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 | 4,604,344 | 0 | C | T | 42.5% | 79.2 / 58.6 | 87 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 3,013,361 | 0 | T | C | 38.9% | 60.4 / 104.5 | 90 | K293K (AAA→AAG) | yqeB | XdhC‑CoxI family protein YqeB |
| * | NC_000913 | 3,556,205 | 0 | A | C | 38.1% | 59.2 / 15.9 | 42 | S215R (AGT→AGG) ‡ | rtcA | RNA 3'‑terminal phosphate cyclase |
| * | NC_000913 | 3,556,207 | 0 | T | C | 35.7% | 57.9 / 15.5 | 42 | S215G (AGT→GGT) ‡ | rtcA | RNA 3'‑terminal phosphate cyclase |
| * | NC_000913 | 753,125 | 0 | T | A | 32.6% | 87.3 / 20.5 | 46 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 4,111,747 | 0 | G | T | 27.5% | 134.3 / 22.8 | 51 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 4,287,719 | 0 | T | A | 26.9% | 159.4 / 31.2 | 78 | intergenic (‑348/‑45) | acs/nrfA | acetyl‑CoA synthetase (AMP‑forming)/cytochrome c552 nitrite reductase |
| * | NC_000913 | 3,404,218 | 0 | T | G | 26.5% | 100.2 / 10.9 | 49 | G245G (GGT→GGG) | yhdH | acrylyl‑CoA reductase |
| * | NC_000913 | 753,105 | 0 | A | T | 26.0% | 121.5 / 10.0 | 50 | intergenic (‑310/+80) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 3,206,435 | 0 | C | T | 24.4% | 88.7 / 16.6 | 45 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 2,168,966 | 0 | A | C | 24.2% | 124.6 / 11.2 | 62 | I85I (ATA→ATC) | yegS | lipid kinase |
| * | NC_000913 | 2,326,450 | 0 | T | G | 22.9% | 103.7 / 14.6 | 48 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 3,404,215 | 0 | T | G | 22.9% | 99.8 / 12.8 | 48 | G244G (GGT→GGG) | yhdH | acrylyl‑CoA reductase |
| * | NC_000913 | 646,747 | 0 | T | G | 22.7% | 98.0 / 10.4 | 44 | T255P (ACC→CCC) | citG | triphosphoribosyl‑dephospho‑CoA synthase |
| * | NC_000913 | 1,201,267 | 0 | G | C | 22.5% | 176.8 / 50.5 | 71 | H38Q (CAC→CAG) | ymfH | e14 prophage; protein YmfH |
| * | NC_000913 | 4,098,155 | 0 | A | C | 21.8% | 282.9 / 16.7 | 124 | L140F (TTA→TTC) | rhaS | DNA‑binding transcriptional activator RhaS |
| * | NC_000913 | 4,287,716 | 0 | C | A | 20.2% | 201.4 / 12.6 | 79 | intergenic (‑345/‑48) | acs/nrfA | acetyl‑CoA synthetase (AMP‑forming)/cytochrome c552 nitrite 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 | 380016 = | 140 (1.670) | 8 (0.100) | 8/262 | 4.1 | 5.6% | intergenic (‑135/+53) | frmR/yaiO | DNA‑binding transcriptional repressor FrmR/outer membrane protein YaiO |
| ? | NC_000913 | = 380012 | 139 (1.750) | intergenic (‑131/+57) | frmR/yaiO | DNA‑binding transcriptional repressor FrmR/outer membrane protein YaiO | |||||
| * | ? | NC_000913 | 4542682 = | 83 (0.990) | 5 (0.060) | 5/258 | 5.0 | 6.1% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 77 (0.990) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 4542690 | 70 (0.840) | 4 (0.050) | 4/258 | 5.4 | 5.4% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 76 (0.970) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 374922 = | NA (NA) | 10 (0.130) | 4/260 | 5.4 | NA | intergenic (+41/‑537) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377329 = | NA (NA) | intergenic (+18/+206) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | = 3854974 | 72 (0.860) | 3 (0.040) | 3/262 | 5.8 | 2.9% | coding (1053/1185 nt) | emrD | multidrug efflux pump EmrD |
| ? | NC_000913 | = 3858811 | 136 (1.710) | coding (1306/1716 nt) | yidK | putative transporter YidK | |||||