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 | 3,364,877 | 0 | A | G | 44.2% | 52.9 / 191.4 | 147 | T691A (ACA→GCA) | yhcD | putative fimbrial usher protein YhcD |
| * | NC_000913 | 4,604,344 | 0 | C | T | 42.1% | 38.1 / 20.8 | 38 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 650,809 | 0 | T | G | 35.1% | 51.3 / 13.2 | 37 | T350P (ACC→CCC) | citC | citrate lyase synthetase |
| * | NC_000913 | 753,125 | 0 | T | A | 28.9% | 79.4 / 12.6 | 38 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 4,287,719 | 0 | T | A | 26.1% | 97.3 / 13.5 | 46 | intergenic (‑348/‑45) | acs/nrfA | acetyl‑CoA synthetase (AMP‑forming)/cytochrome c552 nitrite reductase |
| * | NC_000913 | 2,326,450 | 0 | T | G | 25.7% | 70.7 / 12.0 | 35 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 3,740,909 | 0 | T | G | 24.2% | 128.8 / 11.8 | 62 | V402G (GTG→GGG) | avtA | valine‑‑pyruvate aminotransferase |
| * | NC_000913 | 3,492,013 | 1 | . | G | 22.2% | 35.6 / 13.2 | 18 | coding (285/573 nt) | ppiA | peptidyl‑prolyl cis‑trans isomerase A |
| * | NC_000913 | 4,296,060 | 0 | C | T | 20.4% | 118.9 / 23.3 | 54 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 1,269,884 | 0 | C | T | 20.3% | 147.8 / 31.9 | 69 | noncoding (27/66 nt) | rdlB | small regulatory antisense RNA RdlB |
| 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 | = 1207805 | 55 (1.000) | 7 (0.140) | 7/242 | 3.6 | 13.4% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 42 (0.860) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 1207790 = | 59 (1.070) | 7 (0.140) | 7/242 | 3.6 | 13.0% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 42 (0.860) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 4542682 = | 20 (0.360) | 4 (0.080) | 4/256 | 4.9 | 13.4% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 33 (0.640) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||