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 26 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,280,704 | 0 | A | C | 62.1% | 3.5 / 27.3 | 29 | T25P (ACC→CCC) | radD | putative DNA repair helicase RadD |
| * | NC_000913 | 4,296,060 | 0 | C | T | 50.0% | 2.2 / 119.1 | 80 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 1,374,038 | 0 | T | C | 42.9% | 7.3 / 21.2 | 21 | F273L (TTC→CTC) ‡ | ycjO | putative ABC transporter membrane subunit YcjO |
| * | NC_000913 | 1,374,034 | 0 | G | . | 42.1% | 28.1 / 32.2 | 19 | coding (813/882 nt) | ycjO | putative ABC transporter membrane subunit YcjO |
| * | NC_000913 | 4,414,906 | 0 | T | G | 40.9% | 13.0 / 23.7 | 22 | V211G (GTG→GGG) | aidB | putative acyl‑CoA dehydrogenase AidB |
| * | NC_000913 | 395,288 | 0 | A | T | 40.6% | 26.1 / 44.7 | 32 | F334I (TTC→ATC) | ampH | peptidoglycan DD‑carboxypeptidase/peptidoglycan DD‑endopeptidase |
| * | NC_000913 | 1,374,036 | 0 | T | G | 40.0% | 11.2 / 20.6 | 20 | L272R (CTC→CGC) | ycjO | putative ABC transporter membrane subunit YcjO |
| * | NC_000913 | 2,349,621 | 0 | A | C | 40.0% | 15.9 / 29.7 | 25 | intergenic (‑149/‑66) | inaA/yfaH | putative lipopolysaccharide kinase InaA/putative uncharacterized protein YfaH |
| * | NC_000913 | 395,291 | 0 | C | G | 39.4% | 24.3 / 44.9 | 33 | G333R (GGT→CGT) | ampH | peptidoglycan DD‑carboxypeptidase/peptidoglycan DD‑endopeptidase |
| * | NC_000913 | 395,294 | 0 | C | G | 36.4% | 27.0 / 41.6 | 33 | G332R (GGC→CGC) | ampH | peptidoglycan DD‑carboxypeptidase/peptidoglycan DD‑endopeptidase |
| * | NC_000913 | 4,021,824 | 0 | T | G | 34.8% | 26.4 / 16.1 | 23 | G533G (GGT→GGG) | ubiB | ubiquinone biosynthesis protein UbiB |
| * | NC_000913 | 1,374,039 | 0 | T | G | 33.3% | 36.5 / 22.6 | 27 | F273C (TTC→TGC) ‡ | ycjO | putative ABC transporter membrane subunit YcjO |
| * | NC_000913 | 794,976 | 0 | T | C | 32.4% | 48.6 / 12.2 | 34 | intergenic (+54/‑113) | acrZ/modA | multidrug efflux pump accessory protein AcrZ/molybdate ABC transporter periplasmic binding protein |
| * | NC_000913 | 1,374,040 | 0 | C | T | 32.1% | 24.9 / 22.7 | 28 | F273F (TTC→TTT) ‡ | ycjO | putative ABC transporter membrane subunit YcjO |
| * | NC_000913 | 2,814,896 | 0 | T | C | 31.0% | 34.2 / 10.6 | 29 | E515G (GAA→GGA) | gshA | glutamate‑‑cysteine ligase |
| * | NC_000913 | 3,812,386 | 0 | C | A | 28.6% | 25.1 / 17.6 | 28 | L58F (TTG→TTT) | yicR | RadC‑like JAB domain‑containing protein YicR |
| * | NC_000913 | 2,794,787 | 0 | C | T | 27.8% | 39.3 / 19.3 | 36 | P179S (CCG→TCG) | gabP | 4‑aminobutyrate:H(+) symporter |
| * | NC_000913 | 3,697,740 | 0 | T | G | 27.0% | 72.9 / 16.5 | 37 | V428G (GTG→GGG) | bcsE | c‑di‑GMP‑binding protein BcsE |
| * | NC_000913 | 3,563,481 | 0 | T | G | 25.0% | 46.2 / 12.0 | 24 | V490G (GTG→GGG) | glpD | aerobic glycerol 3‑phosphate dehydrogenase |
| * | NC_000913 | 1,222,206 | 0 | C | A | 22.2% | 69.0 / 10.9 | 27 | pseudogene (2606/2648 nt) | ycgH | putative transporter component, N‑terminal fragment |
| 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 | 52 (1.090) | 10 (0.280) | 8/96 | 1.2 | 18.5% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 49 (1.370) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||