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 75 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 4,741,283 | 0 | C | G | 70.4% | 33.1 / 16.5 | 27 | intergenic (+474/+278) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,285 | 0 | A | C | 70.4% | 29.9 / 13.5 | 27 | intergenic (+476/+276) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,286 | 0 | C | T | 70.4% | 25.5 / 15.7 | 27 | intergenic (+477/+275) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,299 | 0 | C | T | 66.7% | 18.9 / 22.9 | 30 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 66.7% | 22.1 / 21.4 | 30 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | C | 66.7% | 57.4 / 34.7 | 30 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 63.3% | 17.2 / 28.7 | 30 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,280 | 0 | C | T | 63.0% | 21.6 / 17.7 | 27 | intergenic (+471/+281) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 699,725 | 0 | A | G | 59.6% | 15.9 / 47.8 | 52 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 4,741,277 | 0 | C | T | 59.3% | 14.7 / 20.3 | 27 | intergenic (+468/+284) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,273 | 1 | . | C | 55.6% | 46.3 / 41.3 | 27 | intergenic (+464/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,275 | 0 | A | G | 55.6% | 5.0 / 26.3 | 27 | intergenic (+466/+286) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,184,591 | 0 | G | C | 44.4% | 4.3 / 21.2 | 18 | intergenic (‑201/‑211) | mltF/purL | membrane‑bound lytic murein transglycosylase F/phosphoribosylformylglycinamidine synthase |
| * | NC_002947 | 4,741,274 | 0 | A | C | 44.4% | 4.3 / 25.6 | 27 | intergenic (+465/+287) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,327,127 | 0 | C | T | 42.5% | 33.9 / 78.1 | 73 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 5,655,687 | 0 | C | A | 42.3% | 17.1 / 21.3 | 26 | intergenic (‑91/+61) | epd/tktA | D‑erythrose 4‑phosphate dehydrogenase/transketolase A |
| * | NC_002947 | 4,348,749 | 0 | A | G | 41.3% | 27.9 / 63.9 | 64 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 4,741,276 | 0 | C | G | 40.7% | 12.8 / 24.1 | 27 | intergenic (+467/+285) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,184,594 | 0 | G | C | 40.0% | 8.4 / 19.1 | 20 | intergenic (‑204/‑208) | mltF/purL | membrane‑bound lytic murein transglycosylase F/phosphoribosylformylglycinamidine synthase |
| * | NC_002947 | 5,655,692 | 0 | T | . | 40.0% | 44.5 / 33.9 | 25 | intergenic (‑96/+56) | epd/tktA | D‑erythrose 4‑phosphate dehydrogenase/transketolase A |
| Marginal new junction evidence (lowest skew 10 of 195 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 337784 = | 29 (0.530) | 13 (0.300) | 11/224 | 3.6 | 37.1% | intergenic (‑31/+98) | PP_0279/PP_0280 | hypothetical protein/amino acid ABC transporter permease |
| ? | NC_002947 | 337868 = | 21 (0.480) | intergenic (‑115/+14) | PP_0279/PP_0280 | hypothetical protein/amino acid ABC transporter permease | |||||
| * | ? | NC_002947 | = 652785 | 40 (0.730) | 17 (0.360) | 12/240 | 3.7 | 49.8% | coding (1961/1962 nt) | ctpL | methyl‑accepting chemotaxis protein CtpL |
| ? | NC_002947 | = 4808204 | 0 (0.000) | intergenic (‑268/‑287) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | 1487013 = | 23 (0.420) | 13 (0.300) | 9/220 | 4.2 | 44.8% | intergenic (+22/+108) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS |
| ? | NC_002947 | 1487103 = | 14 (0.320) | intergenic (+112/+18) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS | |||||
| * | ? | NC_002947 | = 4808224 | 0 (0.000) | 17 (0.360) | 10/240 | 4.3 | 41.0% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5989005 | 49 (1.040) | intergenic (+243/‑303) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | 2295818 = | 49 (0.890) | 12 (0.260) | 9/232 | 4.4 | 23.2% | intergenic (+21/+112) | PP_5496/PP_2023 | hypothetical protein/glutathione S‑transferase family protein |
| ? | NC_002947 | 2295903 = | 39 (0.860) | intergenic (+106/+27) | PP_5496/PP_2023 | hypothetical protein/glutathione S‑transferase family protein | |||||
| * | ? | NC_002947 | = 1967220 | 22 (0.400) | 11 (0.260) | 8/214 | 4.4 | 36.2% | intergenic (+47/+72) | PP_1762/yciK | hypothetical protein/putative oxidoreductase |
| ? | NC_002947 | = 1967250 | 22 (0.520) | intergenic (+77/+42) | PP_1762/yciK | hypothetical protein/putative oxidoreductase | |||||
| * | ? | NC_002947 | = 4808224 | 0 (0.000) | 21 (0.420) | 10/256 | 4.6 | 38.2% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 5988821 = | 68 (1.350) | intergenic (+59/‑487) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 5513315 | 49 (0.890) | 9 (0.200) | 8/228 | 4.7 | 18.4% | intergenic (+45/‑109) | urtD/urtE | ABC transporter ATP‑binding protein/ABC transporter ATP‑binding protein |
| ? | NC_002947 | = 5513371 | 40 (0.890) | intergenic (+101/‑53) | urtD/urtE | ABC transporter ATP‑binding protein/ABC transporter ATP‑binding protein | |||||
| * | ? | NC_002947 | = 1622544 | 50 (0.910) | 10 (0.210) | 9/244 | 4.7 | 17.9% | intergenic (+24/+42) | PP_1421/PP_1422 | sensor histidine kinase TctE/hypothetical protein |
| ? | NC_002947 | = 1622558 | 48 (1.000) | intergenic (+38/+28) | PP_1421/PP_1422 | sensor histidine kinase TctE/hypothetical protein | |||||
| * | ? | NC_002947 | 5914213 = | 22 (0.400) | 8 (0.180) | 7/224 | 5.0 | 32.3% | intergenic (+49/+104) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase |
| ? | NC_002947 | 5914309 = | 16 (0.360) | intergenic (+145/+8) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase | |||||