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 37 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 4,741,229 | 0 | A | C | 77.8% | ‑2.9 / 11.5 | 45 | intergenic (+466/+287) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,499,498 | 0 | T | G | 73.1% | 93.1 / 146.2 | 175 | intergenic (+75/‑89) | trpS/zapE | tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein |
| * | NC_002947 | 1,499,497 | 1 | . | C | 72.6% | 150.4 / 174.3 | 175 | intergenic (+74/‑90) | trpS/zapE | tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein |
| * | NC_002947 | 4,741,231 | 0 | C | G | 68.9% | ‑0.6 / 42.3 | 45 | intergenic (+468/+285) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,234 | 0 | C | T | 68.9% | 54.3 / 10.5 | 45 | intergenic (+471/+282) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,237 | 0 | C | G | 68.9% | ‑4.8 / 41.2 | 45 | intergenic (+474/+279) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,239 | 0 | A | G | 68.9% | ‑0.8 / 20.9 | 45 | intergenic (+476/+277) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,244 | 0 | C | G | 68.9% | 0.7 / 47.9 | 45 | intergenic (+481/+272) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,245 | 0 | A | C | 68.9% | 33.6 / 46.4 | 45 | intergenic (+482/+271) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,808,180 | 0 | A | . | 64.3% | 0.6 / 45.0 | 19 | intergenic (‑289/‑266) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,808,176 | 0 | C | . | 57.1% | ‑2.8 / 26.5 | 14 | intergenic (‑285/‑270) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,808,177 | 0 | G | . | 57.1% | ‑5.9 / 26.1 | 14 | intergenic (‑286/‑269) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,808,178 | 0 | C | . | 57.1% | ‑2.8 / 26.5 | 14 | intergenic (‑287/‑268) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,808,171 | 0 | C | . | 53.3% | ‑5.0 / 30.9 | 15 | intergenic (‑280/‑275) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,808,172 | 0 | C | . | 53.3% | ‑1.9 / 32.4 | 15 | intergenic (‑281/‑274) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,808,173 | 0 | G | . | 53.3% | ‑3.3 / 30.9 | 15 | intergenic (‑282/‑273) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,808,174 | 0 | C | . | 53.3% | ‑3.3 / 31.1 | 15 | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,808,175 | 0 | C | . | 53.3% | ‑2.8 / 31.4 | 15 | intergenic (‑284/‑271) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,808,179 | 0 | G | . | 52.9% | ‑2.9 / 37.1 | 17 | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 699,722 | 0 | A | G | 51.0% | 215.0 / 273.7 | 237 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 4808174 | 8 (0.040) | 43 (0.240) | 28/226 | 12.5 | 85.6% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 4808189 = | 7 (0.040) | intergenic (‑298/‑257) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | 4808173 = | 21 (0.110) | 17 (0.090) | 10/238 | 21.1 | 21.4% | intergenic (‑282/‑273) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 4945372 | 104 (0.540) | intergenic (+732/+66) | PP_5673/flhB | D‑alanine‑‑D‑alanine ligase/flagellin export apparatus substrate specificity protein | |||||
| * | ? | NC_002947 | = 4808179 | 5 (0.030) | 42 (0.220) | 9/240 | 21.8 | 84.0% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 4808194 = | 11 (0.060) | intergenic (‑303/‑252) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | 4808193 = | 20 (0.100) | 12 (0.070) | 4/228 | 24.8 | 15.8% | intergenic (‑302/‑253) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 4945201 | 109 (0.590) | intergenic (+561/+237) | PP_5673/flhB | D‑alanine‑‑D‑alanine ligase/flagellin export apparatus substrate specificity protein | |||||
| * | ? | NC_002947 | = 4808130 | 45 (0.230) | 28 (0.150) +ATCG |
4/234 | 25.2 | 50.4% | intergenic (‑239/‑316) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 4808181 = | 12 (0.060) | intergenic (‑290/‑265) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||