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 | 41.8% | 54.2 / 36.0 | 55 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 3,037,531 | 0 | C | A | 40.5% | 47.9 / 42.9 | 42 | V192V (GTG→GTT) | recJ | ssDNA‑specific exonuclease RecJ |
| * | NC_000913 | 2,001,918 | 0 | A | C | 36.8% | 44.8 / 16.5 | 38 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 4,568,504 | 0 | T | G | 35.3% | 71.0 / 11.6 | 52 | T6P (ACC→CCC) | mdtM | multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| * | NC_000913 | 3,740,909 | 0 | T | G | 28.8% | 85.2 / 14.2 | 52 | V402G (GTG→GGG) | avtA | valine‑‑pyruvate aminotransferase |
| * | NC_000913 | 3,401,459 | 0 | T | C | 27.7% | 80.4 / 10.7 | 47 | D625G (GAT→GGT) | csrD | regulator of CsrB and CsrC decay |
| * | NC_000913 | 372,640 | 0 | T | G | 27.1% | 82.3 / 15.5 | 48 | L176V (TTA→GTA) | mhpD | 2‑hydroxypentadienoate hydratase |
| * | NC_000913 | 4,296,060 | 0 | C | T | 24.5% | 93.1 / 26.3 | 49 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| 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 | 50 (0.870) | 10 (0.190) | 10/258 | 3.4 | 19.5% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 36 (0.670) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 4542682 = | 44 (0.770) | 11 (0.200) | 10/258 | 3.4 | 22.0% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 37 (0.690) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 374922 = | NA (NA) | 12 (0.220) | 8/260 | 4.0 | NA | intergenic (+41/‑537) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377329 = | NA (NA) | intergenic (+18/+206) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | 377321 = | NA (NA) | 3 (0.050) | 3/268 | 6.3 | NA | intergenic (+10/+214) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB |
| ? | NC_000913 | = 508817 | NA (NA) | noncoding (2/34 nt) | other | REP48e | |||||
| * | ? | NC_000913 | = 4048388 | 48 (0.840) | 3 (0.050) | 3/276 | 6.4 | 5.3% | coding (1423/2787 nt) | polA | DNA polymerase I |
| ? | NC_000913 | = 4048439 | 60 (1.050) | coding (1474/2787 nt) | polA | DNA polymerase I | |||||
| * | ? | NC_000913 | 2810863 = | 84 (1.460) | 3 (0.050) | 3/276 | 6.4 | 4.8% | coding (94/531 nt) | mprA | DNA‑binding transcriptional repressor MprA |
| ? | NC_000913 | 3827229 = | 35 (0.610) | coding (2020/2082 nt) | recG | ATP‑dependent DNA helicase RecG | |||||
| * | ? | NC_000913 | = 25796 | NA (NA) | 3 (0.050) | 3/274 | 6.4 | NA | noncoding (1/34 nt) | other | REP2b |
| ? | NC_000913 | 377322 = | NA (NA) | intergenic (+11/+213) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||