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 (highest frequency 20 of 24 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 296,504 | 0 | T | G | 54.5% | ‑6.5 / 13.9 | 11 | N198T (AAC→ACC) | intF | CP4‑6 prophage; putative phage integrase |
| * | NC_000913 | 310,934 | 0 | A | C | 47.8% | 16.5 / 13.3 | 23 | F135V (TTC→GTC) | ecpR | DNA‑binding transcriptional dual regulator MatA |
| * | NC_000913 | 1,927,854 | 0 | A | C | 46.2% | 15.9 / 17.3 | 26 | V329G (GTG→GGG) | ptrB | oligopeptidase B |
| * | NC_000913 | 2,349,621 | 0 | A | C | 45.8% | ‑1.9 / 40.0 | 24 | intergenic (‑149/‑66) | inaA/yfaH | putative lipopolysaccharide kinase InaA/putative uncharacterized protein YfaH |
| * | NC_000913 | 2,087,406 | 0 | A | C | 44.4% | 10.9 / 15.9 | 18 | W285G (TGG→GGG) | yeeY | putative DNA‑binding transcriptional regulator YeeY |
| * | NC_000913 | 2,280,704 | 0 | A | C | 44.4% | 9.1 / 12.7 | 18 | T25P (ACC→CCC) | radD | putative DNA repair helicase RadD |
| * | NC_000913 | 794,976 | 0 | T | C | 40.7% | 26.9 / 15.6 | 27 | intergenic (+54/‑113) | acrZ/modA | multidrug efflux pump accessory protein AcrZ/molybdate ABC transporter periplasmic binding protein |
| * | NC_000913 | 752,271 | 0 | A | C | 40.0% | 8.8 / 14.2 | 15 | G175G (GGT→GGG) | ybgD | putative fimbrial protein YbgD |
| * | NC_000913 | 1,825,065 | 0 | A | C | 40.0% | 32.3 / 10.2 | 25 | intergenic (‑128/+75) | ves/spy | HutD family protein Ves/ATP‑independent periplasmic chaperone |
| * | NC_000913 | 3,086,207 | 0 | T | G | 40.0% | 19.6 / 15.5 | 20 | G7G (GGT→GGG) | yqgC | protein YqgC |
| * | NC_000913 | 2,560,039 | 0 | T | G | 35.1% | 64.1 / 12.2 | 37 | G394G (GGT→GGG) | intZ | CPZ‑55 prophage; putative phage integrase IntZ |
| * | NC_000913 | 395,288 | 0 | A | T | 33.3% | 20.4 / 11.7 | 15 | F334I (TTC→ATC) | ampH | peptidoglycan DD‑carboxypeptidase/peptidoglycan DD‑endopeptidase |
| * | NC_000913 | 4,296,060 | 0 | C | T | 31.8% | 80.3 / 52.0 | 63 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 1,374,034 | 0 | G | . | 31.2% | 30.9 / 17.6 | 16 | coding (813/882 nt) | ycjO | putative ABC transporter membrane subunit YcjO |
| * | NC_000913 | 95,903 | 0 | A | C | 30.6% | 61.8 / 13.2 | 36 | K418N (AAA→AAC) | murF | D‑alanyl‑D‑alanine‑adding enzyme |
| * | NC_000913 | 821,440 | 0 | C | T | 28.6% | 50.8 / 17.1 | 35 | F216F (TTC→TTT) | ybhM | Bax1‑I family protein YbhM |
| * | NC_000913 | 3,563,481 | 0 | T | G | 28.6% | 47.5 / 18.3 | 28 | V490G (GTG→GGG) | glpD | aerobic glycerol 3‑phosphate dehydrogenase |
| * | NC_000913 | 151,656 | 0 | T | G | 26.1% | 86.4 / 32.5 | 46 | A192A (GCA→GCC) | yadL | putative fimbrial protein YadL |
| * | NC_000913 | 2,856,645 | 0 | T | G | 25.8% | 60.3 / 11.7 | 31 | K54N (AAA→AAC) | ygbA | protein YgbA |
| * | NC_000913 | 1,374,036 | 0 | T | G | 25.0% | 36.6 / 11.3 | 20 | L272R (CTC→CGC) | ycjO | putative ABC transporter membrane subunit YcjO |
| 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 | 4542682 = | 62 (1.400) | 4 (0.100) | 4/110 | 2.1 | 6.9% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 54 (1.420) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||