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 25 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 | 38.0% | 192.6 / 81.7 | 150 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 4,296,060 | 0 | C | T | 32.7% | 233.4 / 136.5 | 156 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 501,575 | 0 | A | C | 31.3% | 146.2 / 37.8 | 83 | V555G (GTG→GGG) | ybaL | putative transporter YbaL |
| * | NC_000913 | 445,558 | 0 | A | C | 30.1% | 117.0 / 42.9 | 73 | V370G (GTA→GGA) | yajR | putative major facilitator superfamily transport protein YajR |
| * | NC_000913 | 501,572 | 0 | A | C | 28.9% | 165.0 / 23.8 | 83 | V556G (GTG→GGG) | ybaL | putative transporter YbaL |
| * | NC_000913 | 2,001,918 | 0 | A | C | 27.6% | 202.6 / 28.5 | 98 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 3,206,435 | 0 | C | T | 27.5% | 169.0 / 36.9 | 91 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 372,640 | 0 | T | G | 27.3% | 172.4 / 24.3 | 88 | L176V (TTA→GTA) | mhpD | 2‑hydroxypentadienoate hydratase |
| * | NC_000913 | 501,564 | 0 | A | C | 26.9% | 186.2 / 41.7 | 93 | *559E (TAA→GAA) | ybaL | putative transporter YbaL |
| * | NC_000913 | 646,747 | 0 | T | G | 25.5% | 194.9 / 39.1 | 94 | T255P (ACC→CCC) | citG | triphosphoribosyl‑dephospho‑CoA synthase |
| * | NC_000913 | 4,111,747 | 0 | G | T | 25.0% | 221.6 / 34.2 | 80 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 4,568,504 | 0 | T | G | 24.9% | 393.6 / 16.7 | 190 | T6P (ACC→CCC) | mdtM | multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| * | NC_000913 | 4,098,155 | 0 | A | C | 24.5% | 304.3 / 19.2 | 144 | L140F (TTA→TTC) | rhaS | DNA‑binding transcriptional activator RhaS |
| * | NC_000913 | 753,125 | 0 | T | A | 23.8% | 304.8 / 39.7 | 122 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 650,809 | 0 | T | G | 23.6% | 239.1 / 19.5 | 106 | T350P (ACC→CCC) | citC | citrate lyase synthetase |
| * | NC_000913 | 2,326,450 | 0 | T | G | 23.3% | 276.5 / 62.1 | 129 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 433,634 | 0 | T | G | 23.0% | 279.3 / 17.1 | 139 | G60G (GGT→GGG) | ribD | fused diaminohydroxyphosphoribosylaminopyrimidine deaminase/5‑amino‑6‑(5‑phosphoribosylamino)uracil reductase |
| * | NC_000913 | 3,745,397 | 0 | A | C | 23.0% | 185.9 / 17.1 | 100 | L198F (TTA→TTC) | yiaN | 2,3‑diketo‑L‑gulonate:Na(+) symporter ‑ membrane subunit |
| * | NC_000913 | 1,550,663 | 0 | A | C | 22.6% | 217.4 / 22.4 | 93 | N68T (AAC→ACC) | fdnH | formate dehydrogenase N subunit beta |
| * | NC_000913 | 4,429,984 | 0 | T | G | 22.4% | 293.0 / 36.5 | 125 | L41V (TTG→GTG) | cycA | serine/alanine/glycine/cycloserine:H(+)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 | = 4542690 | 137 (0.850) | 35 (0.230) | 31/260 | 2.8 | 19.4% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 163 (1.090) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 4542682 = | 120 (0.750) | 26 (0.170) | 17/260 | 5.1 | 15.9% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 163 (1.090) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 3484544 = | 174 (1.080) | 3 (0.020) | 3/258 | 10.3 | 1.8% | coding (55/870 nt) | prkB | putative phosphoribulokinase |
| ? | NC_000913 | = 3484540 | 166 (1.110) | coding (51/870 nt) | prkB | putative phosphoribulokinase | |||||
| * | ? | NC_000913 | 2654814 = | 119 (0.740) | 3 (0.020) | 3/268 | 10.5 | 2.6% | coding (120/777 nt) | sseB | protein SseB |
| ? | NC_000913 | = 2654810 | 114 (0.740) | coding (124/777 nt) | sseB | protein SseB | |||||
| * | ? | NC_000913 | = 3331372 | 115 (0.720) | 3 (0.020) | 3/276 | 10.6 | 2.7% | coding (383/1173 nt) | obgE | GTPase ObgE |
| ? | NC_000913 | 3331378 = | 102 (0.640) | coding (377/1173 nt) | obgE | GTPase ObgE | |||||
| * | ? | NC_000913 | = 36246 | 189 (1.180) | 3 (0.020) | 3/276 | 10.6 | 1.6% | intergenic (‑84/+25) | caiD/caiC | crotonobetainyl‑CoA hydratase/carnitine‑CoA ligase |
| ? | NC_000913 | 36250 = | 185 (1.160) | intergenic (‑88/+21) | caiD/caiC | crotonobetainyl‑CoA hydratase/carnitine‑CoA ligase | |||||
| * | ? | NC_000913 | 1979271 = | 0 (0.000) | 3 (0.020) | 3/278 | 10.7 | 100% | intergenic (‑56/‑482) | insA‑5/uspC | IS1 protein InsA/universal stress protein C |
| ? | NC_000913 | = 2102947 | NA (NA) | pseudogene (443/446 nt) | wbbL | interrupted rhamnosyltransferase WbbL | |||||