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 43 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,947,467 | 0 | A | C | 41.8% | 100.3 / 132.6 | 91 | intergenic (+4/‑30) | metZ/metW | tRNA‑Met/tRNA‑Met |
| * | NC_000913 | 2,947,481 | 1 | . | A | 36.7% | 94.9 / 117.1 | 60 | intergenic (+18/‑16) | metZ/metW | tRNA‑Met/tRNA‑Met |
| * | NC_000913 | 2,947,591 | 0 | A | . | 33.3% | 160.8 / 85.4 | 69 | intergenic (+18/‑16) | metW/metV | tRNA‑Met/tRNA‑Met |
| * | NC_000913 | 1,708,901 | 0 | A | C | 31.9% | 183.9 / 61.0 | 198 | R661R (CGA→CGC) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | NC_000913 | 422,429 | 0 | T | G | 30.7% | 572.4 / 98.5 | 357 | intergenic (+70/‑89) | proY/malZ | proline‑specific permease/maltodextrin glucosidase |
| * | NC_000913 | 1,708,930 | 0 | C | A | 29.9% | 333.4 / 68.6 | 212 | P671Q (CCG→CAG) | 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 | 29.6% | 570.0 / inf | 527 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 696,801 | 0 | A | T | 29.3% | 249.4 / 68.9 | 137 | noncoding (30/75 nt) | glnW | tRNA‑Gln |
| * | NC_000913 | 2,947,465 | 0 | T | . | 29.2% | 309.3 / 140.9 | 131 | intergenic (+2/‑32) | metZ/metW | tRNA‑Met/tRNA‑Met |
| * | NC_000913 | 3,270,167 | 0 | C | G | 29.1% | 229.9 / 56.4 | 205 | intergenic (+565/+458) | yhaC/garK | pentapetide repeats‑related protein/glycerate kinase I |
| * | NC_000913 | 4,606,192 | 0 | G | C | 28.8% | 99.1 / 12.9 | 63 | intergenic (‑27/+8) | leuV/leuP | tRNA‑Leu/tRNA‑Leu |
| * | NC_000913 | 3,270,151 | 0 | A | C | 27.1% | 159.5 / 28.9 | 172 | intergenic (+549/+474) | yhaC/garK | pentapetide repeats‑related protein/glycerate kinase I |
| * | NC_000913 | 4,392,457 | 0 | G | T | 26.6% | 359.5 / 21.0 | 243 | intergenic (+22/‑15) | glyV/glyX | tRNA‑Gly/tRNA‑Gly |
| * | NC_000913 | 423,552 | 0 | T | G | 26.5% | 555.2 / 64.0 | 294 | G345G (GGT→GGG) | malZ | maltodextrin glucosidase |
| * | NC_000913 | 2,560,996 | 0 | G | T | 26.5% | 543.6 / 75.9 | 298 | intergenic (+98/‑372) | yffL/yffM | CPZ‑55 prophage; uncharacterized protein/CPZ‑55 prophage; uncharacterized protein |
| * | NC_000913 | 1,552,191 | 0 | C | A | 26.3% | 720.1 / 103.9 | 392 | intergenic (+200/+207) | fdnI/yddM | formate dehydrogenase‑N, cytochrome B556 (gamma) subunit, nitrate‑inducible/putative DNA‑binding transcriptional regulator |
| * | NC_000913 | 3,269,994 | 0 | G | T | 25.6% | 270.4 / 25.3 | 194 | intergenic (+392/+631) | yhaC/garK | pentapetide repeats‑related protein/glycerate kinase I |
| * | NC_000913 | 1,708,910 | 0 | G | C | 25.3% | 331.4 / 29.7 | 193 | A664A (GCG→GCC) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | NC_000913 | 422,432 | 0 | T | G | 25.1% | 700.9 / 69.4 | 357 | intergenic (+73/‑86) | proY/malZ | proline‑specific permease/maltodextrin glucosidase |
| * | NC_000913 | 422,435 | 0 | T | G | 25.1% | 741.5 / 64.5 | 357 | intergenic (+76/‑83) | proY/malZ | proline‑specific permease/maltodextrin glucosidase |
| Marginal new junction evidence (lowest skew 10 of 34 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 781369 = | 236 (0.570) | 148 (0.370) +GAG |
47/294 | 24.4 | 42.7% | noncoding (1/76 nt) | lysZ | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 170 (0.410) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | = 1287084 | 165 (0.400) | 80 (0.220) | 39/260 | 24.5 | 28.2% | intergenic (+558/+3) | narI/tpr | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/protamine‑like protein |
| ? | NC_000913 | 1287557 = | 265 (0.740) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | NC_000913 | 781369 = | 236 (0.570) | 147 (0.370) +GAAG |
45/292 | 25.0 | 42.7% | noncoding (1/76 nt) | lysZ | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 169 (0.410) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | 781369 = | 236 (0.570) | 141 (0.340) +G |
46/298 | 25.2 | 45.8% | noncoding (1/76 nt) | lysZ | tRNA‑Lys |
| ? | NC_000913 | = 2521128 | 100 (0.240) | intergenic (+2/‑45) | valX/valY | tRNA‑Val/tRNA‑Val | |||||
| * | ? | NC_000913 | 781577 = | 292 (0.710) | 189 (0.470) +GAAG |
44/292 | 25.4 | 45.7% | noncoding (1/76 nt) | lysQ | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 169 (0.410) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | 696863 = | 146 (0.350) | 88 (0.230) +GAAGAAACAATC |
40/276 | 25.6 | 26.2% | intergenic (‑33/+2) | glnW/glnU | tRNA‑Gln/tRNA‑Gln |
| ? | NC_000913 | = 697134 | 393 (0.950) | intergenic (‑1/+379) | metT/asnB | tRNA‑Met/asparagine synthetase B | |||||
| * | ? | NC_000913 | 780554 = | 466 (1.130) | 98 (0.240) +GAAG |
43/292 | 25.8 | 24.1% | noncoding (1/76 nt) | lysT | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 169 (0.410) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | = 2357690 | 274 (0.660) | 56 (0.150) +AATTAGAAGGTT |
37/276 | 26.9 | 18.2% | coding (787/900 nt) | yfaD | transposase_31 family protein |
| ? | NC_000913 | 2357691 = | 274 (0.660) | coding (788/900 nt) | yfaD | transposase_31 family protein | |||||
| * | ? | NC_000913 | 781369 = | 236 (0.570) | 183 (0.450) +G |
32/298 | 31.2 | 52.4% | noncoding (1/76 nt) | lysZ | tRNA‑Lys |
| ? | NC_000913 | = 2521129 | 98 (0.240) | intergenic (+3/‑44) | valX/valY | tRNA‑Val/tRNA‑Val | |||||
| * | ? | NC_000913 | = 781446 | 238 (0.580) | 51 (0.140) | 25/260 | 31.3 | 15.6% | intergenic (+2/‑131) | lysZ/lysQ | tRNA‑Lys/tRNA‑Lys |
| ? | NC_000913 | 2521487 = | 347 (0.970) | intergenic (+159/+106) | lysV/xapR | tRNA‑Lys/transcriptional activator of xapAB | |||||