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 | 1,825,061 | 0 | G | A | 44.4% | 21.8 / 14.3 | 27 | intergenic (‑124/+79) | ves/spy | HutD family protein Ves/ATP‑independent periplasmic chaperone |
| * | NC_000913 | 4,604,344 | 0 | C | T | 44.2% | 37.6 / 36.2 | 52 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 908,014 | 0 | A | G | 38.9% | 36.8 / 50.7 | 55 | V90A (GTG→GCG) | ybjT | putative NAD(P)‑dependent oxidoreductase YbjT |
| * | NC_000913 | 2,001,918 | 0 | A | C | 38.5% | 32.4 / 12.4 | 26 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 4,568,504 | 0 | T | G | 37.3% | 130.0 / 15.1 | 75 | T6P (ACC→CCC) | mdtM | multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| * | NC_000913 | 906,776 | 0 | A | G | 35.0% | 37.2 / 35.8 | 40 | intergenic (‑23/+76) | ybjS/ybjT | putative NAD(P)H‑binding oxidoreductase with NAD(P)‑binding Rossmann‑fold domain/putative NAD(P)‑dependent oxidoreductase YbjT |
| * | NC_000913 | 501,564 | 0 | A | C | 32.1% | 43.1 / 13.2 | 28 | *559E (TAA→GAA) | ybaL | putative transporter YbaL |
| * | NC_000913 | 4,111,747 | 0 | G | T | 30.3% | 78.7 / 15.1 | 33 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 650,809 | 0 | T | G | 28.9% | 86.7 / 11.5 | 45 | T350P (ACC→CCC) | citC | citrate lyase synthetase |
| * | NC_000913 | 2,462,881 | 0 | C | . | 26.4% | 179.9 / 65.3 | 72 | intergenic (+235/‑131) | fadL/yfdF | long‑chain fatty acid outer membrane channel/bacteriophage T2 receptor/protein YfdF |
| * | NC_000913 | 2,326,450 | 0 | T | G | 25.7% | 71.8 / 12.8 | 35 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 1,068,173 | 0 | T | G | 23.1% | 116.5 / 12.4 | 52 | G31G (GGT→GGG) | ymdF | conserved protein YmdF |
| * | NC_000913 | 4,296,060 | 0 | C | T | 22.5% | 76.9 / 18.7 | 40 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| 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 | 4542682 = | 47 (0.680) | 9 (0.140) | 9/258 | 3.9 | 19.0% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 33 (0.510) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 1207805 | 86 (1.250) | 8 (0.130) | 8/244 | 4.0 | 11.6% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 46 (0.750) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 4542690 | 41 (0.590) | 8 (0.120) | 8/258 | 4.2 | 18.8% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 31 (0.480) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 374922 = | NA (NA) | 4 (0.080) | 3/202 | 5.3 | 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 | = 818767 | 55 (0.800) | 6 (0.090) | 4/256 | 5.7 | 10.3% | coding (198/486 nt) | moaC | cyclic pyranopterin monophosphate synthase |
| ? | NC_000913 | = 818875 | 53 (0.830) | coding (306/486 nt) | moaC | cyclic pyranopterin monophosphate synthase | |||||