844,219 | 0 | T | G | 21.2% | 194.6 / 12.7 | 80 | F86V (TTT→GTT) | adeD | adenine deaminase |
| 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 | 1207790 = | 96 (1.400) | 8 (0.130) | 7/244 | 4.1 | 10.8% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 48 (0.800) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 91 (1.330) | 6 (0.100) | 6/244 | 4.4 | 8.5% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 48 (0.800) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 2288554 | 73 (1.130) | 10 (0.150) +CCC |
5/256 | 4.9 | 11.7% | pseudogene (361/2525 nt) | yejO | adhesin‑like autotransporter YejO |
| ? | NC_000913 | 2288555 = | 78 (1.140) | pseudogene (360/2525 nt) | yejO | adhesin‑like autotransporter YejO | |||||
| * | ? | NC_000913 | 608007 = | NA (NA) | 5 (0.090) | 4/224 | 4.9 | 7.4% | noncoding (1/1345 nt) | IS186 | repeat region |
| ? | NC_000913 | 609352 = | 63 (1.140) | intergenic (+175/+107) | insL‑2/entD | IS186/IS421 transposase/phosphopantetheinyl transferase EntD | |||||
| * | ? | NC_000913 | 3736656 = | 101 (1.480) | 3 (0.050) | 3/256 | 5.8 | 3.1% | coding (522/825 nt) | bax | putative glycoside hydrolase Bax |
| ? | NC_000913 | = 3736652 | 96 (1.510) | coding (526/825 nt) | bax | putative glycoside hydrolase Bax | |||||
| * | ? | NC_000913 | = 4541791 | 87 (1.270) | 3 (0.040) | 3/270 | 6.0 | 3.4% | intergenic (+232/‑246) | fimB/fimE | regulator for fimA/regulator for fimA |
| ? | NC_000913 | 4541795 = | 84 (1.260) | intergenic (+236/‑242) | fimB/fimE | regulator for fimA/regulator for fimA | |||||