mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.27.1 revision 87c22d663cc3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 38 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,947,591 | 0 | A | . | 39.6% | 227.2 / 154.5 | 101 | intergenic (+18/‑16) | metW/metV | tRNA‑Met/tRNA‑Met |
| * | NC_000913 | 2,947,467 | 0 | A | C | 31.3% | 207.0 / 122.6 | 116 | intergenic (+4/‑30) | metZ/metW | tRNA‑Met/tRNA‑Met |
| * | NC_000913 | 422,429 | 0 | T | G | 29.9% | 587.3 / 107.1 | 354 | intergenic (+70/‑89) | proY/malZ | proline‑specific permease/maltodextrin glucosidase |
| * | NC_000913 | 2,818,145 | 0 | T | C | 29.6% | 259.9 / 141.7 | 198 | intergenic (‑10/+53) | argZ/argY | tRNA‑Arg/tRNA‑Arg |
| * | NC_000913 | 1,708,901 | 0 | A | C | 28.1% | 305.5 / 54.7 | 261 | R661R (CGA→CGC) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | NC_000913 | 423,552 | 0 | T | G | 26.5% | 584.6 / 84.2 | 322 | G345G (GGT→GGG) | malZ | maltodextrin glucosidase |
| * | NC_000913 | 4,606,192 | 0 | G | C | 26.4% | 116.7 / 14.6 | 78 | intergenic (‑27/+8) | leuV/leuP | tRNA‑Leu/tRNA‑Leu |
| * | NC_000913 | 3,269,994 | 0 | G | T | 26.3% | 209.5 / 21.0 | 180 | intergenic (+392/+631) | yhaC/garK | pentapetide repeats‑related protein/glycerate kinase I |
| * | NC_000913 | 1,708,930 | 0 | C | A | 25.9% | 476.6 / 67.0 | 252 | P671Q (CCG→CAG) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | NC_000913 | 1,708,805 | 0 | T | A | 25.6% | 101.3 / 38.3 | 156 | R629R (CGT→CGA) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | NC_000913 | 1,552,191 | 0 | C | A | 25.4% | 924.9 / 86.9 | 456 | intergenic (+200/+207) | fdnI/yddM | formate dehydrogenase‑N, cytochrome B556 (gamma) subunit, nitrate‑inducible/putative DNA‑binding transcriptional regulator |
| * | NC_000913 | 696,534 | 0 | G | T | 25.4% | 255.1 / 49.1 | 134 | intergenic (‑30/+8) | glnX/glnV | tRNA‑Gln/tRNA‑Gln |
| * | NC_000913 | 422,432 | 0 | T | G | 25.0% | 767.2 / 61.3 | 354 | intergenic (+73/‑86) | proY/malZ | proline‑specific permease/maltodextrin glucosidase |
| * | NC_000913 | 2,947,465 | 0 | T | . | 24.8% | 382.6 / 132.2 | 150 | intergenic (+2/‑32) | metZ/metW | tRNA‑Met/tRNA‑Met |
| * | NC_000913 | 2,818,158 | 0 | T | A | 24.3% | 286.5 / 85.5 | 174 | intergenic (‑23/+40) | argZ/argY | tRNA‑Arg/tRNA‑Arg |
| * | NC_000913 | 3,270,163 | 0 | C | A | 23.3% | 345.3 / 19.1 | 234 | intergenic (+561/+462) | yhaC/garK | pentapetide repeats‑related protein/glycerate kinase I |
| * | NC_000913 | 3,781,032 | 0 | T | G | 23.2% | 638.9 / 58.5 | 321 | intergenic (+15/‑183) | lldD/trmL | L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent |
| * | NC_000913 | 2,818,149 | 0 | T | C | 23.0% | 301.8 / 105.5 | 191 | intergenic (‑14/+49) | argZ/argY | tRNA‑Arg/tRNA‑Arg |
| * | NC_000913 | 1,708,910 | 0 | G | C | 22.9% | 469.0 / 28.5 | 246 | A664A (GCG→GCC) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | NC_000913 | 3,270,151 | 0 | A | C | 22.3% | 220.8 / 21.9 | 202 | intergenic (+549/+474) | yhaC/garK | pentapetide repeats‑related protein/glycerate kinase I |
| Marginal new junction evidence (lowest skew 10 of 36 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 4542690 | 396 (0.940) | 139 (0.350) | 109/282 | 9.1 | 27.4% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | = 4542986 | 365 (0.920) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | 4542682 = | 387 (0.920) | 136 (0.340) | 107/282 | 9.5 | 26.7% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | 4542996 = | 385 (0.970) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | = 1207805 | 327 (0.770) | 59 (0.160) | 52/268 | 24.4 | 16.8% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 294 (0.780) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 1207790 = | 328 (0.780) | 50 (0.130) | 44/268 | 27.9 | 14.4% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 300 (0.790) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 781369 = | 272 (0.640) | 138 (0.340) +GAAG |
45/292 | 30.2 | 38.6% | noncoding (1/76 nt) | lysZ | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 180 (0.430) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | 781577 = | 314 (0.740) | 191 (0.460) +GAAG |
43/292 | 31.1 | 44.3% | noncoding (1/76 nt) | lysQ | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 180 (0.430) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | 780554 = | 464 (1.100) | 94 (0.230) +GAAG |
43/292 | 31.1 | 23.1% | noncoding (1/76 nt) | lysT | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 180 (0.430) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | 696863 = | 146 (0.350) | 91 (0.230) +GAAGAAACAATC |
38/276 | 31.7 | 26.5% | intergenic (‑33/+2) | glnW/glnU | tRNA‑Gln/tRNA‑Gln |
| ? | NC_000913 | = 697134 | 402 (0.950) | intergenic (‑1/+379) | metT/asnB | tRNA‑Met/asparagine synthetase B | |||||
| * | ? | NC_000913 | = 1287084 | 175 (0.410) | 82 (0.220) | 34/260 | 31.9 | 26.2% | intergenic (+558/+3) | narI/tpr | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/protamine‑like protein |
| ? | NC_000913 | 1287557 = | 311 (0.850) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | NC_000913 | 781369 = | 272 (0.640) | 107 (0.250) +G |
37/298 | 34.7 | 35.9% | noncoding (1/76 nt) | lysZ | tRNA‑Lys |
| ? | NC_000913 | = 2521128 | 113 (0.270) | intergenic (+2/‑45) | valX/valY | tRNA‑Val/tRNA‑Val | |||||