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 | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 4,293,099 | 1 | . | G | 53.7% | 98.1 / 95.9 | 54 | coding (1588/1659 nt) | nrfE | putative cytochrome c‑type biogenesis protein NrfE |
| * | NC_000913 | 225,814 | 0 | A | G | 52.8% | ‑4.7 / 46.9 | 36 | noncoding (56/2904 nt) | rrlH | 23S ribosomal RNA |
| * | NC_000913 | 4,604,344 | 0 | C | T | 46.5% | 28.1 / 34.9 | 43 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 2,001,918 | 0 | A | C | 37.8% | 57.7 / 11.6 | 37 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 753,125 | 0 | T | A | 37.1% | 56.7 / 17.5 | 35 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 4,429,984 | 0 | T | G | 35.3% | 50.2 / 11.2 | 34 | L41V (TTG→GTG) | cycA | serine/alanine/glycine/cycloserine:H(+)symporter |
| * | NC_000913 | 650,809 | 0 | T | G | 33.3% | 73.1 / 14.5 | 45 | T350P (ACC→CCC) | citC | citrate lyase synthetase |
| * | NC_000913 | 753,114 | 0 | G | T | 33.3% | 83.8 / 10.4 | 36 | intergenic (‑319/+71) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 3,206,435 | 0 | C | T | 33.3% | 42.8 / 21.4 | 37 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 4,296,060 | 0 | C | T | 30.8% | 105.1 / 50.3 | 65 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 3,404,218 | 0 | T | G | 28.6% | 100.6 / 13.1 | 49 | G245G (GGT→GGG) | yhdH | acrylyl‑CoA reductase |
| * | NC_000913 | 3,404,215 | 0 | T | G | 27.8% | 114.1 / 13.4 | 54 | G244G (GGT→GGG) | yhdH | acrylyl‑CoA reductase |
| * | NC_000913 | 2,326,450 | 0 | T | G | 27.7% | 83.1 / 26.5 | 47 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 2,863,205 | 0 | G | A | 27.3% | 69.6 / 27.1 | 44 | A291T (GCC→ACC) | ygbK | putative 3‑oxo‑tetronate kinase YgbK |
| * | NC_000913 | 3,401,459 | 0 | T | C | 25.9% | 102.6 / 10.2 | 54 | D625G (GAT→GGT) | csrD | regulator of CsrB and CsrC decay |
| * | NC_000913 | 2,243,904 | 0 | C | T | 22.1% | 160.0 / 39.7 | 77 | intergenic (‑252/‑6) | folE/yeiG | GTP cyclohydrolase 1/S‑formylglutathione hydrolase/S‑lactoylglutathione hydrolase |
| * | NC_000913 | 4,372,037 | 0 | A | G | 20.4% | 107.4 / 26.0 | 54 | E338G (GAA→GGA) | groL | chaperonin GroEL |
| 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 = | 28 (0.430) | 12 (0.200) | 9/258 | 3.6 | 22.8% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 55 (0.910) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 1207805 | 68 (1.050) | 3 (0.050) | 3/244 | 5.5 | 5.3% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 48 (0.840) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||