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 | 4,741,260 | 0 | C | G | 75.0% | 7.8 / 43.1 | 52 | intergenic (+497/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,499,498 | 0 | T | G | 70.8% | 23.1 / 191.3 | 195 | intergenic (+75/‑89) | trpS/zapE | tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein |
| * | NC_002947 | 1,499,497 | 1 | . | C | 70.3% | 80.3 / 211.3 | 195 | intergenic (+74/‑90) | trpS/zapE | tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein |
| * | NC_002947 | 4,808,180 | 0 | A | . | 53.8% | ‑2.4 / 73.2 | 30 | intergenic (‑289/‑266) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,808,179 | 0 | G | . | 50.0% | ‑1.8 / 53.5 | 28 | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 699,722 | 0 | A | G | 49.8% | 326.6 / 61.6 | 317 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 4,348,705 | 0 | A | G | 48.9% | 350.9 / 119.5 | 356 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 1,327,121 | 0 | C | T | 42.0% | 206.2 / inf | 383 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 195,634 | 0 | C | T | 36.6% | 49.0 / 208.4 | 262 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,808,176 | 0 | C | . | 30.8% | 4.7 / 24.7 | 26 | intergenic (‑285/‑270) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,808,177 | 0 | G | . | 30.8% | ‑0.1 / 24.0 | 26 | intergenic (‑286/‑269) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,808,178 | 0 | C | . | 30.8% | 6.5 / 24.7 | 26 | intergenic (‑287/‑268) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 1,499,498 | 1 | . | G | 29.2% | 110.9 / 286.4 | 195 | intergenic (+75/‑89) | trpS/zapE | tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein |
| * | NC_002947 | 4,808,186 | 0 | C | . | 28.6% | ‑5.9 / 19.6 | 24 | intergenic (‑295/‑260) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,808,187 | 0 | G | . | 28.6% | ‑5.1 / 19.6 | 24 | intergenic (‑296/‑259) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,808,173 | 0 | G | . | 26.7% | 1.0 / 23.3 | 31 | intergenic (‑282/‑273) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,808,189 | 0 | G | . | 26.1% | 4.4 / 19.7 | 23 | intergenic (‑298/‑257) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,808,190 | 0 | C | . | 26.1% | 1.8 / 19.7 | 23 | intergenic (‑299/‑256) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,808,191 | 0 | G | . | 26.1% | 6.6 / 19.7 | 23 | intergenic (‑300/‑255) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,808,171 | 0 | C | . | 25.8% | ‑2.2 / 24.0 | 31 | intergenic (‑280/‑275) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| 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 | 11 (0.040) | 60 (0.260) | 30/226 | 14.4 | 88.7% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 4808189 = | 5 (0.020) | intergenic (‑298/‑257) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | 1070247 = | 197 (0.800) | 65 (0.290) | 28/216 | 14.5 | 39.5% | intergenic (+47/+95) | aroP‑I/PP_0928 | aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger‑like protein |
| ? | NC_002947 | = 4808161 | 23 (0.100) | intergenic (‑270/‑285) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | 4808174 = | 36 (0.150) | 24 (0.140) | 15/172 | 16.7 | 27.8% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5988935 | 99 (0.560) | intergenic (+229/‑317) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 4808179 | 5 (0.020) | 65 (0.260) | 21/240 | 18.5 | 87.3% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 4808194 = | 14 (0.060) | intergenic (‑303/‑252) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | = 4808174 | 25 (0.100) | 32 (0.150) | 9/214 | 23.1 | 18.8% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 5737599 = | 254 (1.160) | intergenic (‑154/+48) | hutU/PP_5034 | urocanate hydratase/hypothetical protein | |||||
| * | ? | NC_002947 | 1683236 = | 249 (1.010) | 35 (0.160) | 6/208 | 24.8 | 23.6% | intergenic (+45/‑186) | recJ/PP_1478 | ssDNA‑specific exonuclease RecJ/xenobiotic reductase |
| ? | NC_002947 | = 4808162 | 13 (0.060) | intergenic (‑271/‑284) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | = 4808130 | 69 (0.280) | 31 (0.130) +ATCG |
3/234 | 29.0 | 42.7% | intergenic (‑239/‑316) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 4808181 = | 17 (0.070) | intergenic (‑290/‑265) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||