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 21 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 4,296,060 | 0 | C | T | 36.5% | 104.5 / 83.9 | 85 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 3,206,435 | 0 | C | T | 35.7% | 27.7 / 18.8 | 28 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 4,604,344 | 0 | C | T | 35.1% | 73.9 / 28.9 | 57 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 29,496 | 0 | T | A | 34.0% | 82.4 / 31.8 | 53 | intergenic (+301/‑155) | dapB/carA | 4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl phosphate synthetase subunit alpha |
| * | NC_000913 | 372,640 | 0 | T | G | 32.1% | 105.5 / 19.1 | 56 | L176V (TTA→GTA) | mhpD | 2‑hydroxypentadienoate hydratase |
| * | NC_000913 | 4,628,649 | 0 | A | C | 30.4% | 117.5 / 15.8 | 56 | intergenic (+102/+206) | nadR/ettA | DNA‑binding transcriptional repressor/NMN adenylyltransferase NadR/energy‑dependent translational throttle protein EttA |
| * | NC_000913 | 646,747 | 0 | T | G | 30.0% | 95.0 / 26.0 | 50 | T255P (ACC→CCC) | citG | triphosphoribosyl‑dephospho‑CoA synthase |
| * | NC_000913 | 888,014 | 0 | T | G | 30.0% | 97.6 / 14.3 | 50 | noncoding (44/81 nt) | rybB | small regulatory RNA RybB |
| * | NC_000913 | 1,825,061 | 0 | G | A | 28.6% | 85.1 / 19.2 | 49 | intergenic (‑124/+79) | ves/spy | HutD family protein Ves/ATP‑independent periplasmic chaperone |
| * | NC_000913 | 445,558 | 0 | A | C | 26.2% | 87.3 / 14.9 | 43 | V370G (GTA→GGA) | yajR | putative major facilitator superfamily transport protein YajR |
| * | NC_000913 | 650,809 | 0 | T | G | 26.2% | 144.5 / 20.5 | 65 | T350P (ACC→CCC) | citC | citrate lyase synthetase |
| * | NC_000913 | 3,740,909 | 0 | T | G | 25.9% | 119.9 / 13.9 | 59 | V402G (GTG→GGG) | avtA | valine‑‑pyruvate aminotransferase |
| * | NC_000913 | 2,326,450 | 0 | T | G | 25.0% | 155.1 / 29.6 | 68 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 3,404,215 | 0 | T | G | 25.0% | 134.8 / 15.5 | 60 | G244G (GGT→GGG) | yhdH | acrylyl‑CoA reductase |
| * | NC_000913 | 501,575 | 0 | A | C | 24.0% | 119.5 / 15.1 | 50 | V555G (GTG→GGG) | ybaL | putative transporter YbaL |
| * | NC_000913 | 1,068,173 | 0 | T | G | 24.0% | 182.8 / 21.6 | 75 | G31G (GGT→GGG) | ymdF | conserved protein YmdF |
| * | NC_000913 | 646,760 | 0 | T | C | 23.6% | 109.7 / 15.8 | 55 | K250K (AAA→AAG) | citG | triphosphoribosyl‑dephospho‑CoA synthase |
| * | NC_000913 | 4,111,747 | 0 | G | T | 23.6% | 151.9 / 18.6 | 55 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 3,926,366 | 0 | A | C | 23.2% | 194.3 / 19.3 | 82 | G30G (GGT→GGG) | mioC | flavoprotein MioC |
| * | NC_000913 | 4,101,514 | 0 | G | T | 22.6% | 166.1 / 18.6 | 63 | intergenic (+84/‑176) | sodA/kdgT | superoxide dismutase (Mn)/2‑dehydro‑3‑deoxy‑D‑gluconate:H(+) symporter |
| Marginal new junction evidence (lowest skew 10 of 27 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 374963 | NA (NA) | 31 (0.520) | 12/190 | 3.2 | NA | noncoding (33/34 nt) | other | REP31a |
| ? | NC_000913 | = 377487 | NA (NA) | intergenic (+176/+48) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | = 1207805 | 63 (0.730) | 21 (0.270) | 16/244 | 3.3 | 26.2% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 63 (0.820) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 1104111 = | 65 (0.750) | 15 (0.170) | 12/276 | 4.8 | 18.8% | coding (161/456 nt) | csgB | curlin, minor subunit |
| ? | NC_000913 | 1299499 = | NA (NA) | noncoding (1/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 4542682 = | 70 (0.810) | 10 (0.120) | 10/258 | 5.0 | 11.6% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 87 (1.080) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 375325 | NA (NA) | 7 (0.130) +52 bp |
5/172 | 5.1 | NA | intergenic (+444/‑134) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | = 377477 | NA (NA) | intergenic (+166/+58) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | = 4542690 | 64 (0.740) | 10 (0.120) | 9/258 | 5.3 | 12.1% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 86 (1.060) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 1104113 | 66 (0.760) | 10 (0.120) | 10/272 | 5.3 | 13.3% | coding (163/456 nt) | csgB | curlin, minor subunit |
| ? | NC_000913 | = 1300694 | NA (NA) | intergenic (+147/‑488) | insH21/oppA | IS5 transposase and trans‑activator/oligopeptide ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | 375203 = | NA (NA) | 20 (0.300) | 7/216 | 5.3 | NA | noncoding (17/36 nt) | other | REP31f |
| ? | NC_000913 | 377351 = | NA (NA) | noncoding (16/37 nt) | other | REP32a | |||||
| * | ? | NC_000913 | = 375059 | NA (NA) | 12 (0.140) +T |
10/274 | 5.3 | NA | noncoding (28/34 nt) | other | REP31c |
| ? | NC_000913 | = 377491 | NA (NA) | noncoding (32/34 nt) | other | REP32d | |||||
| * | ? | NC_000913 | 273955 = | NA (NA) | 11 (0.130) +C |
10/274 | 5.3 | 14.4% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 1104113 | 66 (0.760) | coding (163/456 nt) | csgB | curlin, minor subunit | |||||