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 77 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 1,327,127 | 0 | C | T | 66.1% | 27.3 / 49.3 | 62 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 4,741,273 | 1 | . | C | 63.6% | 41.4 / 25.5 | 22 | intergenic (+464/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,275 | 0 | A | G | 63.6% | 15.1 / 17.1 | 22 | intergenic (+466/+286) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,299 | 0 | C | T | 53.3% | ‑4.0 / 35.9 | 30 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 53.3% | ‑6.2 / 36.7 | 30 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 53.3% | ‑2.8 / 44.7 | 30 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | C | 53.3% | 44.0 / 55.2 | 30 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 2,282,813 | 0 | T | G | 50.0% | ‑5.1 / 63.3 | 44 | intergenic (‑162/+67) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,282,817 | 0 | G | C | 48.7% | 15.2 / 57.7 | 39 | intergenic (‑166/+63) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,282,818 | 0 | G | C | 48.7% | 12.4 / 58.1 | 39 | intergenic (‑167/+62) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 4,741,298 | 1 | . | T | 46.7% | 45.0 / 65.2 | 30 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 46.7% | ‑3.5 / 36.2 | 30 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 2,282,822 | 0 | C | A | 46.5% | 25.4 / 46.1 | 43 | intergenic (‑171/+58) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 4,348,749 | 0 | A | G | 41.2% | 31.0 / 52.1 | 51 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 699,725 | 0 | A | G | 40.0% | 16.8 / 34.8 | 35 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 195,634 | 0 | C | T | 37.2% | 60.8 / 75.2 | 78 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,741,274 | 0 | A | C | 36.4% | 15.9 / 14.2 | 22 | intergenic (+465/+287) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,544,536 | 0 | C | G | 34.3% | 44.3 / 29.8 | 35 | intergenic (+53/+61) | mdfA/ampG | multidrug MFS transporter/muropeptide permease AmpG |
| * | NC_002947 | 1,544,531 | 0 | C | A | 33.3% | 55.7 / 26.1 | 36 | intergenic (+48/+66) | mdfA/ampG | multidrug MFS transporter/muropeptide permease AmpG |
| * | NC_002947 | 358,099 | 0 | C | T | 31.8% | 24.8 / 13.6 | 22 | intergenic (+64/‑66) | tdcG‑I/PP_5441 | L‑serine dehydratase/hypothetical protein |
| Marginal new junction evidence (lowest skew 10 of 208 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 1799915 | 67 (1.600) | 10 (0.290) | 10/218 | 2.5 | 16.6% | intergenic (+43/‑144) | rnhB/dnaEA | ribonuclease HII/DNA polymerase III subunit alpha |
| ? | NC_002947 | = 1799957 | 45 (1.300) | intergenic (+85/‑102) | rnhB/dnaEA | ribonuclease HII/DNA polymerase III subunit alpha | |||||
| * | ? | NC_002947 | 1296576 = | NA (NA) | 16 (0.390) | 10/256 | 3.0 | NA | intergenic (‑323/‑243) | nhaA‑I/PP_1133 | Na(+)/H(+) antiporter NhaA/transposase |
| ? | NC_002947 | 1296621 = | NA (NA) | intergenic (‑368/‑198) | nhaA‑I/PP_1133 | Na(+)/H(+) antiporter NhaA/transposase | |||||
| * | ? | NC_002947 | = 5653009 | 69 (1.650) | 10 (0.280) | 8/222 | 3.1 | 14.5% | intergenic (‑59/+102) | PP_4961/PP_4962 | lipoprotein/hypothetical protein |
| ? | NC_002947 | = 5653023 | 60 (1.710) | intergenic (‑73/+88) | PP_4961/PP_4962 | lipoprotein/hypothetical protein | |||||
| * | ? | NC_002947 | = 1487042 | 33 (0.790) | 8 (0.250) | 7/204 | 3.1 | 23.4% | intergenic (+51/+79) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS |
| ? | NC_002947 | = 1487072 | 27 (0.840) | intergenic (+81/+49) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS | |||||
| * | ? | NC_002947 | = 652785 | 29 (0.690) | 9 (0.250) | 8/224 | 3.1 | 42.3% | 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 | = 359683 | 57 (1.360) | 9 (0.230) | 9/250 | 3.2 | 14.3% | intergenic (+40/+80) | gbdR/PP_0299 | AraC family transcriptional regulator/hypothetical protein |
| ? | NC_002947 | = 359713 | 54 (1.360) | intergenic (+70/+50) | gbdR/PP_0299 | AraC family transcriptional regulator/hypothetical protein | |||||
| * | ? | NC_002947 | 2100003 = | 50 (1.190) | 8 (0.230) | 7/218 | 3.3 | 16.5% | intergenic (‑71/‑134) | PP_1875/PP_1876 | two‑component system sensor histidine kinase/response regulator/AAA family ATP/GTP‑binding protein |
| ? | NC_002947 | 2100098 = | 40 (1.160) | intergenic (‑166/‑39) | PP_1875/PP_1876 | two‑component system sensor histidine kinase/response regulator/AAA family ATP/GTP‑binding protein | |||||
| * | ? | NC_002947 | 1487013 = | 28 (0.670) | 7 (0.220) | 6/204 | 3.4 | 22.4% | intergenic (+22/+108) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS |
| ? | NC_002947 | 1487103 = | 27 (0.840) | intergenic (+112/+18) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS | |||||
| * | ? | NC_002947 | 1419553 = | 38 (0.910) | 6 (0.190) | 6/200 | 3.4 | 19.1% | intergenic (‑36/+101) | PP_1242/PP_1244 | hypothetical protein/hypothetical protein |
| ? | NC_002947 | 1419647 = | 22 (0.700) | intergenic (‑130/+7) | PP_1242/PP_1244 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_002947 | 6013865 = | 40 (0.960) | 6 (0.180) | 6/210 | 3.5 | 18.0% | intergenic (+14/+96) | xpt/PP_5266 | xanthine phosphoribosyltransferase/acetyl‑CoA hydrolase family protein |
| ? | NC_002947 | 6013947 = | 23 (0.690) | intergenic (+96/+14) | xpt/PP_5266 | xanthine phosphoribosyltransferase/acetyl‑CoA hydrolase family protein | |||||