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 40 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 | 76.5% | ‑6.3 / 39.0 | 52 | intergenic (+497/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,499,497 | 1 | . | C | 63.0% | 131.4 / 203.9 | 146 | intergenic (+74/‑90) | trpS/zapE | tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein |
| * | NC_002947 | 1,499,498 | 0 | T | G | 63.0% | 25.6 / 188.5 | 146 | intergenic (+75/‑89) | trpS/zapE | tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein |
| * | NC_002947 | 4,741,238 | 0 | C | G | 58.1% | ‑6.3 / 63.2 | 43 | intergenic (+475/+278) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,240 | 0 | A | C | 58.1% | 20.1 / 35.7 | 43 | intergenic (+477/+276) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,245 | 0 | A | . | 58.1% | 5.3 / 90.9 | 43 | intergenic (+482/+271) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,228 | 1 | . | C | 55.8% | 1.5 / 78.2 | 43 | intergenic (+465/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,230 | 0 | A | G | 55.8% | 28.4 / 40.1 | 43 | intergenic (+467/+286) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,808,180 | 0 | A | . | 53.8% | 2.5 / 40.2 | 17 | intergenic (‑289/‑266) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | NC_002947 | 4,348,705 | 0 | A | G | 51.8% | 178.5 / 265.5 | 224 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 699,722 | 0 | A | G | 47.0% | 245.1 / 62.6 | 236 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 1,327,121 | 0 | C | T | 46.5% | 174.2 / 288.5 | 254 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 195,634 | 0 | C | T | 45.9% | 76.9 / 218.7 | 208 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,741,229 | 0 | A | C | 44.2% | 29.2 / 14.2 | 43 | intergenic (+466/+287) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,808,179 | 0 | G | . | 43.8% | ‑4.5 / 25.5 | 16 | 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 | 41.9% | 22.3 / 56.1 | 43 | intergenic (+468/+285) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,234 | 0 | C | T | 41.9% | 11.1 / 36.1 | 43 | intergenic (+471/+282) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,236 | 0 | G | T | 41.9% | 25.6 / 31.5 | 43 | intergenic (+473/+280) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,237 | 0 | C | G | 41.9% | ‑4.2 / 56.8 | 43 | intergenic (+474/+279) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,239 | 0 | A | G | 41.9% | 15.6 / 34.0 | 43 | intergenic (+476/+277) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| Marginal new junction evidence (lowest skew 10 of 15 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 4808179 | 4 (0.030) | 56 (0.360) | 29/244 | 7.9 | 88.9% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 4808194 = | 10 (0.060) | intergenic (‑303/‑252) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | = 4808174 | 5 (0.030) | 55 (0.370) | 23/230 | 8.9 | 92.7% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 4808189 = | 4 (0.030) | intergenic (‑298/‑257) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | 1070247 = | 126 (0.790) | 51 (0.360) | 21/220 | 9.1 | 45.2% | intergenic (+47/+95) | aroP‑I/PP_0928 | aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger‑like protein |
| ? | NC_002947 | = 4808161 | 11 (0.080) | intergenic (‑270/‑285) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | 1683236 = | 171 (1.080) | 26 (0.190) | 7/212 | 14.4 | 25.2% | intergenic (+45/‑186) | recJ/PP_1478 | ssDNA‑specific exonuclease RecJ/xenobiotic reductase |
| ? | NC_002947 | = 4808162 | 7 (0.050) | intergenic (‑271/‑284) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | 1184570 = | 166 (1.050) | 24 (0.170) | 7/216 | 14.5 | 23.5% | intergenic (‑186/‑226) | mltF/purL | membrane‑bound lytic murein transglycosylase F/phosphoribosylformylglycinamidine synthase |
| ? | NC_002947 | = 4808159 | 11 (0.080) | intergenic (‑268/‑287) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | 4808173 = | 21 (0.130) | 13 (0.080) | 8/242 | 14.9 | 17.7% | intergenic (‑282/‑273) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 4945372 | 100 (0.640) | intergenic (+732/+66) | PP_5673/flhB | D‑alanine‑‑D‑alanine ligase/flagellin export apparatus substrate specificity protein | |||||
| * | ? | NC_002947 | 4808193 = | 17 (0.110) | 16 (0.110) | 7/232 | 15.1 | 23.5% | intergenic (‑302/‑253) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 4945201 | 88 (0.590) | intergenic (+561/+237) | PP_5673/flhB | D‑alanine‑‑D‑alanine ligase/flagellin export apparatus substrate specificity protein | |||||
| * | ? | NC_002947 | 4808181 = | 17 (0.110) | 20 (0.130) | 6/230 | 15.6 | 56.4% | intergenic (‑290/‑265) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 4808201 = | 15 (0.100) | intergenic (‑310/‑245) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | = 4808174 | 12 (0.080) | 25 (0.180) | 5/216 | 15.7 | 24.8% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5313279 | 141 (1.010) | intergenic (‑598/+116) | PP_16SG/msrQ | 16S ribosomal RNA/methionine sulfoxide reductase heme‑binding subunit | |||||
| * | ? | NC_002947 | 524339 = | 185 (1.170) | 25 (0.170) | 5/226 | 16.1 | 21.7% | intergenic (+206/‑610) | tyrS/PP_16SC | tyrosine‑‑tRNA ligase/16S ribosomal RNA |
| ? | NC_002947 | = 4808164 | 11 (0.080) | intergenic (‑273/‑282) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||