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 31 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 514,159 | 0 | T | G | 60.0% | ‑0.6 / 13.9 | 15 | V56G (GTG→GGG) | cueR | DNA‑binding transcriptional dual regulator CueR |
| * | NC_000913 | 2,357,894 | 0 | C | A | 50.0% | ‑3.2 / 12.0 | 12 | pseudogene (79/186 nt) | ypaA | protein YpaA |
| * | NC_000913 | 4,296,060 | 0 | C | T | 44.0% | 35.1 / 99.3 | 75 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 4,021,824 | 0 | T | G | 43.8% | 7.1 / 13.7 | 16 | G533G (GGT→GGG) | ubiB | ubiquinone biosynthesis protein UbiB |
| * | NC_000913 | 2,280,704 | 0 | A | C | 41.4% | 38.1 / 13.1 | 29 | T25P (ACC→CCC) | radD | putative DNA repair helicase RadD |
| * | NC_000913 | 2,318,354 | 0 | A | C | 41.4% | 32.6 / 16.0 | 29 | V508G (GTG→GGG) | rcsC | sensory histidine kinase RcsC |
| * | NC_000913 | 2,223,410 | 0 | T | G | 38.5% | 32.8 / 13.0 | 26 | V409G (GTG→GGG) | dld | D‑lactate dehydrogenase |
| * | NC_000913 | 4,414,906 | 0 | T | G | 37.5% | 24.6 / 19.7 | 24 | V211G (GTG→GGG) | aidB | putative acyl‑CoA dehydrogenase AidB |
| * | NC_000913 | 2,560,039 | 0 | T | G | 37.0% | 27.9 / 13.0 | 27 | G394G (GGT→GGG) | intZ | CPZ‑55 prophage; putative phage integrase IntZ |
| * | NC_000913 | 3,302,928 | 0 | T | G | 35.5% | 47.0 / 13.4 | 31 | V147G (GTG→GGG) | yhbV | putative peptidase YhbV |
| * | NC_000913 | 4,020,316 | 0 | A | C | 35.0% | 24.4 / 11.5 | 20 | T31P (ACC→CCC) | ubiB | ubiquinone biosynthesis protein UbiB |
| * | NC_000913 | 1,517,435 | 0 | C | G | 34.5% | 47.7 / 11.4 | 29 | A16G (GCA→GGA) | ortT | orphan toxin OrtT |
| * | NC_000913 | 4,154,935 | 0 | A | C | 34.1% | 77.5 / 22.0 | 44 | intergenic (‑88/‑66) | argE/argC | acetylornithine deacetylase/N‑acetylglutamylphosphate reductase |
| * | NC_000913 | 1,374,034 | 0 | G | . | 33.3% | 33.6 / 23.1 | 18 | coding (813/882 nt) | ycjO | putative ABC transporter membrane subunit YcjO |
| * | NC_000913 | 395,291 | 0 | C | G | 32.1% | 41.1 / 22.5 | 28 | G333R (GGT→CGT) | ampH | peptidoglycan DD‑carboxypeptidase/peptidoglycan DD‑endopeptidase |
| * | NC_000913 | 821,440 | 0 | C | T | 31.6% | 53.0 / 17.3 | 38 | F216F (TTC→TTT) | ybhM | Bax1‑I family protein YbhM |
| * | NC_000913 | 395,294 | 0 | C | G | 30.8% | 43.4 / 20.0 | 26 | G332R (GGC→CGC) | ampH | peptidoglycan DD‑carboxypeptidase/peptidoglycan DD‑endopeptidase |
| * | NC_000913 | 2,753,266 | 0 | A | C | 30.8% | 41.4 / 12.4 | 26 | H491P (CAC→CCC) | recN | DNA repair protein RecN |
| * | NC_000913 | 3,563,481 | 0 | T | G | 30.6% | 51.4 / 27.2 | 36 | V490G (GTG→GGG) | glpD | aerobic glycerol 3‑phosphate dehydrogenase |
| * | NC_000913 | 310,934 | 0 | A | C | 29.3% | 80.3 / 10.7 | 42 | F135V (TTC→GTC) | ecpR | DNA‑binding transcriptional dual regulator MatA |
| 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 = | 33 (0.750) | 7 (0.180) | 6/116 | 1.8 | 17.2% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 39 (1.020) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||