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 22 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 | 37.3% | 585.2 / 152.1 | 405 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 1,163,233 | 0 | C | T | 36.4% | 360.9 / inf | 348 | T199M (ACG→ATG) | lpoB | outer membrane lipoprotein ‑ activator of MrcB activity |
| * | NC_000913 | 226,030 | 0 | A | G | 31.1% | 2537.5 / inf | 1883 | noncoding (272/2904 nt) | rrlH | 23S ribosomal RNA |
| * | NC_000913 | 4,111,747 | 0 | G | T | 29.0% | 543.2 / 81.0 | 211 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 4,568,504 | 0 | T | G | 28.8% | 1026.8 / 13.7 | 537 | T6P (ACC→CCC) | mdtM | multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| * | NC_000913 | 2,001,918 | 0 | A | C | 28.3% | 616.6 / 72.9 | 287 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 3,206,435 | 0 | C | T | 28.3% | 516.4 / 139.2 | 286 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 4,296,060 | 0 | C | T | 28.2% | 620.6 / 255.5 | 355 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 445,558 | 0 | A | C | 27.4% | 342.2 / 58.9 | 169 | V370G (GTA→GGA) | yajR | putative major facilitator superfamily transport protein YajR |
| * | NC_000913 | 770,897 | 0 | T | G | 26.7% | 497.9 / 11.0 | 260 | intergenic (+286/‑561) | mngB/cydA | alpha‑mannosidase/cytochrome bd‑I ubiquinol oxidase subunit I |
| * | NC_000913 | 1,825,061 | 0 | G | A | 26.7% | 540.0 / 47.7 | 251 | intergenic (‑124/+79) | ves/spy | HutD family protein Ves/ATP‑independent periplasmic chaperone |
| * | NC_000913 | 4,209,827 | 0 | T | G | 25.1% | 306.5 / 20.2 | 167 | noncoding (54/76 nt) | gltV | tRNA‑Glu |
| * | NC_000913 | 2,326,450 | 0 | T | G | 25.0% | 708.2 / 131.8 | 320 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 3,556,207 | 0 | T | C | 24.4% | 372.1 / 20.7 | 164 | S215G (AGT→GGT) ‡ | rtcA | RNA 3'‑terminal phosphate cyclase |
| * | NC_000913 | 3,556,205 | 0 | A | C | 24.2% | 378.4 / 33.4 | 161 | S215R (AGT→AGG) ‡ | rtcA | RNA 3'‑terminal phosphate cyclase |
| * | NC_000913 | 888,014 | 0 | T | G | 23.5% | 657.2 / 17.0 | 281 | noncoding (44/81 nt) | rybB | small regulatory RNA RybB |
| * | NC_000913 | 501,575 | 0 | A | C | 23.4% | 533.9 / 29.7 | 209 | V555G (GTG→GGG) | ybaL | putative transporter YbaL |
| * | NC_000913 | 3,745,397 | 0 | A | C | 22.7% | 501.6 / 17.7 | 287 | L198F (TTA→TTC) | yiaN | 2,3‑diketo‑L‑gulonate:Na(+) symporter ‑ membrane subunit |
| * | NC_000913 | 372,640 | 0 | T | G | 21.4% | 516.9 / 13.8 | 216 | L176V (TTA→GTA) | mhpD | 2‑hydroxypentadienoate hydratase |
| * | NC_000913 | 3,206,444 | 0 | T | A | 21.1% | 611.6 / 37.6 | 280 | intergenic (‑188/‑19) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| Marginal new junction evidence (lowest skew 10 of 88 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 4542690 | 475 (1.060) | 50 (0.120) | 34/258 | 5.5 | 10.0% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 460 (1.090) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 4542682 = | 485 (1.080) | 45 (0.110) | 34/258 | 5.5 | 9.0% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 461 (1.100) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 375203 = | NA (NA) | 13 (0.040) | 8/216 | 10.7 | NA | noncoding (17/36 nt) | other | REP31f |
| ? | NC_000913 | 377351 = | NA (NA) | noncoding (16/37 nt) | other | REP32a | |||||
| * | ? | NC_000913 | = 374963 | NA (NA) | 8 (0.030) | 6/190 | 10.9 | 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 | 375102 = | NA (NA) | 8 (0.020) | 6/216 | 11.7 | NA | noncoding (17/36 nt) | other | REP31d |
| ? | NC_000913 | 377351 = | NA (NA) | noncoding (16/37 nt) | other | REP32a | |||||
| * | ? | NC_000913 | 374922 = | NA (NA) | 5 (0.020) | 4/202 | 12.4 | 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 | 4606087 = | 422 (0.940) | 3 (0.010) +44 bp |
3/188 | 12.6 | 1.1% | noncoding (79/87 nt) | leuV | tRNA‑Leu |
| ? | NC_000913 | = 4606402 | 395 (0.880) | intergenic (‑1/+267) | leuQ/rsmC | tRNA‑Leu/16S rRNA m(2)G1207 methyltransferase | |||||
| * | ? | NC_000913 | = 3982684 | 376 (0.840) | 3 (0.010) +44 bp |
3/188 | 12.6 | 1.1% | noncoding (79/87 nt) | leuT | tRNA‑Leu |
| ? | NC_000913 | = 4606402 | 395 (0.880) | intergenic (‑1/+267) | leuQ/rsmC | tRNA‑Leu/16S rRNA m(2)G1207 methyltransferase | |||||
| * | ? | NC_000913 | 226045 = | NA (NA) | 6 (0.010) | 6/264 | 12.9 | NA | noncoding (287/2904 nt) | rrlH | 23S ribosomal RNA |
| ? | NC_000913 | = 226040 | NA (NA) | noncoding (282/2904 nt) | rrlH | 23S ribosomal RNA | |||||
| * | ? | NC_000913 | = 375160 | NA (NA) | 7 (0.020) +T |
6/274 | 13.2 | NA | noncoding (28/34 nt) | other | REP31e |
| ? | NC_000913 | = 377491 | NA (NA) | noncoding (32/34 nt) | other | REP32d | |||||