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 36 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 4,741,240 | 0 | A | C | 59.6% | 38.1 / 34.6 | 52 | intergenic (+477/+276) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,241 | 0 | C | T | 59.6% | 55.8 / 23.5 | 52 | intergenic (+478/+275) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,245 | 0 | A | . | 59.6% | 15.1 / 104.3 | 52 | intergenic (+482/+271) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,238 | 0 | C | G | 58.8% | 1.1 / 75.6 | 52 | intergenic (+475/+278) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,228 | 1 | . | C | 51.9% | 27.2 / 109.6 | 52 | intergenic (+465/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,230 | 0 | A | G | 51.9% | 60.0 / 61.9 | 52 | intergenic (+467/+286) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,348,705 | 0 | A | G | 50.0% | 311.1 / 103.6 | 304 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 4,808,176 | 0 | C | . | 50.0% | 3.7 / 33.5 | 18 | intergenic (‑285/‑270) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,808,177 | 0 | G | . | 50.0% | ‑3.3 / 34.2 | 18 | intergenic (‑286/‑269) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,808,178 | 0 | C | . | 50.0% | 6.5 / 33.5 | 18 | intergenic (‑287/‑268) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,808,179 | 0 | G | . | 48.3% | 8.2 / 56.3 | 29 | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,808,180 | 0 | A | . | 48.3% | 34.9 / 48.4 | 33 | intergenic (‑289/‑266) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 699,722 | 0 | A | G | 48.2% | 290.6 / 67.0 | 249 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 4,741,229 | 0 | A | C | 48.1% | 1.9 / 44.9 | 52 | intergenic (+466/+287) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,327,121 | 0 | C | T | 44.9% | 220.2 / inf | 345 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 4,741,231 | 0 | C | G | 40.4% | 16.0 / 71.5 | 52 | intergenic (+468/+285) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,234 | 0 | C | T | 40.4% | 33.7 / 49.0 | 52 | intergenic (+471/+282) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,236 | 0 | G | T | 40.4% | 22.9 / 38.8 | 52 | intergenic (+473/+280) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,237 | 0 | C | G | 40.4% | 17.3 / 70.3 | 52 | intergenic (+474/+279) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,239 | 0 | A | G | 40.4% | 39.0 / 37.9 | 52 | intergenic (+476/+277) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| Marginal new junction evidence (lowest skew 10 of 14 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 4808174 | 23 (0.110) | 95 (0.470) | 44/230 | 9.6 | 80.7% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 4808189 = | 24 (0.120) | intergenic (‑298/‑257) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | 4808174 = | 35 (0.160) | 42 (0.270) | 28/176 | 10.5 | 43.3% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5988935 | 85 (0.550) | intergenic (+229/‑317) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 4808179 | 19 (0.090) | 101 (0.470) | 36/244 | 12.4 | 79.6% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 4808194 = | 33 (0.150) | intergenic (‑303/‑252) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | = 4808174 | 37 (0.170) | 37 (0.190) | 13/218 | 19.7 | 22.4% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 5737599 = | 223 (1.170) | intergenic (‑154/+48) | hutU/PP_5034 | urocanate hydratase/hypothetical protein | |||||
| * | ? | NC_002947 | = 4808179 | 20 (0.090) | 42 (0.300) +43 bp |
5/160 | 20.9 | 49.0% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 4808259 = | 115 (0.530) | intergenic (‑368/‑187) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | 4808193 = | 51 (0.240) | 22 (0.110) | 10/232 | 22.2 | 19.7% | intergenic (‑302/‑253) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 4945201 | 131 (0.640) | intergenic (+561/+237) | PP_5673/flhB | D‑alanine‑‑D‑alanine ligase/flagellin export apparatus substrate specificity protein | |||||
| * | ? | NC_002947 | 1683236 = | 225 (1.040) | 43 (0.230) | 7/212 | 23.0 | 28.9% | intergenic (+45/‑186) | recJ/PP_1478 | ssDNA‑specific exonuclease RecJ/xenobiotic reductase |
| ? | NC_002947 | = 4808162 | 18 (0.100) | intergenic (‑271/‑284) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | = 4808166 | 27 (0.130) | 63 (0.310) +AGCGCCG |
6/216 | 24.0 | 69.1% | intergenic (‑275/‑280) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 4808179 | 31 (0.140) | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | 2478409 = | 115 (0.530) | 4 (0.020) | 4/194 | 24.3 | 4.4% | coding (106/444 nt) | PP_2172 | hypothetical protein |
| ? | NC_002947 | = 2478405 | 82 (0.480) | coding (102/444 nt) | PP_2172 | hypothetical protein | |||||
| * | ? | NC_002947 | 4808181 = | 38 (0.180) | 31 (0.150) | 6/230 | 24.8 | 43.2% | intergenic (‑290/‑265) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 4808201 = | 46 (0.230) | intergenic (‑310/‑245) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||