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 (highest frequency 20 of 23 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 4,604,344 | 0 | C | T | 35.4% | 134.9 / 59.8 | 99 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 445,558 | 0 | A | C | 34.5% | 28.5 / 18.5 | 29 | V370G (GTA→GGA) | yajR | putative major facilitator superfamily transport protein YajR |
| * | NC_000913 | 2,326,450 | 0 | T | G | 33.8% | 83.5 / 51.8 | 71 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 646,747 | 0 | T | G | 33.3% | 49.8 / 26.1 | 42 | T255P (ACC→CCC) | citG | triphosphoribosyl‑dephospho‑CoA synthase |
| * | NC_000913 | 4,568,504 | 0 | T | G | 30.1% | 170.7 / 20.6 | 105 | T6P (ACC→CCC) | mdtM | multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| * | NC_000913 | 4,111,747 | 0 | G | T | 29.7% | 84.1 / 20.2 | 37 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 501,572 | 0 | A | C | 29.5% | 72.7 / 12.2 | 44 | V556G (GTG→GGG) | ybaL | putative transporter YbaL |
| * | NC_000913 | 4,296,060 | 0 | C | T | 28.8% | 204.3 / 83.7 | 111 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 753,125 | 0 | T | A | 28.1% | 129.5 / 26.6 | 64 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 501,564 | 0 | A | C | 27.9% | 62.4 / 24.7 | 43 | *559E (TAA→GAA) | ybaL | putative transporter YbaL |
| * | NC_000913 | 1,068,173 | 0 | T | G | 27.5% | 116.2 / 27.1 | 69 | G31G (GGT→GGG) | ymdF | conserved protein YmdF |
| * | NC_000913 | 3,206,435 | 0 | C | T | 27.4% | 115.1 / 30.7 | 62 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 501,575 | 0 | A | C | 27.3% | 69.9 / 15.8 | 44 | V555G (GTG→GGG) | ybaL | putative transporter YbaL |
| * | NC_000913 | 3,740,909 | 0 | T | G | 27.3% | 133.9 / 21.4 | 77 | V402G (GTG→GGG) | avtA | valine‑‑pyruvate aminotransferase |
| * | NC_000913 | 3,404,215 | 0 | T | G | 26.5% | 118.7 / 22.3 | 68 | G244G (GGT→GGG) | yhdH | acrylyl‑CoA reductase |
| * | NC_000913 | 29,496 | 0 | T | A | 25.8% | 152.9 / 27.8 | 66 | intergenic (+301/‑155) | dapB/carA | 4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl phosphate synthetase subunit alpha |
| * | NC_000913 | 3,206,444 | 0 | T | A | 25.4% | 124.6 / 17.7 | 59 | intergenic (‑188/‑19) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 4,628,649 | 0 | A | C | 25.0% | 109.7 / 12.3 | 56 | intergenic (+102/+206) | nadR/ettA | DNA‑binding transcriptional repressor/NMN adenylyltransferase NadR/energy‑dependent translational throttle protein EttA |
| * | NC_000913 | 3,404,218 | 0 | T | G | 23.5% | 137.6 / 15.0 | 68 | G245G (GGT→GGG) | yhdH | acrylyl‑CoA reductase |
| * | NC_000913 | 372,640 | 0 | T | G | 22.6% | 126.3 / 11.7 | 62 | L176V (TTA→GTA) | mhpD | 2‑hydroxypentadienoate hydratase |
| 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 | 71 (0.750) | 14 (0.160) | 14/258 | 3.7 | 14.6% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 97 (1.100) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 4542682 = | 83 (0.880) | 12 (0.140) | 12/258 | 4.2 | 12.0% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 98 (1.110) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 3410758 = | 94 (1.000) | 4 (0.040) | 3/266 | 7.6 | 4.0% | coding (479/966 nt) | dusB | tRNA‑dihydrouridine synthase B |
| ? | NC_000913 | 3410835 = | 102 (1.120) | coding (556/966 nt) | dusB | tRNA‑dihydrouridine synthase B | |||||
| * | ? | NC_000913 | = 3402697 | 144 (1.550) | 3 (0.030) +TGC |
3/266 | 7.6 | 2.1% | coding (636/1941 nt) | csrD | regulator of CsrB and CsrC decay |
| ? | NC_000913 | 3402698 = | 144 (1.530) | coding (635/1941 nt) | csrD | regulator of CsrB and CsrC decay | |||||
| * | ? | NC_000913 | 2313741 = | 150 (1.590) | 4 (0.040) | 3/266 | 7.6 | 2.7% | coding (254/2673 nt) | rcsD | RcsD phosphotransferase |
| ? | NC_000913 | = 2313737 | 141 (1.550) | coding (250/2673 nt) | rcsD | RcsD phosphotransferase | |||||
| * | ? | NC_000913 | = 4292118 | 39 (0.410) | 3 (0.030) | 3/270 | 7.7 | 7.5% | coding (607/1659 nt) | nrfE | putative cytochrome c‑type biogenesis protein NrfE |
| ? | NC_000913 | 4292122 = | 36 (0.390) | coding (611/1659 nt) | nrfE | putative cytochrome c‑type biogenesis protein NrfE | |||||
| * | ? | NC_000913 | = 4039449 | 72 (0.760) | 3 (0.030) | 3/274 | 7.8 | 4.0% | noncoding (1931/2905 nt) | rrlA | 23S ribosomal RNA |
| ? | NC_000913 | 4039453 = | NA (NA) | noncoding (1935/2905 nt) | rrlA | 23S ribosomal RNA | |||||