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 36 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 422,429 | 0 | T | G | 33.4% | 535.6 / 131.7 | 372 | intergenic (+70/‑89) | proY/malZ | proline‑specific permease/maltodextrin glucosidase |
| * | NC_000913 | 1,708,901 | 0 | A | C | 32.8% | 225.5 / 85.7 | 249 | R661R (CGA→CGC) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | NC_000913 | 2,947,591 | 0 | A | . | 29.3% | 200.6 / 86.5 | 83 | intergenic (+18/‑16) | metW/metV | tRNA‑Met/tRNA‑Met |
| * | NC_000913 | 4,296,060 | 0 | C | T | 28.4% | 715.6 / inf | 619 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 422,432 | 0 | T | G | 26.4% | 745.0 / 74.9 | 372 | intergenic (+73/‑86) | proY/malZ | proline‑specific permease/maltodextrin glucosidase |
| * | NC_000913 | 2,818,158 | 0 | T | A | 26.2% | 341.0 / 116.4 | 217 | intergenic (‑23/+40) | argZ/argY | tRNA‑Arg/tRNA‑Arg |
| * | NC_000913 | 2,947,481 | 1 | . | A | 25.8% | 234.2 / 127.0 | 97 | intergenic (+18/‑16) | metZ/metW | tRNA‑Met/tRNA‑Met |
| * | NC_000913 | 3,269,994 | 0 | G | T | 25.7% | 287.4 / 20.8 | 205 | intergenic (+392/+631) | yhaC/garK | pentapetide repeats‑related protein/glycerate kinase I |
| * | NC_000913 | 1,308,745 | 0 | T | G | 25.4% | 684.0 / 67.6 | 357 | intergenic (‑100/‑43) | clsA/yciY | cardiolipin synthase 1/uncharacterized protein |
| * | NC_000913 | 4,392,457 | 0 | G | T | 25.3% | 411.2 / 22.0 | 279 | intergenic (+22/‑15) | glyV/glyX | tRNA‑Gly/tRNA‑Gly |
| * | NC_000913 | 1,552,191 | 0 | C | A | 25.3% | 975.0 / 120.7 | 486 | intergenic (+200/+207) | fdnI/yddM | formate dehydrogenase‑N, cytochrome B556 (gamma) subunit, nitrate‑inducible/putative DNA‑binding transcriptional regulator |
| * | NC_000913 | 2,947,467 | 0 | A | C | 24.7% | 341.0 / 131.9 | 158 | intergenic (+4/‑30) | metZ/metW | tRNA‑Met/tRNA‑Met |
| * | NC_000913 | 2,560,996 | 0 | G | T | 24.6% | 727.0 / 75.9 | 379 | intergenic (+98/‑372) | yffL/yffM | CPZ‑55 prophage; uncharacterized protein/CPZ‑55 prophage; uncharacterized protein |
| * | NC_000913 | 1,708,862 | 0 | C | A | 24.2% | 212.7 / 19.4 | 185 | V648V (GTC→GTA) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | NC_000913 | 1,708,930 | 0 | C | A | 23.9% | 502.4 / 61.6 | 271 | P671Q (CCG→CAG) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | NC_000913 | 1,708,910 | 0 | G | C | 23.8% | 448.9 / 35.2 | 255 | A664A (GCG→GCC) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | NC_000913 | 422,435 | 0 | T | G | 23.7% | 788.5 / 62.9 | 372 | intergenic (+76/‑83) | proY/malZ | proline‑specific permease/maltodextrin glucosidase |
| * | NC_000913 | 2,818,145 | 0 | T | C | 23.3% | 386.5 / 129.2 | 245 | intergenic (‑10/+53) | argZ/argY | tRNA‑Arg/tRNA‑Arg |
| * | NC_000913 | 1,286,965 | 0 | A | C | 23.3% | 314.9 / 41.8 | 287 | intergenic (+439/+122) | narI/tpr | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/protamine‑like protein |
| * | NC_000913 | 3,270,151 | 0 | A | C | 22.7% | 249.1 / 33.0 | 234 | intergenic (+549/+474) | yhaC/garK | pentapetide repeats‑related protein/glycerate kinase I |
| Marginal new junction evidence (lowest skew 10 of 41 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1207805 | 419 (0.900) | 52 (0.130) | 47/268 | 30.4 | 11.9% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 393 (0.950) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 2357690 | 304 (0.650) | 75 (0.180) +AATTAGAAGGTT |
45/276 | 32.4 | 21.2% | coding (787/900 nt) | yfaD | transposase_31 family protein |
| ? | NC_000913 | 2357691 = | 304 (0.650) | coding (788/900 nt) | yfaD | transposase_31 family protein | |||||
| * | ? | NC_000913 | = 4542690 | 502 (1.080) | 49 (0.110) | 43/282 | 34.2 | 8.7% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | = 4542986 | 563 (1.290) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | 1207790 = | 427 (0.920) | 45 (0.110) | 38/268 | 35.0 | 10.3% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 399 (0.960) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 696863 = | 144 (0.310) | 99 (0.230) +GAAGAAACAATC |
39/276 | 35.5 | 25.9% | intergenic (‑33/+2) | glnW/glnU | tRNA‑Gln/tRNA‑Gln |
| ? | NC_000913 | = 697134 | 471 (1.010) | intergenic (‑1/+379) | metT/asnB | tRNA‑Met/asparagine synthetase B | |||||
| * | ? | NC_000913 | = 781446 | 310 (0.670) | 64 (0.160) | 35/260 | 35.6 | 17.0% | intergenic (+2/‑131) | lysZ/lysQ | tRNA‑Lys/tRNA‑Lys |
| ? | NC_000913 | 2521487 = | 357 (0.890) | intergenic (+159/+106) | lysV/xapR | tRNA‑Lys/transcriptional activator of xapAB | |||||
| * | ? | NC_000913 | 4542682 = | 512 (1.100) | 41 (0.090) | 36/282 | 37.9 | 7.2% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | 4542996 = | 572 (1.310) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | 781369 = | 347 (0.750) | 118 (0.260) +GAAG |
37/292 | 38.6 | 30.1% | noncoding (1/76 nt) | lysZ | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 216 (0.460) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | = 1287084 | 156 (0.340) | 76 (0.190) | 29/260 | 39.2 | 23.8% | intergenic (+558/+3) | narI/tpr | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/protamine‑like protein |
| ? | NC_000913 | 1287557 = | 351 (0.870) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | NC_000913 | 781577 = | 363 (0.780) | 189 (0.420) +GAAG |
36/292 | 39.2 | 40.2% | noncoding (1/76 nt) | lysQ | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 216 (0.460) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||