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 35 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 4,606,197 | 0 | G | T | 37.5% | 105.3 / 21.4 | 92 | intergenic (‑32/+3) | leuV/leuP | tRNA‑Leu/tRNA‑Leu |
| * | NC_000913 | 4,606,192 | 0 | G | C | 37.4% | 114.2 / 32.1 | 99 | intergenic (‑27/+8) | leuV/leuP | tRNA‑Leu/tRNA‑Leu |
| * | NC_000913 | 1,708,930 | 0 | C | A | 35.1% | 298.9 / 96.2 | 206 | P671Q (CCG→CAG) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | NC_000913 | 1,708,901 | 0 | A | C | 34.1% | 179.0 / 58.7 | 190 | 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 | 32.8% | 811.6 / 148.2 | 479 | intergenic (+200/+207) | fdnI/yddM | formate dehydrogenase‑N, cytochrome B556 (gamma) subunit, nitrate‑inducible/putative DNA‑binding transcriptional regulator |
| * | NC_000913 | 422,429 | 0 | T | G | 30.3% | 577.0 / 101.4 | 361 | intergenic (+70/‑89) | proY/malZ | proline‑specific permease/maltodextrin glucosidase |
| * | NC_000913 | 4,296,060 | 0 | C | T | 30.1% | 565.8 / inf | 532 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 1,708,880 | 0 | C | A | 28.7% | 157.1 / 32.8 | 146 | A654A (GCC→GCA) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | NC_000913 | 1,708,883 | 0 | C | A | 28.0% | 192.0 / 24.9 | 167 | V655V (GTC→GTA) | 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 | 27.6% | 240.8 / 18.2 | 181 | intergenic (+392/+631) | yhaC/garK | pentapetide repeats‑related protein/glycerate kinase I |
| * | NC_000913 | 2,947,591 | 0 | A | . | 27.5% | 208.1 / 79.1 | 80 | intergenic (+18/‑16) | metW/metV | tRNA‑Met/tRNA‑Met |
| * | NC_000913 | 2,947,467 | 0 | A | C | 26.3% | 245.8 / 106.7 | 115 | intergenic (+4/‑30) | metZ/metW | tRNA‑Met/tRNA‑Met |
| * | NC_000913 | 1,708,805 | 0 | T | A | 26.1% | 85.7 / 29.7 | 119 | R629R (CGT→CGA) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | NC_000913 | 1,286,965 | 0 | A | C | 25.7% | 205.9 / 31.1 | 208 | intergenic (+439/+122) | narI/tpr | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/protamine‑like protein |
| * | NC_000913 | 4,392,457 | 0 | G | T | 25.3% | 293.7 / 16.9 | 210 | intergenic (+22/‑15) | glyV/glyX | tRNA‑Gly/tRNA‑Gly |
| * | NC_000913 | 4,606,176 | 0 | T | A | 24.8% | 212.2 / 36.4 | 114 | intergenic (‑11/+24) | leuV/leuP | tRNA‑Leu/tRNA‑Leu |
| * | NC_000913 | 164,601 | 0 | T | G | 24.4% | 518.5 / 49.5 | 258 | intergenic (+67/‑129) | hrpB/mrcB | putative ATP‑dependent helicase/fused glycosyl transferase and transpeptidase |
| * | NC_000913 | 1,286,870 | 0 | C | A | 24.1% | 292.7 / 13.4 | 153 | intergenic (+344/+217) | narI/tpr | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/protamine‑like protein |
| * | NC_000913 | 1,287,217 | 0 | G | T | 23.7% | 658.3 / 136.9 | 356 | intergenic (‑41/+27) | tpr/tyrV | protamine‑like protein/tRNA‑Tyr |
| * | NC_000913 | 1,708,910 | 0 | G | C | 23.5% | 316.4 / 21.4 | 185 | A664A (GCG→GCC) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| Marginal new junction evidence (lowest skew 10 of 43 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 4542690 | 476 (1.180) | 59 (0.160) | 51/282 | 20.5 | 11.3% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | = 4542986 | 479 (1.260) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | = 1287084 | 159 (0.390) | 86 (0.250) | 44/260 | 21.1 | 30.0% | intergenic (+558/+3) | narI/tpr | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/protamine‑like protein |
| ? | NC_000913 | 1287557 = | 264 (0.760) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | NC_000913 | = 1207805 | 330 (0.820) | 53 (0.150) | 45/268 | 21.4 | 15.3% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 294 (0.820) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 781577 = | 272 (0.670) | 198 (0.500) +GAAG |
51/292 | 21.4 | 48.0% | noncoding (1/76 nt) | lysQ | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 168 (0.420) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | 781369 = | 266 (0.660) | 146 (0.370) +GAAG |
51/292 | 21.4 | 40.9% | noncoding (1/76 nt) | lysZ | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 168 (0.420) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | 780554 = | 482 (1.200) | 99 (0.250) +GAAG |
50/292 | 21.7 | 23.8% | noncoding (1/76 nt) | lysT | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 168 (0.420) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | 1207790 = | 329 (0.820) | 52 (0.140) | 44/268 | 21.8 | 14.8% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 303 (0.840) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 781446 | 232 (0.580) | 74 (0.210) | 39/260 | 23.0 | 22.5% | intergenic (+2/‑131) | lysZ/lysQ | tRNA‑Lys/tRNA‑Lys |
| ? | NC_000913 | 2521487 = | 310 (0.890) | intergenic (+159/+106) | lysV/xapR | tRNA‑Lys/transcriptional activator of xapAB | |||||
| * | ? | NC_000913 | 4542682 = | 474 (1.180) | 48 (0.130) | 43/282 | 23.4 | 9.4% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | 4542996 = | 481 (1.270) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | 781369 = | 266 (0.660) | 155 (0.390) +GAG |
41/294 | 25.2 | 42.2% | noncoding (1/76 nt) | lysZ | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 168 (0.420) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||