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 35 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 1,135,658 | 1 | . | G | 63.9% | 188.7 / 115.1 | 83 | coding (95/699 nt) | flgH | flagellar L‑ring protein |
| * | NC_000913 | 3,943,488 | 0 | T | G | 43.3% | 27.1 / 17.3 | 30 | noncoding (54/76 nt) | gltU | tRNA‑Glu |
| * | NC_000913 | 4,296,060 | 0 | C | T | 36.8% | 164.6 / 123.9 | 125 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 4,568,504 | 0 | T | G | 34.6% | 183.9 / 20.5 | 102 | T6P (ACC→CCC) | mdtM | multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| * | NC_000913 | 4,604,344 | 0 | C | T | 34.4% | 144.1 / 43.5 | 93 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 3,206,435 | 0 | C | T | 33.3% | 51.3 / 19.6 | 36 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 4,111,752 | 0 | T | C | 32.6% | 65.2 / 13.1 | 43 | K155E (AAA→GAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 372,640 | 0 | T | G | 31.9% | 94.3 / 12.1 | 47 | L176V (TTA→GTA) | mhpD | 2‑hydroxypentadienoate hydratase |
| * | NC_000913 | 2,168,966 | 0 | A | C | 31.8% | 173.9 / 17.9 | 85 | I85I (ATA→ATC) | yegS | lipid kinase |
| * | NC_000913 | 1,565,621 | 0 | T | G | 30.5% | 108.6 / 16.5 | 59 | N38T (AAC→ACC) | dosP | oxygen‑sensing c‑di‑GMP phosphodiesterase DosP |
| * | NC_000913 | 3,745,397 | 0 | A | C | 29.6% | 168.1 / 18.1 | 81 | L198F (TTA→TTC) | yiaN | 2,3‑diketo‑L‑gulonate:Na(+) symporter ‑ membrane subunit |
| * | NC_000913 | 4,098,155 | 0 | A | C | 29.6% | 257.9 / 28.4 | 125 | L140F (TTA→TTC) | rhaS | DNA‑binding transcriptional activator RhaS |
| * | NC_000913 | 650,755 | 0 | C | T | 29.2% | 121.6 / 46.6 | 72 | G10D (GGC→GAC) | citD | citrate lyase acyl carrier protein |
| * | NC_000913 | 650,809 | 0 | T | G | 27.5% | 155.6 / 17.3 | 69 | T350P (ACC→CCC) | citC | citrate lyase synthetase |
| * | NC_000913 | 4,111,747 | 0 | G | T | 27.3% | 79.6 / 15.0 | 33 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 4,056,115 | 0 | A | C | 27.1% | 142.1 / 11.7 | 59 | G75G (GGT→GGG) | glnL | sensory histidine kinase NtrB |
| * | NC_000913 | 3,206,444 | 0 | T | A | 26.3% | 76.8 / 12.7 | 38 | intergenic (‑188/‑19) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 4,101,507 | 0 | T | G | 25.7% | 181.6 / 12.8 | 74 | intergenic (+77/‑183) | sodA/kdgT | superoxide dismutase (Mn)/2‑dehydro‑3‑deoxy‑D‑gluconate:H(+) symporter |
| * | NC_000913 | 445,558 | 0 | A | C | 25.6% | 82.8 / 15.4 | 39 | V370G (GTA→GGA) | yajR | putative major facilitator superfamily transport protein YajR |
| * | NC_000913 | 1,335,691 | 0 | T | G | 25.6% | 202.1 / 14.9 | 86 | intergenic (+24/‑140) | ymiC/acnA | protein YmiC/aconitate hydratase 1 |
| 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 | 33 (0.350) | 12 (0.140) | 11/260 | 4.9 | 25.0% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 41 (0.470) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 4542682 = | 37 (0.390) | 14 (0.160) | 11/260 | 4.9 | 26.8% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 42 (0.480) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 374922 = | NA (NA) | 11 (0.120) | 7/262 | 6.3 | 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 | 339756 = | NA (NA) | 6 (0.060) | 5/276 | 7.5 | NA | intergenic (+13/‑37) | yahG/yahH | DUF1116 domain‑containing protein YahG/putative uncharacterized protein YahH |
| ? | NC_000913 | 377322 = | NA (NA) | intergenic (+11/+213) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | = 2385617 | 76 (0.810) | 3 (0.030) | 3/274 | 8.5 | 3.8% | coding (106/1728 nt) | yfbK | IPR002035/DUF3520 domain‑containing protein YfbK |
| ? | NC_000913 | 2385626 = | 77 (0.830) | coding (97/1728 nt) | yfbK | IPR002035/DUF3520 domain‑containing protein YfbK | |||||