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 | 4,808,180 | 0 | A | . | 70.0% | 4.7 / 10.7 | 10 | intergenic (‑289/‑266) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 1,499,497 | 1 | . | C | 66.0% | 73.3 / 124.9 | 94 | intergenic (+74/‑90) | trpS/zapE | tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein |
| * | NC_002947 | 1,499,498 | 0 | T | G | 66.0% | 73.4 / 104.3 | 94 | intergenic (+75/‑89) | trpS/zapE | tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein |
| * | NC_002947 | 4,741,228 | 1 | . | C | 65.2% | 15.9 / 29.2 | 23 | intergenic (+465/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,230 | 0 | A | G | 65.2% | ‑3.1 / 12.0 | 23 | intergenic (+467/+286) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,235 | 0 | C | T | 65.2% | 17.5 / 10.2 | 23 | intergenic (+472/+281) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,238 | 0 | C | G | 65.2% | 5.0 / 20.6 | 23 | intergenic (+475/+278) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,240 | 0 | A | C | 65.2% | 4.7 / 11.4 | 23 | intergenic (+477/+276) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,245 | 0 | A | . | 65.2% | 16.9 / 36.4 | 23 | intergenic (+482/+271) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,327,121 | 0 | C | T | 48.4% | 104.0 / 201.1 | 161 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 4,348,705 | 0 | A | G | 47.3% | 143.6 / 83.7 | 169 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 699,722 | 0 | A | G | 45.8% | 150.7 / 15.8 | 120 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 195,634 | 0 | C | T | 42.2% | 3.0 / 143.2 | 154 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,808,182 | 0 | G | . | 40.0% | 11.2 / 13.0 | 10 | intergenic (‑291/‑264) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,808,183 | 0 | C | . | 40.0% | ‑4.1 / 12.3 | 10 | intergenic (‑292/‑263) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,808,184 | 0 | G | . | 40.0% | ‑2.5 / 13.0 | 10 | intergenic (‑293/‑262) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,808,185 | 0 | C | . | 40.0% | ‑3.8 / 12.3 | 10 | intergenic (‑294/‑261) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,808,186 | 0 | C | . | 36.4% | ‑5.1 / 12.1 | 11 | intergenic (‑295/‑260) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,808,187 | 0 | G | . | 36.4% | ‑0.2 / 12.8 | 11 | intergenic (‑296/‑259) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,808,188 | 0 | C | . | 36.4% | ‑4.7 / 12.1 | 11 | intergenic (‑297/‑258) | 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 | 5 (0.050) | 42 (0.410) | 25/228 | 5.8 | 91.6% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 4808189 = | 3 (0.030) | intergenic (‑298/‑257) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | = 4808179 | 3 (0.030) | 48 (0.450) | 18/242 | 8.2 | 91.5% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 4808194 = | 6 (0.060) | intergenic (‑303/‑252) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | 4808174 = | 15 (0.140) | 10 (0.130) | 7/174 | 10.1 | 23.9% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5988935 | 53 (0.680) | intergenic (+229/‑317) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 4808166 | 11 (0.110) | 25 (0.240) +AGCGCCG |
7/214 | 11.7 | 71.9% | intergenic (‑275/‑280) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 4808179 | 9 (0.080) | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | 1683236 = | 109 (1.000) | 21 (0.220) | 4/210 | 13.5 | 29.4% | intergenic (+45/‑186) | recJ/PP_1478 | ssDNA‑specific exonuclease RecJ/xenobiotic reductase |
| ? | NC_002947 | = 4808162 | 7 (0.070) | intergenic (‑271/‑284) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | 524339 = | 125 (1.150) | 7 (0.070) | 3/224 | 14.8 | 9.9% | intergenic (+206/‑610) | tyrS/PP_16SC | tyrosine‑‑tRNA ligase/16S ribosomal RNA |
| ? | NC_002947 | 4808203 = | 13 (0.130) | intergenic (‑312/‑243) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | 4808181 = | 10 (0.090) | 15 (0.150) | 3/228 | 14.9 | 57.3% | intergenic (‑290/‑265) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 4808201 = | 13 (0.130) | intergenic (‑310/‑245) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | = 68334 | 133 (1.230) | 3 (0.030) | 3/228 | 14.9 | 2.2% | intergenic (+22/+153) | PP_0057/PP_0058 | major facilitator family transporter/1‑acyl‑sn‑glycerol‑3‑phosphate acyltransferase |
| ? | NC_002947 | 68373 = | 137 (1.350) | intergenic (+61/+114) | PP_0057/PP_0058 | major facilitator family transporter/1‑acyl‑sn‑glycerol‑3‑phosphate acyltransferase | |||||
| * | ? | NC_002947 | = 4808130 | 36 (0.330) | 23 (0.220) +ATCG |
3/236 | 15.2 | 54.9% | intergenic (‑239/‑316) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 4808181 = | 3 (0.030) | intergenic (‑290/‑265) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||