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 | 43.1% | 49.7 / 33.9 | 51 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 2,001,918 | 0 | A | C | 31.7% | 60.9 / 14.0 | 42 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 753,125 | 0 | T | A | 30.9% | 83.0 / 20.1 | 42 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 3,206,435 | 0 | C | T | 29.0% | 48.2 / 14.8 | 31 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 4,568,504 | 0 | T | G | 29.0% | 113.3 / 13.3 | 71 | T6P (ACC→CCC) | mdtM | multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| * | NC_000913 | 4,296,060 | 0 | C | T | 28.7% | 141.1 / 57.8 | 80 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 372,640 | 0 | T | G | 24.7% | 177.1 / 25.9 | 93 | L176V (TTA→GTA) | mhpD | 2‑hydroxypentadienoate hydratase |
| * | NC_000913 | 1,577,123 | 0 | A | C | 21.9% | 141.0 / 17.2 | 73 | V166G (GTA→GGA) | yddB | putative TonB‑dependent receptor |
| * | NC_000913 | 4,101,514 | 0 | G | T | 21.8% | 150.4 / 13.2 | 55 | intergenic (+84/‑176) | sodA/kdgT | superoxide dismutase (Mn)/2‑dehydro‑3‑deoxy‑D‑gluconate:H(+) symporter |
| * | NC_000913 | 29,496 | 0 | T | A | 21.6% | 92.0 / 11.0 | 37 | intergenic (+301/‑155) | dapB/carA | 4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl phosphate synthetase subunit alpha |
| * | NC_000913 | 753,105 | 0 | A | T | 21.3% | 119.2 / 15.2 | 47 | intergenic (‑310/+80) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 445,558 | 0 | A | C | 20.7% | 114.6 / 22.8 | 58 | V370G (GTA→GGA) | yajR | putative major facilitator superfamily transport protein YajR |
| * | NC_000913 | 650,809 | 0 | T | G | 20.4% | 205.9 / 13.9 | 93 | T350P (ACC→CCC) | citC | citrate lyase synthetase |
| * | NC_000913 | 2,326,450 | 0 | T | G | 20.4% | 97.4 / 18.3 | 49 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| 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 | = 407171 | 146 (1.990) | 4 (0.050) | 4/274 | 6.6 | 2.7% | intergenic (+1/‑257) | yaiA/aroM | protein YaiA/protein AroM |
| ? | NC_000913 | 407175 = | 143 (1.960) | intergenic (+5/‑253) | yaiA/aroM | protein YaiA/protein AroM | |||||
| * | ? | NC_000913 | 3484544 = | 86 (1.170) | 3 (0.040) | 3/256 | 6.8 | 3.6% | coding (55/870 nt) | prkB | putative phosphoribulokinase |
| ? | NC_000913 | = 3484540 | 81 (1.190) | coding (51/870 nt) | prkB | putative phosphoribulokinase | |||||
| * | ? | NC_000913 | = 1362264 | 78 (1.100) | 4 (0.060) +ACC |
3/260 | 6.9 | 4.8% | coding (354/558 nt) | puuR | DNA‑binding transcriptional repressor PuuR |
| ? | NC_000913 | 1362265 = | 83 (1.130) | coding (355/558 nt) | puuR | DNA‑binding transcriptional repressor PuuR | |||||
| * | ? | NC_000913 | = 3063678 | 115 (1.570) | 3 (0.040) | 3/274 | 7.1 | 2.9% | coding (692/996 nt) | argK | methylmalonyl‑CoA mutase‑interacting GTPase YgfD |
| ? | NC_000913 | = 3064189 | 86 (1.180) | coding (197/786 nt) | scpB | methylmalonyl‑CoA decarboxylase | |||||
| * | ? | NC_000913 | = 2343368 | 71 (0.970) | 3 (0.040) | 3/274 | 7.1 | 4.9% | coding (802/3753 nt) | yfaL | putative autotransporter adhesin YfaL |
| ? | NC_000913 | 2345581 = | 46 (0.630) | coding (717/2286 nt) | nrdA | ribonucleoside‑diphosphate reductase 1 subunit alpha | |||||
| * | ? | NC_000913 | 2191795 = | 67 (0.910) | 4 (0.050) | 3/274 | 7.1 | 4.6% | coding (428/543 nt) | yehD | putative fimbrial protein YehD |
| ? | NC_000913 | = 2191967 | 98 (1.350) | coding (256/543 nt) | yehD | putative fimbrial protein YehD | |||||
| * | ? | NC_000913 | 803344 = | 101 (1.380) | 4 (0.050) | 3/274 | 7.1 | 4.9% | intergenic (+24/‑159) | ybhI/ybhJ | putative tricarboxylate transporter/putative hydratase YbhJ |
| ? | NC_000913 | = 803485 | 56 (0.770) | intergenic (+165/‑18) | ybhI/ybhJ | putative tricarboxylate transporter/putative hydratase YbhJ | |||||