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 | 4,027,436 | 0 | T | G | 64.0% | 9.8 / 20.7 | 25 | intergenic (+208/+173) | fre/fadA | flavin reductase/3‑ketoacyl‑CoA thiolase |
| * | NC_000913 | 4,604,344 | 0 | C | T | 54.7% | 1.5 / 61.5 | 53 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 29,496 | 0 | T | A | 39.0% | 57.0 / 25.6 | 41 | intergenic (+301/‑155) | dapB/carA | 4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl phosphate synthetase subunit alpha |
| * | NC_000913 | 3,206,435 | 0 | C | T | 34.2% | 49.4 / 23.8 | 41 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 753,125 | 0 | T | A | 26.8% | 133.5 / 14.8 | 56 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 4,429,984 | 0 | T | G | 26.3% | 115.0 / 13.7 | 57 | L41V (TTG→GTG) | cycA | serine/alanine/glycine/cycloserine:H(+)symporter |
| * | NC_000913 | 4,098,155 | 0 | A | C | 26.2% | 148.2 / 11.4 | 80 | L140F (TTA→TTC) | rhaS | DNA‑binding transcriptional activator RhaS |
| * | NC_000913 | 4,101,514 | 0 | G | T | 26.1% | 113.0 / 18.1 | 46 | intergenic (+84/‑176) | sodA/kdgT | superoxide dismutase (Mn)/2‑dehydro‑3‑deoxy‑D‑gluconate:H(+) symporter |
| * | NC_000913 | 3,401,459 | 0 | T | C | 24.6% | 109.4 / 10.2 | 61 | D625G (GAT→GGT) | csrD | regulator of CsrB and CsrC decay |
| * | NC_000913 | 2,326,450 | 0 | T | G | 24.5% | 95.0 / 18.1 | 49 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 4,111,747 | 0 | G | T | 24.4% | 119.5 / 13.4 | 45 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 4,161,148 | 0 | G | A | 24.3% | 145.2 / 14.7 | 70 | E28K (GAA→AAA) | fabR | DNA‑binding transcriptional repressor FabR |
| * | NC_000913 | 4,568,512 | 0 | C | A | 24.1% | 157.1 / 17.4 | 58 | R3L (CGT→CTT) | mdtM | multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| * | NC_000913 | 4,296,060 | 0 | C | T | 21.0% | 172.3 / 38.1 | 81 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 2,664,896 | 0 | T | G | 20.6% | 155.4 / 16.4 | 68 | G169G (GGT→GGG) | yfhR | putative peptidase |
| 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 = | 63 (0.910) | 14 (0.220) | 13/258 | 3.0 | 17.7% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 71 (1.100) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 4542690 | 57 (0.820) | 7 (0.110) | 7/258 | 4.6 | 10.2% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 70 (1.080) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 1239418 | 50 (0.720) | 4 (0.060) | 3/256 | 6.3 | 6.2% | coding (540/1071 nt) | dadX | alanine racemase 2 |
| ? | NC_000913 | 3775495 = | 75 (1.170) | coding (1072/1149 nt) | mtlD | mannitol‑1‑phosphate 5‑dehydrogenase | |||||
| * | ? | NC_000913 | = 1451450 | 82 (1.180) | 3 (0.040) | 3/266 | 6.5 | 3.7% | intergenic (‑101/+147) | tynA/paaZ | copper‑containing amine oxidase/oxepin‑CoA hydrolase/3‑oxo‑5,6‑dehydrosuberyl‑CoA semialdehyde dehydrogenase |
| ? | NC_000913 | 1451457 = | 77 (1.150) | intergenic (‑108/+140) | tynA/paaZ | copper‑containing amine oxidase/oxepin‑CoA hydrolase/3‑oxo‑5,6‑dehydrosuberyl‑CoA semialdehyde dehydrogenase | |||||