mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
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 97 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 4,741,277 | 0 | C | T | 66.7% | 26.2 / 18.5 | 27 | intergenic (+468/+284) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,280 | 0 | C | T | 66.7% | 27.0 / 16.3 | 27 | intergenic (+471/+281) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,273 | 1 | . | C | 63.0% | 53.1 / 32.3 | 27 | intergenic (+464/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,275 | 0 | A | G | 63.0% | 21.8 / 17.7 | 27 | intergenic (+466/+286) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,298 | 1 | . | T | 62.5% | 62.5 / 39.6 | 32 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | . | 62.5% | 22.0 / 52.2 | 32 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 54.8% | 6.0 / 34.2 | 32 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,327,127 | 0 | C | T | 48.4% | 20.1 / 86.7 | 64 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 699,725 | 0 | A | G | 45.8% | 11.3 / 72.2 | 59 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 2,282,813 | 0 | T | G | 43.2% | 14.3 / 55.1 | 44 | intergenic (‑162/+67) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 5,997,250 | 0 | C | . | 42.9% | 59.9 / 56.7 | 36 | intergenic (‑163/+37) | PP_5252/PP_5253 | hypothetical protein/arylesterase |
| * | NC_002947 | 5,997,245 | 1 | . | G | 41.7% | 14.8 / 68.0 | 36 | intergenic (‑158/+42) | PP_5252/PP_5253 | hypothetical protein/arylesterase |
| * | NC_002947 | 2,282,817 | 0 | G | C | 41.5% | 26.8 / 50.0 | 41 | intergenic (‑166/+63) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,282,818 | 0 | G | C | 41.5% | 35.7 / 48.4 | 41 | intergenic (‑167/+62) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 195,634 | 0 | C | T | 41.3% | 42.2 / 65.0 | 63 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 2,282,822 | 0 | C | A | 39.5% | 44.7 / 37.8 | 44 | intergenic (‑171/+58) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 4,348,749 | 0 | A | G | 39.2% | 40.3 / 47.2 | 51 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 4,741,299 | 0 | C | T | 37.5% | 24.3 / 24.3 | 32 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 37.5% | 16.5 / 29.7 | 32 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 37.5% | 28.7 / 30.6 | 32 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| Marginal new junction evidence (lowest skew 10 of 254 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 1487013 = | 28 (0.640) | 8 (0.240) | 8/206 | 3.0 | 24.7% | intergenic (+22/+108) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS |
| ? | NC_002947 | 1487103 = | 27 (0.800) | intergenic (+112/+18) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS | |||||
| * | ? | NC_002947 | 4889614 = | 53 (1.220) | 9 (0.260) | 8/212 | 3.1 | 16.6% | intergenic (+15/‑138) | hyi/glxR | hydroxypyruvate isomerase/2‑hydroxy‑3‑oxopropionate reductase |
| ? | NC_002947 | 4889705 = | 48 (1.390) | intergenic (+106/‑47) | hyi/glxR | hydroxypyruvate isomerase/2‑hydroxy‑3‑oxopropionate reductase | |||||
| * | ? | NC_002947 | = 2050638 | 37 (0.850) | 8 (0.260) | 7/192 | 3.1 | 27.3% | intergenic (‑88/+87) | PP_1824/PP_1825 | Smr domain‑containing protein/hypothetical protein |
| ? | NC_002947 | = 2050674 | 16 (0.510) | intergenic (‑124/+51) | PP_1824/PP_1825 | Smr domain‑containing protein/hypothetical protein | |||||
| * | ? | NC_002947 | 5877040 = | 64 (1.470) | 8 (0.220) | 8/218 | 3.2 | 13.4% | intergenic (+6/+99) | rpiA/PP_5151 | ribose‑5‑phosphate isomerase A/hypothetical protein |
| ? | NC_002947 | 5877122 = | 51 (1.430) | intergenic (+88/+17) | rpiA/PP_5151 | ribose‑5‑phosphate isomerase A/hypothetical protein | |||||
| * | ? | NC_002947 | 2276019 = | 47 (1.080) | 10 (0.240) | 10/250 | 3.2 | 17.7% | coding (1346/1644 nt) | PP_2006 | membrane protein |
| ? | NC_002947 | 2276062 = | 49 (1.200) | coding (1303/1644 nt) | PP_2006 | membrane protein | |||||
| * | ? | NC_002947 | = 5743404 | 69 (1.590) | 10 (0.260) | 9/240 | 3.3 | 13.8% | intergenic (‑181/+66) | fbp/glgP | class 1 fructose‑1,6‑bisphosphatase/glycogen phosphorylase |
| ? | NC_002947 | = 5743432 | 63 (1.610) | intergenic (‑209/+38) | fbp/glgP | class 1 fructose‑1,6‑bisphosphatase/glycogen phosphorylase | |||||
| * | ? | NC_002947 | = 2100025 | 46 (1.060) | 8 (0.220) | 8/220 | 3.3 | 16.8% | intergenic (‑93/‑112) | PP_1875/PP_1876 | two‑component system sensor histidine kinase/response regulator/AAA family ATP/GTP‑binding protein |
| ? | NC_002947 | = 2100074 | 41 (1.140) | intergenic (‑142/‑63) | PP_1875/PP_1876 | two‑component system sensor histidine kinase/response regulator/AAA family ATP/GTP‑binding protein | |||||
| * | ? | NC_002947 | = 5870345 | 70 (1.610) | 7 (0.210) | 7/208 | 3.4 | 11.4% | intergenic (+50/+84) | PP_5144/ptsP | hypothetical protein/phosphoenolpyruvate‑dependent regulator |
| ? | NC_002947 | = 5870380 | 54 (1.590) | intergenic (+85/+49) | PP_5144/ptsP | hypothetical protein/phosphoenolpyruvate‑dependent regulator | |||||
| * | ? | NC_002947 | = 5453186 | 3 (0.070) | 5 (0.180) +48 bp |
5/170 | 3.4 | 30.9% | intergenic (+151/‑204) | lnt/PP_4791 | apolipoprotein N‑acyltransferase/transposase |
| ? | NC_002947 | 5545674 = | 32 (0.740) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | 5224548 = | 2 (0.050) | 5 (0.180) +48 bp |
5/170 | 3.4 | 31.5% | intergenic (‑204/+175) | PP_4603/PP_4604 | transposase/DMT superfamily permease |
| ? | NC_002947 | 5545674 = | 32 (0.740) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||