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 | 4,606,197 | 0 | G | T | 36.1% | 91.8 / 15.0 | 80 | intergenic (‑32/+3) | leuV/leuP | tRNA‑Leu/tRNA‑Leu |
| * | NC_000913 | 2,947,467 | 0 | A | C | 35.0% | 189.8 / 151.3 | 117 | intergenic (+4/‑30) | metZ/metW | tRNA‑Met/tRNA‑Met |
| * | NC_000913 | 1,708,901 | 0 | A | C | 34.0% | 139.4 / 64.7 | 205 | R661R (CGA→CGC) | 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 | 31.3% | 680.9 / 115.4 | 383 | intergenic (+200/+207) | fdnI/yddM | formate dehydrogenase‑N, cytochrome B556 (gamma) subunit, nitrate‑inducible/putative DNA‑binding transcriptional regulator |
| * | NC_000913 | 4,606,192 | 0 | G | C | 31.1% | 127.4 / 23.7 | 95 | intergenic (‑27/+8) | leuV/leuP | tRNA‑Leu/tRNA‑Leu |
| * | NC_000913 | 422,429 | 0 | T | G | 29.8% | 523.8 / 92.8 | 336 | intergenic (+70/‑89) | proY/malZ | proline‑specific permease/maltodextrin glucosidase |
| * | NC_000913 | 2,947,591 | 0 | A | . | 28.7% | 198.1 / 82.9 | 80 | intergenic (+18/‑16) | metW/metV | tRNA‑Met/tRNA‑Met |
| * | NC_000913 | 1,708,930 | 0 | C | A | 28.3% | 343.7 / 63.4 | 215 | P671Q (CCG→CAG) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | NC_000913 | 2,947,481 | 1 | . | A | 27.8% | 173.4 / 102.7 | 72 | intergenic (+18/‑16) | metZ/metW | tRNA‑Met/tRNA‑Met |
| * | NC_000913 | 2,560,996 | 0 | G | T | 27.2% | 584.0 / 68.4 | 332 | intergenic (+98/‑372) | yffL/yffM | CPZ‑55 prophage; uncharacterized protein/CPZ‑55 prophage; uncharacterized protein |
| * | NC_000913 | 2,947,465 | 0 | T | . | 26.9% | 381.2 / 154.0 | 157 | intergenic (+2/‑32) | metZ/metW | tRNA‑Met/tRNA‑Met |
| * | NC_000913 | 1,708,805 | 0 | T | A | 26.7% | 96.0 / 23.9 | 125 | R629R (CGT→CGA) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | NC_000913 | 4,296,060 | 0 | C | T | 26.1% | 706.8 / inf | 542 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 422,432 | 0 | T | G | 25.8% | 643.5 / 67.4 | 336 | intergenic (+73/‑86) | proY/malZ | proline‑specific permease/maltodextrin glucosidase |
| * | NC_000913 | 1,708,880 | 0 | C | A | 25.1% | 251.4 / 22.6 | 178 | A654A (GCC→GCA) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | NC_000913 | 3,269,994 | 0 | G | T | 25.0% | 225.5 / 18.1 | 164 | intergenic (+392/+631) | yhaC/garK | pentapetide repeats‑related protein/glycerate kinase I |
| * | NC_000913 | 3,270,167 | 0 | C | G | 25.0% | 311.9 / 41.9 | 213 | intergenic (+565/+458) | yhaC/garK | pentapetide repeats‑related protein/glycerate kinase I |
| * | NC_000913 | 422,435 | 0 | T | G | 24.8% | 668.2 / 57.1 | 335 | intergenic (+76/‑83) | proY/malZ | proline‑specific permease/maltodextrin glucosidase |
| * | NC_000913 | 1,708,910 | 0 | G | C | 24.3% | 334.6 / 34.6 | 207 | A664A (GCG→GCC) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | NC_000913 | 696,534 | 0 | G | T | 23.5% | 248.1 / 29.0 | 119 | intergenic (‑30/+8) | glnX/glnV | tRNA‑Gln/tRNA‑Gln |
| Marginal new junction evidence (lowest skew 10 of 38 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1207805 | 241 (0.600) | 176 (0.490) | 127/268 | 3.7 | 45.4% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 208 (0.580) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 1207790 = | 237 (0.590) | 149 (0.410) | 113/268 | 5.7 | 40.4% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 229 (0.630) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 696863 = | 151 (0.370) | 89 (0.240) +GAAGAAACAATC |
43/276 | 25.3 | 25.0% | intergenic (‑33/+2) | glnW/glnU | tRNA‑Gln/tRNA‑Gln |
| ? | NC_000913 | = 697134 | 429 (1.060) | intergenic (‑1/+379) | metT/asnB | tRNA‑Met/asparagine synthetase B | |||||
| * | ? | NC_000913 | = 1287084 | 143 (0.350) | 65 (0.190) | 37/260 | 26.3 | 24.3% | intergenic (+558/+3) | narI/tpr | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/protamine‑like protein |
| ? | NC_000913 | 1287557 = | 281 (0.800) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | NC_000913 | 781369 = | 242 (0.600) | 124 (0.320) +GAAG |
44/292 | 26.4 | 38.0% | noncoding (1/76 nt) | lysZ | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 174 (0.430) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | 781577 = | 268 (0.660) | 203 (0.520) +GAAG |
43/292 | 26.8 | 48.6% | noncoding (1/76 nt) | lysQ | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 174 (0.430) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | 780554 = | 477 (1.180) | 95 (0.240) +GAAG |
43/292 | 26.8 | 23.1% | noncoding (1/76 nt) | lysT | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 174 (0.430) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | 781369 = | 242 (0.600) | 104 (0.260) +G |
40/298 | 28.7 | 36.9% | noncoding (1/76 nt) | lysZ | tRNA‑Lys |
| ? | NC_000913 | = 2521128 | 116 (0.290) | intergenic (+2/‑45) | valX/valY | tRNA‑Val/tRNA‑Val | |||||
| * | ? | NC_000913 | 781369 = | 242 (0.600) | 127 (0.320) +GAG |
39/294 | 28.7 | 38.4% | noncoding (1/76 nt) | lysZ | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 174 (0.430) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | = 781446 | 227 (0.560) | 46 (0.130) | 29/260 | 30.2 | 13.8% | intergenic (+2/‑131) | lysZ/lysQ | tRNA‑Lys/tRNA‑Lys |
| ? | NC_000913 | 2521487 = | 376 (1.070) | intergenic (+159/+106) | lysV/xapR | tRNA‑Lys/transcriptional activator of xapAB | |||||