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 | 83,430 | 0 | C | G | 57.1% | 21.1 / 64.0 | 42 | A34P (GCC→CCC) | leuA | 2‑isopropylmalate synthase |
| * | NC_000913 | 501,575 | 0 | A | C | 50.0% | 5.8 / 10.3 | 18 | V555G (GTG→GGG) | ybaL | putative transporter YbaL |
| * | NC_000913 | 4,604,344 | 0 | C | T | 43.9% | 48.2 / 38.4 | 57 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 888,014 | 0 | T | G | 40.6% | 41.3 / 12.5 | 32 | noncoding (44/81 nt) | rybB | small regulatory RNA RybB |
| * | NC_000913 | 501,564 | 0 | A | C | 36.4% | 25.2 / 11.6 | 22 | *559E (TAA→GAA) | ybaL | putative transporter YbaL |
| * | NC_000913 | 29,496 | 0 | T | A | 34.6% | 43.5 / 11.2 | 26 | intergenic (+301/‑155) | dapB/carA | 4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl phosphate synthetase subunit alpha |
| * | NC_000913 | 646,747 | 0 | T | G | 32.1% | 43.6 / 11.2 | 28 | T255P (ACC→CCC) | citG | triphosphoribosyl‑dephospho‑CoA synthase |
| * | NC_000913 | 2,168,966 | 0 | A | C | 30.9% | 100.8 / 17.4 | 55 | I85I (ATA→ATC) | yegS | lipid kinase |
| * | NC_000913 | 4,296,060 | 0 | C | T | 30.0% | 73.4 / 37.5 | 50 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 3,240,985 | 0 | T | G | 29.5% | 82.2 / 10.7 | 44 | S348A (TCT→GCT) | sstT | serine/threonine:Na(+) symporter |
| * | NC_000913 | 369,336 | 0 | A | G | 27.8% | 107.7 / 50.7 | 72 | E242E (GAA→GAG) | mhpA | putative 3‑(3‑hydroxyphenyl)propanoate/3‑hydroxycinnamate hydroxylase |
| * | NC_000913 | 4,287,719 | 0 | T | A | 27.7% | 99.5 / 17.1 | 47 | intergenic (‑348/‑45) | acs/nrfA | acetyl‑CoA synthetase (AMP‑forming)/cytochrome c552 nitrite reductase |
| * | NC_000913 | 1,679,688 | 0 | T | G | 25.9% | 119.7 / 14.8 | 58 | G44G (GGT→GGG) | ydgI | putative arginine:ornithine antiporter |
| * | NC_000913 | 4,161,148 | 0 | G | A | 21.2% | 173.4 / 15.2 | 80 | E28K (GAA→AAA) | fabR | DNA‑binding transcriptional repressor FabR |
| 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 | 54 (0.990) | 13 (0.270) | 11/242 | 2.4 | 19.3% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 61 (1.260) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 1207790 = | 54 (0.990) | 10 (0.210) | 10/242 | 2.6 | 15.5% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 61 (1.260) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 4542690 | 30 (0.550) | 8 (0.160) | 8/256 | 3.2 | 20.2% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 35 (0.680) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 3354485 | 47 (0.860) | 3 (0.060) | 3/272 | 5.2 | 6.0% | intergenic (‑435/‑240) | yhcC/gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| ? | NC_000913 | 3354489 = | 47 (0.860) | intergenic (‑439/‑236) | yhcC/gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB | |||||