mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | U00096 | 4,296,060 | 0 | C | T | 34.8% | 151.3 / 141.8 | 141 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | U00096 | 1,708,751 | 0 | A | G | 32.4% | 34.8 / 21.8 | 37 | E611E (GAA→GAG) | rsxC | SoxR [2Fe‑2S] reducing system protein RsxC |
| * | U00096 | 2,947,467 | 0 | A | C | 29.3% | 79.6 / 29.4 | 41 | intergenic (+4/‑30) | metZ/metW | tRNA‑Met/tRNA‑Met |
| * | U00096 | 2,947,591 | 0 | A | . | 25.8% | 80.8 / 25.7 | 32 | intergenic (+18/‑16) | metW/metV | tRNA‑Met/tRNA‑Met |
| * | U00096 | 422,429 | 0 | T | G | 23.5% | 230.2 / 19.5 | 121 | intergenic (+70/‑89) | proY/malZ | putative transporter ProY/maltodextrin glucosidase |
| * | U00096 | 2,312,028 | 0 | G | A | 22.1% | 309.4 / 68.4 | 136 | T241I (ACC→ATC) | ompC | outer membrane porin C |
| * | U00096 | 2,312,030 | 0 | T | A | 22.1% | 293.7 / 75.6 | 136 | E240D (GAA→GAT) | ompC | outer membrane porin C |
| * | U00096 | 2,947,465 | 0 | T | . | 21.8% | 154.6 / 39.1 | 55 | intergenic (+2/‑32) | metZ/metW | tRNA‑Met/tRNA‑Met |
| * | U00096 | 2,312,035 | 0 | C | A | 21.4% | 358.2 / 54.1 | 140 | A239S (GCT→TCT) | ompC | outer membrane porin C |
| * | U00096 | 422,435 | 0 | T | G | 21.0% | 256.3 / 11.2 | 121 | intergenic (+76/‑83) | proY/malZ | putative transporter ProY/maltodextrin glucosidase |
| * | U00096 | 2,312,044 | 0 | C | A | 21.0% | 333.9 / 61.1 | 138 | G236C (GGC→TGC) ‡ | ompC | outer membrane porin C |
| * | U00096 | 2,312,038 | 0 | G | T | 20.9% | 325.9 / 81.9 | 139 | R238S (CGT→AGT) | ompC | outer membrane porin C |
| * | U00096 | 2,312,039 | 0 | G | C | 20.9% | 356.9 / 92.7 | 139 | D237E (GAC→GAG) | ompC | outer membrane porin C |
| * | U00096 | 2,312,042 | 0 | G | C | 20.9% | 379.1 / 75.0 | 140 | G236G (GGC→GGG) ‡ | ompC | outer membrane porin C |
| * | U00096 | 2,312,050 | 0 | C | A | 20.5% | 362.1 / 68.1 | 147 | G234C (GGT→TGT) | ompC | outer membrane porin C |
| * | U00096 | 4,338,130 | 0 | G | C | 20.0% | 557.8 / 55.3 | 235 | intergenic (‑201/+124) | adiY/adiA | DNA‑binding transcriptional activator AdiY/arginine decarboxylase, degradative |
| Marginal new junction evidence (lowest skew 10 of 14 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | U00096 | = 781446 | 113 (0.610) | 40 (0.250) | 17/252 | 15.0 | 25.5% | intergenic (+2/‑131) | lysZ/lysQ | tRNA‑Lys/tRNA‑Lys |
| ? | U00096 | 2521487 = | 136 (0.850) | intergenic (+159/+106) | lysV/xapR | tRNA‑Lys/DNA‑binding transcriptional activator XapR | |||||
| * | ? | U00096 | 781369 = | 99 (0.530) | 62 (0.340) +G |
21/290 | 15.1 | 45.6% | noncoding (1/76 nt) | lysZ | tRNA‑Lys |
| ? | U00096 | = 2521129 | 50 (0.270) | intergenic (+3/‑44) | valX/valY | tRNA‑Val/tRNA‑Val | |||||
| * | ? | U00096 | 781577 = | 94 (0.510) | 91 (0.490) +G |
20/290 | 15.5 | 56.0% | noncoding (1/76 nt) | lysQ | tRNA‑Lys |
| ? | U00096 | = 2521129 | 50 (0.270) | intergenic (+3/‑44) | valX/valY | tRNA‑Val/tRNA‑Val | |||||
| * | ? | U00096 | 780554 = | 226 (1.220) | 60 (0.330) +G |
20/290 | 15.5 | 30.4% | noncoding (1/76 nt) | lysT | tRNA‑Lys |
| ? | U00096 | = 2521129 | 50 (0.270) | intergenic (+3/‑44) | valX/valY | tRNA‑Val/tRNA‑Val | |||||
| * | ? | U00096 | = 1287084 | 64 (0.340) | 19 (0.120) | 13/252 | 16.9 | 15.2% | noncoding (153/171 nt) | rttR | small RNA RttR |
| ? | U00096 | 1287557 = | 157 (0.980) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | U00096 | = 4542690 | 281 (1.510) | 15 (0.090) | 14/274 | 17.5 | 5.6% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | U00096 | = 4542986 | 239 (1.370) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | U00096 | 4542682 = | 280 (1.510) | 10 (0.060) | 10/274 | 19.6 | 3.8% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | U00096 | 4542996 = | 239 (1.370) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | U00096 | = 3973176 | 170 (0.920) | 3 (0.020) | 3/290 | 25.5 | 1.8% | coding (655/1068 nt) | rffG | dTDP‑glucose 4,6‑dehydratase 2 |
| ? | U00096 | 4346697 = | 168 (0.910) | coding (630/1647 nt) | fumB | fumarase B | |||||
| * | ? | U00096 | 1783442 = | 198 (1.070) | 3 (0.020) | 3/290 | 25.5 | 1.5% | coding (466/1701 nt) | fadK | short chain acyl‑CoA synthetase |
| ? | U00096 | = 3785367 | 187 (1.010) | coding (108/1545 nt) | gpmM | 2,3‑bisphosphoglycerate‑independent phosphoglycerate mutase | |||||
| * | ? | U00096 | = 176443 | 199 (1.070) | 3 (0.020) | 3/290 | 25.5 | 1.7% | coding (1337/1422 nt) | clcA | chloride:H(+) antiporter ClcA |
| ? | U00096 | = 829741 | 150 (0.810) | coding (232/999 nt) | ybhG | HlyD_D23 family protein YbhG | |||||