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 | 753,125 | 0 | T | A | 40.4% | 64.5 / 27.3 | 47 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 4,604,344 | 0 | C | T | 38.1% | 55.7 / 40.8 | 63 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 2,628,625 | 0 | A | C | 33.3% | 66.5 / 12.6 | 39 | V105G (GTC→GGC) | pdeF | cyclic di‑GMP phosphodiesterase PdeF |
| * | NC_000913 | 4,101,514 | 0 | G | T | 32.4% | 66.3 / 17.3 | 34 | intergenic (+84/‑176) | sodA/kdgT | superoxide dismutase (Mn)/2‑dehydro‑3‑deoxy‑D‑gluconate:H(+) symporter |
| * | NC_000913 | 4,111,747 | 0 | G | T | 31.2% | 73.5 / 15.9 | 32 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 650,809 | 0 | T | G | 30.4% | 83.0 / 15.0 | 47 | T350P (ACC→CCC) | citC | citrate lyase synthetase |
| * | NC_000913 | 1,679,688 | 0 | T | G | 28.9% | 84.5 / 10.1 | 45 | G44G (GGT→GGG) | ydgI | putative arginine:ornithine antiporter |
| * | NC_000913 | 4,287,719 | 0 | T | A | 28.6% | 101.6 / 27.3 | 56 | intergenic (‑348/‑45) | acs/nrfA | acetyl‑CoA synthetase (AMP‑forming)/cytochrome c552 nitrite reductase |
| * | NC_000913 | 445,558 | 0 | A | C | 27.6% | 44.6 / 14.0 | 29 | V370G (GTA→GGA) | yajR | putative major facilitator superfamily transport protein YajR |
| * | NC_000913 | 2,831,179 | 0 | A | C | 25.5% | 98.0 / 10.3 | 47 | Y371D (TAT→GAT) | norR | DNA‑binding transcriptional dual regulator NorR |
| * | NC_000913 | 3,135,775 | 0 | C | T | 25.0% | 101.7 / 12.9 | 56 | K199K (AAG→AAA) | pitB | metal phosphate:H(+) symporter PitB |
| * | NC_000913 | 4,296,060 | 0 | C | T | 24.1% | 105.3 / 32.0 | 58 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 3,404,218 | 0 | T | G | 22.9% | 112.4 / 10.2 | 48 | G245G (GGT→GGG) | yhdH | acrylyl‑CoA reductase |
| * | NC_000913 | 2,326,450 | 0 | T | G | 21.7% | 106.2 / 14.2 | 46 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 3,404,215 | 0 | T | G | 20.0% | 120.6 / 10.2 | 50 | G244G (GGT→GGG) | yhdH | acrylyl‑CoA reductase |
| 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 | 69 (1.030) | 12 (0.200) | 11/242 | 3.6 | 16.3% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 62 (1.040) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 4542690 | 55 (0.820) | 4 (0.060) | 4/256 | 6.3 | 6.7% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 60 (0.960) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 1209618 | 62 (0.920) | 3 (0.050) | 3/244 | 6.6 | 4.9% | pseudogene (38/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment |
| ? | NC_000913 | 2471897 = | 61 (1.020) | pseudogene (166/519 nt) | yfdL | CPS‑53 (KpLE1) prophage; putative uncharacterized protein YfdL | |||||
| * | ? | NC_000913 | 1030924 = | 84 (1.250) | 3 (0.050) | 3/270 | 7.0 | 3.5% | coding (495/660 nt) | yccA | modulator of FtsH protease |
| ? | NC_000913 | = 1031053 | 81 (1.220) | coding (366/660 nt) | yccA | modulator of FtsH protease | |||||