mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
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 21 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 395,288 | 0 | A | T | 48.0% | 1.0 / 38.8 | 25 | F334I (TTC→ATC) | ampH | peptidoglycan DD‑carboxypeptidase/peptidoglycan DD‑endopeptidase |
| * | NC_000913 | 310,934 | 0 | A | C | 47.6% | 10.0 / 12.0 | 21 | F135V (TTC→GTC) | ecpR | DNA‑binding transcriptional dual regulator MatA |
| * | NC_000913 | 2,280,704 | 0 | A | C | 47.4% | 11.3 / 14.3 | 20 | T25P (ACC→CCC) | radD | putative DNA repair helicase RadD |
| * | NC_000913 | 4,414,906 | 0 | T | G | 47.4% | 5.2 / 20.5 | 19 | V211G (GTG→GGG) | aidB | putative acyl‑CoA dehydrogenase AidB |
| * | NC_000913 | 4,296,060 | 0 | C | T | 42.5% | 31.3 / 90.9 | 73 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 395,291 | 0 | C | G | 38.7% | 15.2 / 39.8 | 31 | G333R (GGT→CGT) | ampH | peptidoglycan DD‑carboxypeptidase/peptidoglycan DD‑endopeptidase |
| * | NC_000913 | 421,152 | 0 | A | . | 37.5% | 55.5 / 34.3 | 24 | coding (167/1374 nt) | proY | putative transporter ProY |
| * | NC_000913 | 2,181,417 | 0 | T | G | 36.8% | 23.7 / 12.2 | 19 | C108G (TGT→GGT) | yegV | putative sugar kinase YegV |
| * | NC_000913 | 421,151 | 0 | T | . | 34.6% | 60.7 / 33.5 | 26 | coding (166/1374 nt) | proY | putative transporter ProY |
| * | NC_000913 | 821,440 | 0 | C | T | 34.6% | 23.6 / 14.4 | 26 | F216F (TTC→TTT) | ybhM | Bax1‑I family protein YbhM |
| * | NC_000913 | 395,294 | 0 | C | G | 33.3% | 29.0 / 29.5 | 30 | G332R (GGC→CGC) | ampH | peptidoglycan DD‑carboxypeptidase/peptidoglycan DD‑endopeptidase |
| * | NC_000913 | 646,261 | 0 | A | C | 33.3% | 22.7 / 10.7 | 18 | V107G (GTA→GGA) | citT | citrate:succinate antiporter |
| * | NC_000913 | 421,147 | 0 | G | . | 32.1% | 59.6 / 35.2 | 28 | coding (162/1374 nt) | proY | putative transporter ProY |
| * | NC_000913 | 421,141 | 0 | T | . | 30.0% | 77.2 / 31.8 | 30 | coding (156/1374 nt) | proY | putative transporter ProY |
| * | NC_000913 | 421,142 | 0 | A | . | 30.0% | 77.2 / 33.3 | 30 | coding (157/1374 nt) | proY | putative transporter ProY |
| * | NC_000913 | 421,148 | 0 | G | . | 30.0% | 66.6 / 34.9 | 30 | coding (163/1374 nt) | proY | putative transporter ProY |
| * | NC_000913 | 1,711,796 | 0 | A | C | 28.6% | 56.8 / 20.9 | 35 | T92P (ACC→CCC) | nth | endonuclease III |
| * | NC_000913 | 2,160,604 | 0 | A | C | 28.0% | 47.8 / 10.5 | 25 | Y740S (TAC→TCC) | mdtC | multidrug efflux pump RND permease subunit MdtC |
| * | NC_000913 | 3,563,481 | 0 | T | G | 27.5% | 66.0 / 30.3 | 40 | V490G (GTG→GGG) | glpD | aerobic glycerol 3‑phosphate dehydrogenase |
| * | NC_000913 | 1,374,034 | 0 | G | . | 26.7% | 32.3 / 12.1 | 15 | coding (813/882 nt) | 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 | 2815753 = | 43 (0.950) | 8 (0.180) | 7/134 | 1.9 | 15.7% | coding (687/1557 nt) | gshA | glutamate‑‑cysteine ligase |
| ? | NC_000913 | 3583428 = | NA (NA) | noncoding (1/768 nt) | IS1 | repeat region | |||||
| * | ? | NC_000913 | 1396044 = | NA (NA) | 12 (0.270) | 7/134 | 1.9 | 18.8% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 1720812 | 52 (1.150) | coding (13/435 nt) | slyA | DNA‑binding transcriptional dual regulator SlyA | |||||
| * | ? | NC_000913 | 4542682 = | 42 (0.930) | 5 (0.130) | 4/116 | 2.5 | 10.3% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 51 (1.310) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 1603798 | 27 (0.600) | 4 (0.090) | 4/134 | 2.8 | 12.9% | coding (780/1029 nt) | lsrC | Autoinducer‑2 ABC transporter membrane subunit LsrC |
| ? | NC_000913 | 1603802 = | 27 (0.600) | coding (784/1029 nt) | lsrC | Autoinducer‑2 ABC transporter membrane subunit LsrC | |||||
| * | ? | NC_000913 | = 258675 | NA (NA) | 4 (0.090) | 3/134 | 3.2 | 4.6% | noncoding (1/768 nt) | IS1 | repeat region |
| ? | NC_000913 | = 294111 | 83 (1.840) | coding (689/855 nt) | yagM | CP4‑6 prophage; protein YagM | |||||