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 | 3,765,413 | 0 | G | C | 37.4% | 161.2 / 142.8 | 107 | A1077A (GCG→GCC) | rhsA | rhs element protein RhsA |
| * | NC_000913 | 4,101,507 | 0 | T | G | 35.3% | 80.7 / 10.4 | 51 | intergenic (+77/‑183) | sodA/kdgT | superoxide dismutase (Mn)/2‑dehydro‑3‑deoxy‑D‑gluconate:H(+) symporter |
| * | NC_000913 | 4,604,344 | 0 | C | T | 32.8% | 91.4 / 28.3 | 61 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 2,326,450 | 0 | T | G | 32.6% | 58.8 / 30.8 | 43 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 4,296,060 | 0 | C | T | 31.6% | 108.6 / 61.8 | 76 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 29,496 | 0 | T | A | 31.1% | 81.9 / 19.9 | 45 | intergenic (+301/‑155) | dapB/carA | 4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl phosphate synthetase subunit alpha |
| * | NC_000913 | 2,001,918 | 0 | A | C | 28.9% | 88.5 / 14.8 | 45 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 753,125 | 0 | T | A | 28.8% | 107.3 / 16.0 | 52 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 4,101,514 | 0 | G | T | 28.6% | 113.0 / 19.9 | 49 | intergenic (+84/‑176) | sodA/kdgT | superoxide dismutase (Mn)/2‑dehydro‑3‑deoxy‑D‑gluconate:H(+) symporter |
| * | NC_000913 | 650,809 | 0 | T | G | 26.3% | 71.7 / 10.7 | 38 | T350P (ACC→CCC) | citC | citrate lyase synthetase |
| * | NC_000913 | 501,564 | 0 | A | C | 25.7% | 69.5 / 14.3 | 35 | *559E (TAA→GAA) | ybaL | putative transporter YbaL |
| * | NC_000913 | 3,404,215 | 0 | T | G | 23.6% | 119.5 / 15.1 | 55 | G244G (GGT→GGG) | yhdH | acrylyl‑CoA reductase |
| * | NC_000913 | 4,111,747 | 0 | G | T | 22.9% | 89.9 / 12.6 | 35 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 4,287,719 | 0 | T | A | 21.7% | 144.7 / 15.7 | 60 | intergenic (‑348/‑45) | acs/nrfA | acetyl‑CoA synthetase (AMP‑forming)/cytochrome c552 nitrite reductase |
| * | NC_000913 | 3,240,985 | 0 | T | G | 20.7% | 136.0 / 12.2 | 58 | S348A (TCT→GCT) | sstT | serine/threonine:Na(+) symporter |
| 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 = | 61 (0.890) | 15 (0.230) | 13/260 | 3.1 | 18.3% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 77 (1.210) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 4129028 | 76 (1.190) | 17 (0.260) +TTGT |
4/252 | 6.0 | 17.9% | coding (357/1161 nt) | metB | O‑succinylhomoserine(thiol)‑lyase/O‑ succinylhomoserine lyase |
| ? | NC_000913 | 4129029 = | 79 (1.160) | coding (358/1161 nt) | metB | O‑succinylhomoserine(thiol)‑lyase/O‑ succinylhomoserine lyase | |||||
| * | ? | NC_000913 | 3484544 = | 71 (1.040) | 6 (0.090) | 4/258 | 6.1 | 8.1% | coding (55/870 nt) | prkB | putative phosphoribulokinase |
| ? | NC_000913 | = 3484540 | 71 (1.120) | coding (51/870 nt) | prkB | putative phosphoribulokinase | |||||
| * | ? | NC_000913 | 3020896 = | 80 (1.170) | 3 (0.050) | 3/258 | 6.6 | 4.0% | coding (357/780 nt) | ygfM | putative oxidoreductase |
| ? | NC_000913 | 3021300 = | 69 (1.090) | coding (761/780 nt) | ygfM | putative oxidoreductase | |||||
| * | ? | NC_000913 | = 3911415 | 70 (1.030) | 4 (0.060) | 3/270 | 6.8 | 4.4% | coding (111/1041 nt) | pstS | phosphate ABC transporter periplasmic binding protein |
| ? | NC_000913 | = 3911498 | 105 (1.580) | coding (28/1041 nt) | pstS | phosphate ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | = 2829519 | 72 (1.060) | 3 (0.040) +GCT |
3/270 | 6.8 | 4.1% | coding (473/774 nt) | srlR | DNA‑binding transcriptional repressor SrlR |
| ? | NC_000913 | 2829520 = | 72 (1.050) | coding (474/774 nt) | srlR | DNA‑binding transcriptional repressor SrlR | |||||