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 |
| Marginal read alignment evidence (highest frequency 20 of 39 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 1,499,497 | 1 | . | C | 57.5% | 113.3 / inf | 219 | intergenic (+74/‑90) | trpS/zapE | tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein |
| * | NC_002947 | 1,499,498 | 0 | T | G | 57.5% | 63.1 / inf | 219 | intergenic (+75/‑89) | trpS/zapE | tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein |
| * | NC_002947 | 4,741,232 | 0 | C | T | 53.8% | 74.8 / 10.0 | 65 | intergenic (+469/+284) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,235 | 0 | C | T | 53.8% | 45.0 / 25.2 | 65 | intergenic (+472/+281) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,238 | 0 | C | G | 53.8% | ‑0.0 / 105.9 | 65 | intergenic (+475/+278) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,240 | 0 | A | C | 53.8% | 8.4 / 52.2 | 65 | intergenic (+477/+276) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,241 | 0 | C | T | 53.8% | 67.9 / 14.9 | 65 | intergenic (+478/+275) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,245 | 0 | A | . | 53.8% | 61.2 / 153.3 | 65 | intergenic (+482/+271) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 699,722 | 0 | A | G | 53.6% | 259.5 / inf | 291 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 4,741,229 | 0 | A | C | 50.8% | 15.9 / 56.2 | 65 | intergenic (+466/+287) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,348,705 | 0 | A | G | 50.4% | 243.0 / inf | 331 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 4,808,180 | 0 | A | . | 50.0% | 17.8 / 10.8 | 20 | intergenic (‑289/‑266) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,741,228 | 1 | . | C | 49.2% | ‑5.5 / 188.4 | 65 | intergenic (+465/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,230 | 0 | A | G | 49.2% | 37.3 / 25.6 | 65 | intergenic (+467/+286) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,808,179 | 0 | G | . | 47.4% | 5.6 / 34.9 | 19 | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,741,231 | 0 | C | G | 46.2% | 0.6 / 110.3 | 65 | intergenic (+468/+285) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,234 | 0 | C | T | 46.2% | 53.1 / 67.3 | 65 | intergenic (+471/+282) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,236 | 0 | G | T | 46.2% | 39.4 / 52.4 | 65 | intergenic (+473/+280) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,237 | 0 | C | G | 46.2% | 1.5 / 103.8 | 65 | intergenic (+474/+279) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,243 | 0 | G | T | 46.2% | 38.4 / 56.4 | 65 | intergenic (+480/+273) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| Marginal new junction evidence (lowest skew 10 of 23 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 4808174 | 22 (0.090) | 78 (0.360) | 42/228 | 9.4 | 82.7% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 4808189 = | 12 (0.050) | intergenic (‑298/‑257) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | 4808174 = | 26 (0.110) | 34 (0.200) | 19/174 | 12.9 | 39.6% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5988935 | 85 (0.510) | intergenic (+229/‑317) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | 1070247 = | 210 (0.890) | 59 (0.280) | 25/218 | 13.4 | 35.8% | intergenic (+47/+95) | aroP‑I/PP_0928 | aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger‑like protein |
| ? | NC_002947 | = 4808161 | 24 (0.110) | intergenic (‑270/‑285) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | = 5201567 | 194 (0.830) | 30 (0.130) | 27/238 | 13.8 | 14.9% | intergenic (‑53/‑127) | PP_4582/PP_4583 | membrane protein/putative Peptidase |
| ? | NC_002947 | 5201666 = | 153 (0.670) | intergenic (‑152/‑28) | PP_4582/PP_4583 | membrane protein/putative Peptidase | |||||
| * | ? | NC_002947 | = 4808179 | 11 (0.050) | 85 (0.370) | 25/242 | 14.6 | 83.4% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 4808194 = | 23 (0.100) | intergenic (‑303/‑252) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | 1184570 = | 202 (0.860) | 32 (0.160) | 11/214 | 19.0 | 24.1% | intergenic (‑186/‑226) | mltF/purL | membrane‑bound lytic murein transglycosylase F/phosphoribosylformylglycinamidine synthase |
| ? | NC_002947 | = 4808159 | 24 (0.120) | intergenic (‑268/‑287) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | = 4808174 | 31 (0.130) | 32 (0.150) | 11/216 | 19.1 | 18.7% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 5737599 = | 251 (1.210) | intergenic (‑154/+48) | hutU/PP_5034 | urocanate hydratase/hypothetical protein | |||||
| * | ? | NC_002947 | = 4945197 | 148 (0.630) | 19 (0.090) | 12/230 | 19.3 | 12.6% | intergenic (+557/+241) | PP_5673/flhB | D‑alanine‑‑D‑alanine ligase/flagellin export apparatus substrate specificity protein |
| ? | NC_002947 | 4945389 = | 125 (0.570) | intergenic (+749/+49) | PP_5673/flhB | D‑alanine‑‑D‑alanine ligase/flagellin export apparatus substrate specificity protein | |||||
| * | ? | NC_002947 | = 4808176 | 31 (0.130) | 10 (0.050) | 10/228 | 20.3 | 12.3% | intergenic (‑285/‑270) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 4808280 = | 114 (0.520) | intergenic (‑389/‑166) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | = 1691785 | 243 (1.030) | 30 (0.130) +C |
11/242 | 20.4 | 18.1% | intergenic (+52/‑119) | PP_1487/PP_1488 | hypothetical protein/methyl‑accepting chemotaxis transducer |
| ? | NC_002947 | = 4808174 | 31 (0.130) | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||