mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| MC JC | 1,648,886 | Δ12 bp | intergenic (‑123/+162) | oprB‑II ← / ← PP_1446 | carbohydrate‑selective porin/TonB‑dependent receptor |
| RA | 1,851,762 | C→T | S269L (TCG→TTG) | relA → | ATP:GTP 3'‑pyrophosphotransferase |
| RA | 4,741,273 | +C | intergenic (+464/+288) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,275 | A→G | intergenic (+466/+286) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,277 | C→T | intergenic (+468/+284) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,280 | C→T | intergenic (+471/+281) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,283 | C→G | intergenic (+474/+278) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,285 | 2 bp→CT | intergenic (+476/+275) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_002947 | 171353–176296 | 176296 | 1–4944 | 11 [10] | [10] 11 | PP_16SA–[PP_5SA] | PP_16SA,PP_23SA,[PP_5SA] |
| * | * | ÷ | NC_002947 | 176639–181705 | 181705 | 1–5067 | 11 [10] | [9] 11 | PP_16SB–[PP_r01] | PP_16SB,PP_23SB,[PP_r01] |
| * | * | ÷ | NC_002947 | 4808205 | 4808218 | 14 | 28 [0] | [0] 28 | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 235331 = | 50 (1.200) | 13 (0.350) | 10/238 | 2.6 | 22.6% | intergenic (+28/+97) | PP_0183/argH | glutathione S‑transferase/argininosuccinate lyase |
| ? | NC_002947 | 235390 = | 45 (1.230) | intergenic (+87/+38) | PP_0183/argH | glutathione S‑transferase/argininosuccinate lyase | |||||
| * | ? | NC_002947 | = 652785 | 38 (0.910) | 21 (0.590) | 18/230 | 1.1 | 56.5% | coding (1961/1962 nt) | ctpL | methyl‑accepting chemotaxis protein CtpL |
| ? | NC_002947 | = 4808204 | 0 (0.000) | intergenic (‑268/‑287) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | 1037774 = | 55 (1.320) | 11 (0.320) | 10/224 | 2.4 | 22.3% | intergenic (+16/+100) | PP_0896/PP_0897 | carbon‑nitrogen hydrolase family protein/class 1 fumarate hydratase |
| ? | NC_002947 | 1037852 = | 31 (0.900) | intergenic (+94/+22) | PP_0896/PP_0897 | carbon‑nitrogen hydrolase family protein/class 1 fumarate hydratase | |||||
| * | ? | NC_002947 | = 1487042 | 24 (0.580) | 8 (0.250) | 7/210 | 2.9 | 27.8% | intergenic (+51/+79) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS |
| ? | NC_002947 | = 1487072 | 23 (0.710) | intergenic (+81/+49) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS | |||||
| * | ? | NC_002947 | 1899260 = | 48 (1.150) | 12 (0.320) | 12/240 | 2.2 | 23.4% | intergenic (+288/‑232) | PP_t18/PP_1703 | tRNA‑Asp/assimilatory nitrate reductase/sulfite reductase |
| ? | NC_002947 | 1899320 = | 36 (0.970) | intergenic (+348/‑172) | PP_t18/PP_1703 | tRNA‑Asp/assimilatory nitrate reductase/sulfite reductase | |||||
| * | ? | NC_002947 | = 1970782 | 27 (0.650) | 8 (0.230) | 8/230 | 3.0 | 24.2% | intergenic (+33/‑233) | mtnA/PP_mr25 | methylthioribose‑1‑phosphate isomerase/gyrA regulatory region |
| ? | NC_002947 | = 1970844 | 27 (0.760) | intergenic (+95/‑171) | mtnA/PP_mr25 | methylthioribose‑1‑phosphate isomerase/gyrA regulatory region | |||||
| * | ? | NC_002947 | 4536247 = | NA (NA) | 29 (0.700) | 28/270 | 0.6 | 87.9% | intergenic (+730/‑85) | PP_4022/PP_4024 | hypothetical protein/transposase |
| ? | NC_002947 | 4965165 = | 4 (0.100) | coding (238/1476 nt) | fleQ | transcriptional regulator FleQ | |||||
| * | ? | NC_002947 | = 4586100 | 20 (0.480) | 9 (0.300) | 8/194 | 2.4 | 38.0% | intergenic (+139/+78) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| ? | NC_002947 | = 4586128 | 15 (0.500) | intergenic (+167/+50) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase | |||||
| * | ? | NC_002947 | 4625972 = | NA (NA) | 29 (0.700) | 25/270 | 0.8 | 90.6% | intergenic (+4519/+45) | PP_5654/PP_4091 | phosphotriesterase/transposase |
| ? | NC_002947 | = 4965172 | 3 (0.070) | coding (231/1476 nt) | fleQ | transcriptional regulator FleQ | |||||
| * | ? | NC_002947 | 4808219 = | 0 (0.000) | 10 (0.320) | 10/200 | 2.0 | 35.1% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5988991 | 37 (1.200) | intergenic (+229/‑317) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 4861197 | 58 (1.400) | 12 (0.350) | 9/220 | 2.5 | 20.3% | intergenic (‑103/+134) | ligA/PP_4275 | DNA ligase/cell division protein ZipA |
| ? | NC_002947 | = 4861238 | 47 (1.390) | intergenic (‑144/+93) | ligA/PP_4275 | DNA ligase/cell division protein ZipA | |||||
| * | ? | NC_002947 | 5201627 = | 29 (0.700) | 12 (0.400) | 12/196 | 1.6 | 48.9% | intergenic (‑65/‑115) | PP_4582/PP_4583 | membrane protein/putative Peptidase |
| ? | NC_002947 | 5201722 = | 4 (0.130) | intergenic (‑160/‑20) | PP_4582/PP_4583 | membrane protein/putative Peptidase | |||||
| * | ? | NC_002947 | 5698783 = | 36 (0.870) | 11 (0.300) | 9/236 | 2.8 | 26.4% | intergenic (+17/‑150) | hslU/PP_5002 | protease HslVU ATPase subunit/hypothetical protein |
| ? | NC_002947 | 5698866 = | 30 (0.830) | intergenic (+100/‑67) | hslU/PP_5002 | protease HslVU ATPase subunit/hypothetical protein | |||||
| * | ? | NC_002947 | = 5734097 | 58 (1.400) | 13 (0.340) | 13/246 | 2.0 | 21.3% | intergenic (‑67/+90) | proY/hutH | proline (histidine) APC transporter/histidine ammonia‑lyase |
| ? | NC_002947 | = 5734152 | 43 (1.140) | intergenic (‑122/+35) | proY/hutH | proline (histidine) APC transporter/histidine ammonia‑lyase | |||||
| * | ? | NC_002947 | = 6000988 | 28 (0.670) | 7 (0.220) | 7/210 | 2.9 | 20.1% | intergenic (+39/+70) | PP_5256/amaA | cyclic nucleotide‑binding protein/L‑pipecolate oxidase |
| ? | NC_002947 | = 6001022 | 34 (1.050) | intergenic (+73/+36) | PP_5256/amaA | cyclic nucleotide‑binding protein/L‑pipecolate oxidase | |||||