mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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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 |
| RA | 677,954 | C→T | G356D (GGC→GAC) | PP_0581 ← | 3‑oxoacyl‑ACP reductase |
| RA | 1,164,645 | T→G | T256P (ACC→CCC) | hexR ← | DNA‑binding transcriptional regulator |
| RA | 1,647,969 | G→A | Y265Y (TAC→TAT) | oprB‑II ← | carbohydrate‑selective porin |
| MC JC | 1,842,677 | Δ53 bp | coding (2107‑2159/2754 nt) | gacS ← | sensor protein GacS |
| RA | 1,851,958 | C→G | H334Q (CAC→CAG) | relA → | ATP:GTP 3'‑pyrophosphotransferase |
| 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 | 171361–176311 | 176311 | 1–4951 | 11 [9] | [10] 11 | PP_16SA–[PP_5SA] | PP_16SA,PP_23SA,[PP_5SA] |
| * | * | ÷ | NC_002947 | 176648–181694 | 181694 | 1–5047 | 11 [10] | [10] 12 | PP_16SB–[PP_r01] | PP_16SB,PP_23SB,[PP_r01] |
| * | * | ÷ | NC_002947 | 1131720 | 1131813 | 94 | 11 [10] | [10] 11 | PP_0992 | hypothetical protein |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 337784 = | 39 (1.020) | 7 (0.230) | 8/222 | 2.6 | 20.2% | intergenic (‑31/+98) | PP_0279/PP_0280 | hypothetical protein/amino acid ABC transporter permease |
| ? | NC_002947 | 337868 = | 24 (0.790) | intergenic (‑115/+14) | PP_0279/PP_0280 | hypothetical protein/amino acid ABC transporter permease | |||||
| * | ? | NC_002947 | = 359665 | 52 (1.360) | 14 (0.390) | 13/262 | 2.0 | 23.5% | intergenic (+22/+98) | gbdR/PP_0299 | AraC family transcriptional regulator/hypothetical protein |
| ? | NC_002947 | = 359732 | 42 (1.170) | intergenic (+89/+31) | gbdR/PP_0299 | AraC family transcriptional regulator/hypothetical protein | |||||
| * | ? | NC_002947 | = 1487042 | 19 (0.500) | 13 (0.430) | 11/218 | 1.8 | 44.1% | intergenic (+51/+79) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS |
| ? | NC_002947 | = 1487072 | 18 (0.600) | intergenic (+81/+49) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS | |||||
| * | ? | NC_002947 | 1967188 = | 36 (0.940) | 13 (0.450) | 11/212 | 1.8 | 41.0% | intergenic (+15/+104) | PP_1762/yciK | hypothetical protein/putative oxidoreductase |
| ? | NC_002947 | 1967284 = | 10 (0.340) | intergenic (+111/+8) | PP_1762/yciK | hypothetical protein/putative oxidoreductase | |||||
| * | ? | NC_002947 | = 2050638 | 21 (0.550) | 8 (0.290) | 8/204 | 2.3 | 36.9% | intergenic (‑88/+87) | PP_1824/PP_1825 | Smr domain‑containing protein/hypothetical protein |
| ? | NC_002947 | = 2050674 | 12 (0.430) | intergenic (‑124/+51) | PP_1824/PP_1825 | Smr domain‑containing protein/hypothetical protein | |||||
| * | ? | NC_002947 | 2100003 = | 32 (0.840) | 10 (0.310) | 10/232 | 2.2 | 28.7% | intergenic (‑71/‑134) | PP_1875/PP_1876 | two‑component system sensor histidine kinase/response regulator/AAA family ATP/GTP‑binding protein |
| ? | NC_002947 | 2100098 = | 23 (0.720) | intergenic (‑166/‑39) | PP_1875/PP_1876 | two‑component system sensor histidine kinase/response regulator/AAA family ATP/GTP‑binding protein | |||||
| * | ? | NC_002947 | = 4443120 | 34 (0.890) | 9 (0.240) | 9/268 | 3.0 | 22.0% | coding (906/1314 nt) | nicT | metabolite transport protein NicT |
| ? | NC_002947 | = 4443151 | 31 (0.840) | coding (875/1314 nt) | nicT | metabolite transport protein NicT | |||||
| * | ? | NC_002947 | = 4586100 | 30 (0.790) | 16 (0.580) | 11/202 | 1.6 | 39.6% | intergenic (+139/+78) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| ? | NC_002947 | = 4586128 | 27 (0.970) | intergenic (+167/+50) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase | |||||
| * | ? | NC_002947 | 4808219 = | 0 (0.000) | 19 (0.660) | 16/208 | 0.9 | 60.3% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5988991 | 25 (0.870) | intergenic (+229/‑317) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 4808224 | 1 (0.030) | 22 (0.630) | 15/254 | 1.6 | 47.4% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 5988821 = | 48 (1.370) | intergenic (+59/‑487) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 4861197 | 40 (1.050) | 11 (0.350) | 10/228 | 2.2 | 23.2% | intergenic (‑103/+134) | ligA/PP_4275 | DNA ligase/cell division protein ZipA |
| ? | NC_002947 | = 4861238 | 40 (1.280) | intergenic (‑144/+93) | ligA/PP_4275 | DNA ligase/cell division protein ZipA | |||||
| * | ? | NC_002947 | = 4896421 | 40 (1.050) | 10 (0.270) | 10/268 | 2.7 | 20.1% | intergenic (+9/‑199) | PP_4304/sbp‑I | VIC family cation transporter/sulfate ABC transporter substrate‑binding protein |
| ? | NC_002947 | = 4896512 | 41 (1.110) | intergenic (+100/‑108) | PP_4304/sbp‑I | VIC family cation transporter/sulfate ABC transporter substrate‑binding protein | |||||
| * | ? | NC_002947 | = 5914240 | 32 (0.840) | 10 (0.330) | 7/222 | 2.9 | 25.5% | intergenic (+76/+77) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase |
| ? | NC_002947 | = 5914280 | 33 (1.080) | intergenic (+116/+37) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase | |||||
| * | ? | NC_002947 | 6013865 = | 39 (1.020) | 6 (0.190) | 7/224 | 2.9 | 20.9% | intergenic (+14/+96) | xpt/PP_5266 | xanthine phosphoribosyltransferase/acetyl‑CoA hydrolase family protein |
| ? | NC_002947 | 6013947 = | 14 (0.450) | intergenic (+96/+14) | xpt/PP_5266 | xanthine phosphoribosyltransferase/acetyl‑CoA hydrolase family protein | |||||