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 | 3,206,435 | 0 | C | T | 50.0% | 2.2 / 12.4 | 18 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| 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 | 1207790 = | 59 (1.160) | 8 (0.180) | 8/244 | 2.8 | 13.9% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 47 (1.040) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 608007 = | NA (NA) | 7 (0.170) | 7/224 | 2.9 | 15.2% | noncoding (1/1345 nt) | IS186 | repeat region |
| ? | NC_000913 | 609352 = | 39 (0.940) | intergenic (+175/+107) | insL‑2/entD | IS186/IS421 transposase/phosphopantetheinyl transferase EntD | |||||
| * | ? | NC_000913 | 4542682 = | 29 (0.570) | 8 (0.170) | 7/258 | 3.3 | 15.8% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 58 (1.220) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 374922 = | NA (NA) | 20 (0.420) | 6/260 | 3.6 | 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 | = 1207805 | 54 (1.060) | 5 (0.110) | 5/244 | 3.8 | 9.5% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 47 (1.040) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 374922 = | NA (NA) | 3 (0.080) | 3/202 | 4.0 | NA | intergenic (+41/‑537) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377430 = | NA (NA) | intergenic (+119/+105) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | = 2896588 | 32 (0.630) | 4 (0.090) | 4/248 | 4.2 | 7.3% | coding (1283/1338 nt) | ygcS | putative transporter YgcS |
| ? | NC_000913 | = 2901351 | 73 (1.590) | coding (760/1278 nt) | yqcE | putative transport protein YqcE | |||||
| * | ? | NC_000913 | = 3932429 | 53 (1.040) | 4 (0.080) | 3/262 | 4.8 | 6.7% | coding (1114/1869 nt) | kup | K(+):H(+) symporter Kup |
| ? | NC_000913 | = 3932549 | 61 (1.260) | coding (1234/1869 nt) | kup | K(+):H(+) symporter Kup | |||||
| * | ? | NC_000913 | = 3275704 | 50 (0.980) | 3 (0.060) | 3/256 | 4.8 | 6.2% | coding (423/1572 nt) | garD | galactarate dehydratase |
| ? | NC_000913 | 3588225 = | 44 (0.930) | coding (956/1071 nt) | ugpC | sn‑glycerol 3‑phosphate ABC transporter ATP binding subunit | |||||
| * | ? | NC_000913 | = 3592431 | 44 (0.860) | 3 (0.060) | 3/274 | 5.0 | 6.5% | intergenic (‑106/+293) | ugpB/livF | sn‑glycerol 3‑phosphate ABC transporter periplasmic binding protein/branched chain amino acid/phenylalanine ABC transporter ATP binding subunit LivF |
| ? | NC_000913 | 3592436 = | 43 (0.850) | intergenic (‑111/+288) | ugpB/livF | sn‑glycerol 3‑phosphate ABC transporter periplasmic binding protein/branched chain amino acid/phenylalanine ABC transporter ATP binding subunit LivF | |||||