mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.39.0
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 | 2,304,540 | 0 | C | T | 70.0% | 4.2 / 12.0 | 20 | intergenic (+147/+568) | eco/mqo | serine protease inhibitor ecotin/malate:quinone oxidoreductase |
| * | NC_000913 | 4,040,623 | 0 | G | A | 62.9% | 38.7 / 57.7 | 63 | noncoding (107/120 nt) | rrfA | 5S ribosomal RNA |
| * | NC_000913 | 2,304,575 | 0 | G | A | 47.1% | 4.4 / 12.2 | 17 | intergenic (+182/+533) | eco/mqo | serine protease inhibitor ecotin/malate:quinone oxidoreductase |
| * | NC_000913 | 4,166,856 | 0 | G | A | 47.1% | 1.8 / 15.9 | 17 | noncoding (198/1542 nt) | rrsB | 16S ribosomal RNA |
| * | NC_000913 | 2,304,567 | 0 | C | T | 44.4% | 5.7 / 15.1 | 18 | intergenic (+174/+541) | eco/mqo | serine protease inhibitor ecotin/malate:quinone oxidoreductase |
| * | NC_000913 | 1,860,667 | 0 | A | C | 35.1% | 36.5 / 12.9 | 38 | G222G (GGT→GGG) | ydjL | putative zinc‑binding dehydrogenase YdjL |
| * | NC_000913 | 4,296,268 | 0 | T | C | 33.3% | 33.1 / 36.4 | 40 | intergenic (+474/+168) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 1,764,774 | 0 | G | A | 30.6% | 64.0 / 10.6 | 36 | noncoding (7/68 nt) | rydB | small regulatory RNA RydB |
| * | NC_000913 | 3,206,435 | 0 | C | T | 29.7% | 59.0 / 15.4 | 37 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 4,275,957 | 0 | A | G | 28.9% | 61.2 / 11.0 | 38 | S163G (AGT→GGT) | pdeC | c‑di‑GMP phosphodiesterase PdeC |
| * | NC_000913 | 640,880 | 0 | T | G | 28.2% | 128.9 / 11.2 | 78 | G376G (GGT→GGG) | ahpF | alkyl hydroperoxide reductase, AhpF component |
| * | NC_000913 | 4,287,710 | 0 | G | A | 26.2% | 73.0 / 11.8 | 42 | intergenic (+43/‑54) | ytcB/nrfA | protein YtcB/cytochrome c552 nitrite reductase |
| * | NC_000913 | 4,301,636 | 0 | A | C | 26.0% | 108.9 / 43.3 | 73 | D481E (GAT→GAG) | mdtO | putative multidrug efflux pump subunit MdtO |
| * | NC_000913 | 3,760,384 | 0 | A | C | 25.6% | 108.4 / 15.4 | 89 | V289G (GTG→GGG) | selA | selenocysteine synthase |
| * | NC_000913 | 4,336,901 | 0 | T | A | 23.9% | 85.3 / 12.6 | 46 | Y44F (TAT→TTT) | adiC | arginine:agmatine antiporter |
| * | NC_000913 | 3,486,386 | 0 | G | A | 21.1% | 98.9 / 10.8 | 52 | A89A (GCG→GCA) | crp | DNA‑binding transcriptional dual regulator CRP |
| * | NC_000913 | 2,351,799 | 0 | C | T | 20.8% | 98.3 / 16.8 | 49 | M192I (ATG→ATA) | glpT | sn‑glycerol 3‑phosphate:phosphate antiporter |
| 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 | = 4542690 | 19 (0.330) | 6 (0.110) | 6/472 | 3.4 | 19.9% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 30 (0.540) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 4542682 = | 16 (0.280) | 5 (0.090) | 5/472 | 3.7 | 17.7% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 31 (0.550) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||