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 | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 4,604,344 | 0 | C | T | 34.4% | 86.9 / 34.8 | 64 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 3,926,366 | 0 | A | C | 30.4% | 87.2 / 19.6 | 56 | G30G (GGT→GGG) | mioC | flavoprotein MioC |
| * | NC_000913 | 372,640 | 0 | T | G | 27.7% | 82.9 / 15.6 | 47 | L176V (TTA→GTA) | mhpD | 2‑hydroxypentadienoate hydratase |
| * | NC_000913 | 888,014 | 0 | T | G | 27.3% | 76.6 / 10.6 | 44 | noncoding (44/81 nt) | rybB | small regulatory RNA RybB |
| * | NC_000913 | 2,877,664 | 0 | A | G | 27.0% | 60.4 / 10.9 | 37 | intergenic (+46/+905) | iap/cas2 | alkaline phosphatase isozyme conversion protein/CRISPR‑associated endoribonuclease Cas2 |
| * | NC_000913 | 650,809 | 0 | T | G | 26.8% | 181.5 / 32.8 | 97 | T350P (ACC→CCC) | citC | citrate lyase synthetase |
| * | NC_000913 | 4,429,984 | 0 | T | G | 26.5% | 91.0 / 14.7 | 49 | L41V (TTG→GTG) | cycA | serine/alanine/glycine/cycloserine:H(+)symporter |
| * | NC_000913 | 4,287,719 | 0 | T | A | 25.0% | 86.0 / 11.3 | 40 | intergenic (‑348/‑45) | acs/nrfA | acetyl‑CoA synthetase (AMP‑forming)/cytochrome c552 nitrite reductase |
| * | NC_000913 | 29,496 | 0 | T | A | 24.3% | 84.7 / 13.9 | 37 | intergenic (+301/‑155) | dapB/carA | 4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl phosphate synthetase subunit alpha |
| * | NC_000913 | 4,296,060 | 0 | C | T | 22.1% | 184.4 / 45.5 | 86 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| Marginal new junction evidence (lowest skew 10 of 11 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 4542682 = | 61 (0.970) | 8 (0.140) | 7/258 | 4.3 | 11.1% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 71 (1.210) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 4542690 | 58 (0.920) | 7 (0.120) | 6/258 | 4.7 | 10.1% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 71 (1.210) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 2066581 | 7 (0.110) | 4 (0.060) | 4/272 | 5.7 | 36.7% | noncoding (773/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 2102175 = | NA (NA) | noncoding (769/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 274377 | NA (NA) | 4 (0.060) | 4/272 | 5.7 | NA | noncoding (773/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274381 = | NA (NA) | noncoding (769/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 2683552 = | 49 (0.780) | 3 (0.050) | 3/264 | 6.1 | 5.8% | coding (690/1194 nt) | yphH | putative DNA‑binding transcriptional regulator, NAGC‑like |
| ? | NC_000913 | 2683644 = | 50 (0.830) | coding (782/1194 nt) | yphH | putative DNA‑binding transcriptional regulator, NAGC‑like | |||||
| * | ? | NC_000913 | 679919 = | 153 (2.440) | 3 (0.050) | 3/266 | 6.1 | 2.0% | coding (412/708 nt) | ybeU | DUF1266 domain‑containing protein YbeU |
| ? | NC_000913 | = 679915 | 150 (2.480) | coding (408/708 nt) | ybeU | DUF1266 domain‑containing protein YbeU | |||||
| * | ? | NC_000913 | = 3975265 | 90 (1.430) | 3 (0.050) | 3/274 | 6.2 | 3.5% | coding (120/1131 nt) | wecE | dTDP‑4‑dehydro‑6‑deoxy‑D‑glucose transaminase |
| ? | NC_000913 | 3975305 = | 75 (1.200) | coding (160/1131 nt) | wecE | dTDP‑4‑dehydro‑6‑deoxy‑D‑glucose transaminase | |||||
| * | ? | NC_000913 | 2964218 = | 55 (0.880) | 3 (0.050) | 3/268 | 6.2 | 5.5% | intergenic (‑41/+143) | ppdA/thyA | conserved protein PpdA/thymidylate synthase |
| ? | NC_000913 | 2964321 = | 50 (0.820) | intergenic (‑144/+40) | ppdA/thyA | conserved protein PpdA/thymidylate synthase | |||||
| * | ? | NC_000913 | 2066583 = | 7 (0.110) | 3 (0.050) | 3/272 | 6.2 | 30.3% | noncoding (771/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 2102169 | NA (NA) | noncoding (775/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 2066581 | 7 (0.110) | 3 (0.050) | 3/272 | 6.2 | 30.1% | noncoding (773/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 2066585 = | 7 (0.110) | noncoding (769/1195 nt) | IS5 | repeat region | |||||