mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.29.0 revision 8f9c342918e4
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 388 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,903,692 | 0 | C | A | 50.0% | 67.3 / 44.3 | 64 | intergenic (+318/+1055) | ygcE/queE | putative kinase/7‑carboxy‑7‑deazaguanine synthase; queosine biosynthesis |
| * | NC_000913 | 4,287,719 | 0 | T | A | 48.0% | 74.4 / 58.5 | 77 | intergenic (‑348/‑45) | acs/nrfA | acetyl‑CoA synthetase/nitrite reductase, formate‑dependent, cytochrome |
| * | NC_000913 | 2,386,862 | 0 | G | A | 47.1% | 32.8 / 52.4 | 51 | intergenic (+31/‑72) | yfbL/yfbM | putative M28A family peptidase/DUF1877 family protein |
| * | NC_000913 | 1,506,038 | 0 | A | C | 45.8% | 89.9 / 10.2 | 59 | F15V (TTT→GTT) | ydcO | BenE family inner membrane putative transporter |
| * | NC_000913 | 3,578,301 | 0 | A | C | 45.5% | 96.4 / 10.4 | 57 | G142G (GGT→GGG) | gntR | d‑gluconate inducible gluconate regulon transcriptional repressor |
| * | NC_000913 | 3,133,302 | 0 | T | G | 45.3% | 94.2 / 10.4 | 65 | H219P (CAC→CCC) | yghS | putative ATP‑binding protein |
| * | NC_000913 | 3,206,435 | 0 | C | T | 44.9% | 66.9 / 47.2 | 69 | intergenic (‑179/‑28) | ttdR/ttdA | transcriptional activator of ttdABT/L‑tartrate dehydratase, alpha subunit |
| * | NC_000913 | 1,376,505 | 0 | A | C | 44.8% | 98.0 / 12.7 | 58 | T158P (ACC→CCC) | ycjR | putative TIM alpha/beta barrel enzyme |
| * | NC_000913 | 4,538,109 | 0 | A | C | 44.4% | 96.2 / 18.5 | 63 | G219G (GGT→GGG) | nanM | N‑acetylneuraminic acid mutarotase |
| * | NC_000913 | 910,914 | 0 | A | G | 43.9% | 77.8 / 11.1 | 57 | S46P (TCC→CCC) | poxB | pyruvate dehydrogenase, thiamine triphosphate‑binding, FAD‑binding |
| * | NC_000913 | 2,903,715 | 0 | G | A | 43.5% | 64.0 / 50.1 | 62 | intergenic (+341/+1032) | ygcE/queE | putative kinase/7‑carboxy‑7‑deazaguanine synthase; queosine biosynthesis |
| * | NC_000913 | 2,903,686 | 0 | G | T | 42.6% | 98.4 / 31.5 | 70 | intergenic (+312/+1061) | ygcE/queE | putative kinase/7‑carboxy‑7‑deazaguanine synthase; queosine biosynthesis |
| * | NC_000913 | 1,097,581 | 0 | A | G | 42.6% | 101.9 / 20.1 | 63 | noncoding (72/88 nt) | serX | tRNA‑Ser |
| * | NC_000913 | 2,343,821 | 0 | C | A | 42.4% | 87.6 / 32.5 | 59 | A117S (GCT→TCT) | yfaL | adhesin |
| * | NC_000913 | 213,341 | 0 | A | G | 41.7% | 99.1 / 17.3 | 60 | G337G (GGA→GGG) | tilS | tRNA(Ile)‑lysidine synthetase |
| * | NC_000913 | 3,862,661 | 0 | T | G | 41.5% | 29.2 / 20.7 | 55 | pseudogene (943/1617 nt) | glvC | pseudogene, arbutin specific enzyme IIC component of PTS;enzyme; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system, arbutin‑like IIB component; PTS system, arbutin‑like IIC component |
| * | NC_000913 | 599,576 | 0 | T | G | 41.0% | 99.5 / 23.9 | 61 | V288G (GTG→GGG) | cusA | copper/silver efflux system, membrane component |
| * | NC_000913 | 3,578,287 | 0 | T | C | 41.0% | 105.8 / 11.7 | 61 | E147G (GAA→GGA) | gntR | d‑gluconate inducible gluconate regulon transcriptional repressor |
| * | NC_000913 | 73,413 | 0 | A | C | 40.4% | 105.4 / 13.2 | 58 | V370G (GTG→GGG) | thiP | thiamine/thiamine pyrophosphate ABC transporter permease |
| * | NC_000913 | 941,713 | 0 | T | G | 40.4% | 84.5 / 22.9 | 57 | V252G (GTG→GGG) | dmsA | dimethyl sulfoxide reductase, anaerobic, subunit A |
| 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 | 925901 = | 45 (0.630) | 10 (0.140) +C |
9/296 | 10.1 | 20.5% | noncoding (71/88 nt) | serW | tRNA‑Ser |
| ? | NC_000913 | = 1097399 | 33 (0.460) | intergenic (+570/+166) | ycdU/serX | putative inner membrane protein/tRNA‑Ser | |||||
| * | ? | NC_000913 | = 4542690 | 80 (1.120) | 6 (0.090) | 6/280 | 11.4 | 7.3% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | = 4542986 | 77 (1.140) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | 4542682 = | 83 (1.160) | 6 (0.090) | 6/280 | 11.4 | 7.2% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | 4542996 = | 77 (1.140) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | 1207790 = | 64 (0.890) | 4 (0.060) | 4/266 | 12.3 | 6.6% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 56 (0.880) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||