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 63 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 4,741,273 | 1 | . | C | 74.1% | 133.0 / 47.1 | 54 | intergenic (+464/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,275 | 0 | A | G | 74.1% | 80.9 / 30.1 | 54 | intergenic (+466/+286) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 66.7% | 68.9 / 45.0 | 60 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | . | 66.7% | 87.5 / 81.7 | 60 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,298 | 1 | . | T | 65.0% | 135.7 / 70.4 | 60 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,327,127 | 0 | C | T | 53.4% | 10.2 / 115.5 | 88 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 699,725 | 0 | A | G | 49.4% | ‑0.3 / 108.2 | 81 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 195,634 | 0 | C | T | 43.4% | 77.7 / 143.7 | 129 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 2,282,813 | 0 | T | G | 41.4% | 34.0 / 68.8 | 58 | intergenic (‑162/+67) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 4,348,749 | 0 | A | G | 40.0% | 50.9 / 84.5 | 80 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 5,988,961 | 0 | T | C | 37.0% | 140.7 / 106.4 | 108 | intergenic (+199/‑347) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 2,282,817 | 0 | G | C | 36.2% | 64.2 / 48.8 | 47 | intergenic (‑166/+63) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,282,818 | 0 | G | C | 36.2% | 68.1 / 41.8 | 47 | intergenic (‑167/+62) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,282,822 | 0 | C | A | 34.0% | 78.3 / 31.9 | 51 | intergenic (‑171/+58) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 5,988,950 | 0 | C | T | 33.9% | 177.3 / 103.9 | 115 | intergenic (+188/‑358) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,951 | 0 | A | G | 33.9% | 180.4 / 101.5 | 115 | intergenic (+189/‑357) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 195,559 | 0 | C | A | 33.3% | 139.0 / 66.5 | 81 | T355T (ACC→ACA) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,741,299 | 0 | C | T | 33.3% | 74.9 / 39.5 | 60 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 33.3% | 64.9 / 46.8 | 60 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,842,941 | 0 | C | . | 32.8% | 144.8 / 83.2 | 68 | intergenic (+40/‑257) | ccoP‑II/PP_4259 | cbb3‑type cytochrome c oxidase subunit/iron‑sulfur cluster‑binding protein |
| Marginal new junction evidence (lowest skew 10 of 595 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 1780109 = | 51 (0.740) | 20 (0.340) | 16/224 | 3.6 | 29.1% | intergenic (+26/+80) | PP_1587/dapC | NhaP‑type Na+(K+)/H+ antiporter/N‑succinyl‑L,L‑diaminopimelate aminotransferase |
| ? | NC_002947 | 1780171 = | 54 (0.910) | intergenic (+88/+18) | PP_1587/dapC | NhaP‑type Na+(K+)/H+ antiporter/N‑succinyl‑L,L‑diaminopimelate aminotransferase | |||||
| * | ? | NC_002947 | = 2050638 | 41 (0.590) | 14 (0.280) | 12/188 | 3.8 | 32.8% | intergenic (‑88/+87) | PP_1824/PP_1825 | Smr domain‑containing protein/hypothetical protein |
| ? | NC_002947 | = 2050674 | 28 (0.560) | intergenic (‑124/+51) | PP_1824/PP_1825 | Smr domain‑containing protein/hypothetical protein | |||||
| * | ? | NC_002947 | = 1419584 | 54 (0.780) | 16 (0.310) | 13/198 | 3.8 | 34.1% | intergenic (‑67/+70) | PP_1242/PP_1244 | hypothetical protein/hypothetical protein |
| ? | NC_002947 | = 1419614 | 21 (0.400) | intergenic (‑97/+40) | PP_1242/PP_1244 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_002947 | 6006595 = | 57 (0.820) | 20 (0.400) | 12/190 | 3.9 | 37.3% | intergenic (+7/+92) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator |
| ? | NC_002947 | 6006679 = | 26 (0.520) | intergenic (+91/+8) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator | |||||
| * | ? | NC_002947 | 5201627 = | 52 (0.750) | 17 (0.340) | 11/188 | 4.1 | 33.2% | intergenic (‑65/‑115) | PP_4582/PP_4583 | membrane protein/putative Peptidase |
| ? | NC_002947 | 5201722 = | 31 (0.630) | intergenic (‑160/‑20) | PP_4582/PP_4583 | membrane protein/putative Peptidase | |||||
| * | ? | NC_002947 | 1487013 = | 48 (0.690) | 16 (0.300) | 12/202 | 4.2 | 32.0% | intergenic (+22/+108) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS |
| ? | NC_002947 | 1487103 = | 31 (0.580) | intergenic (+112/+18) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS | |||||
| * | ? | NC_002947 | = 359675 | 92 (1.330) | 20 (0.300) | 16/250 | 4.2 | 19.4% | intergenic (+32/+88) | gbdR/PP_0299 | AraC family transcriptional regulator/hypothetical protein |
| ? | NC_002947 | = 359721 | 78 (1.180) | intergenic (+78/+42) | gbdR/PP_0299 | AraC family transcriptional regulator/hypothetical protein | |||||
| * | ? | NC_002947 | = 176399 | NA (NA) | 38 (0.570) +CGAAA |
16/252 | 4.2 | 31.7% | intergenic (+43/‑420) | PP_5SA/PP_16SB | 5S ribosomal RNA/16S ribosomal RNA |
| ? | NC_002947 | = 182013 | 85 (1.230) | intergenic (+2/+63) | PP_5SB/PP_0160 | 5S ribosomal RNA/ferrioxamine receptor | |||||
| * | ? | NC_002947 | = 4647641 | 60 (0.870) | 13 (0.270) | 10/184 | 4.3 | 26.8% | intergenic (+48/+83) | fusB/PP_4112 | elongation factor G 2/sulfate transporter |
| ? | NC_002947 | = 4647671 | 29 (0.600) | intergenic (+78/+53) | fusB/PP_4112 | elongation factor G 2/sulfate transporter | |||||
| * | ? | NC_002947 | 358055 = | 53 (0.770) | 14 (0.270) | 11/196 | 4.3 | 31.2% | intergenic (+20/‑110) | tdcG‑I/PP_5441 | L‑serine dehydratase/hypothetical protein |
| ? | NC_002947 | 358133 = | 22 (0.430) | intergenic (+98/‑32) | tdcG‑I/PP_5441 | L‑serine dehydratase/hypothetical protein | |||||