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 89 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 | 69.8% | 98.9 / 44.5 | 43 | intergenic (+464/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,275 | 0 | A | G | 69.8% | 55.9 / 26.3 | 43 | intergenic (+466/+286) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,348,749 | 0 | A | G | 53.5% | 2.3 / 125.7 | 100 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 1,327,127 | 0 | C | T | 51.4% | 38.5 / 144.2 | 105 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 4,741,298 | 1 | . | T | 50.0% | 75.6 / 90.3 | 48 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,299 | 0 | C | T | 50.0% | 2.7 / 55.5 | 48 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 50.0% | ‑1.2 / 63.2 | 48 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 50.0% | ‑2.8 / 60.3 | 48 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 50.0% | 2.6 / 72.9 | 48 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | C | 50.0% | 68.9 / 98.8 | 48 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,403,596 | 0 | G | A | 47.4% | ‑0.1 / 48.9 | 38 | intergenic (‑56/+25) | PP_1227/PP_1228 | membrane protein/methyl‑accepting chemotaxis transducer |
| * | NC_002947 | 1,403,597 | 0 | T | C | 47.4% | 1.1 / 48.2 | 38 | intergenic (‑57/+24) | PP_1227/PP_1228 | membrane protein/methyl‑accepting chemotaxis transducer |
| * | NC_002947 | 699,725 | 0 | A | G | 47.1% | 14.3 / 110.6 | 88 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 5,655,687 | 0 | C | A | 45.3% | 24.9 / 60.1 | 53 | intergenic (‑91/+61) | epd/tktA | D‑erythrose 4‑phosphate dehydrogenase/transketolase A |
| * | NC_002947 | 5,655,692 | 0 | T | . | 44.0% | 78.5 / 82.4 | 50 | intergenic (‑96/+56) | epd/tktA | D‑erythrose 4‑phosphate dehydrogenase/transketolase A |
| * | NC_002947 | 5,655,682 | 0 | T | G | 43.6% | 1.3 / 76.1 | 55 | intergenic (‑86/+66) | epd/tktA | D‑erythrose 4‑phosphate dehydrogenase/transketolase A |
| * | NC_002947 | 4,842,949 | 1 | . | G | 40.3% | 81.2 / 143.0 | 77 | intergenic (+48/‑249) | ccoP‑II/PP_4259 | cbb3‑type cytochrome c oxidase subunit/iron‑sulfur cluster‑binding protein |
| * | NC_002947 | 195,634 | 0 | C | T | 39.7% | 106.3 / 140.7 | 142 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 1,506,939 | 0 | T | C | 39.3% | 15.9 / 26.1 | 28 | intergenic (+51/‑66) | petC/sspA | ubiquinol‑‑cytochrome c reductase cytochrome c1 subunit/stringent starvation protein A |
| * | NC_002947 | 1,506,943 | 0 | C | T | 39.3% | 15.8 / 25.7 | 28 | intergenic (+55/‑62) | petC/sspA | ubiquinol‑‑cytochrome c reductase cytochrome c1 subunit/stringent starvation protein A |
| Marginal new junction evidence (lowest skew 10 of 755 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 4340085 = | 52 (0.580) | 22 (0.330) | 16/196 | 4.3 | 40.1% | intergenic (+26/‑305) | ribAB‑II/PP_3814 | 3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase/polyamine ABC transportersubstrate‑binding protein |
| ? | NC_002947 | 4340169 = | 27 (0.400) | intergenic (+110/‑221) | ribAB‑II/PP_3814 | 3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase/polyamine ABC transportersubstrate‑binding protein | |||||
| * | ? | NC_002947 | 6006595 = | 54 (0.600) | 20 (0.310) | 15/192 | 4.4 | 40.3% | intergenic (+7/+92) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator |
| ? | NC_002947 | 6006679 = | 20 (0.310) | intergenic (+91/+8) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator | |||||
| * | ? | NC_002947 | 1487013 = | 41 (0.460) | 17 (0.240) | 15/204 | 4.8 | 40.2% | intergenic (+22/+108) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS |
| ? | NC_002947 | 1487103 = | 19 (0.270) | intergenic (+112/+18) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS | |||||
| * | ? | NC_002947 | 1114875 = | 39 (0.430) | 19 (0.260) | 16/214 | 4.8 | 38.5% | intergenic (‑64/+115) | rlmF/valS | ribosomal RNA large subunit methyltransferase F/valine‑‑tRNA ligase |
| ? | NC_002947 | 1114951 = | 29 (0.400) | intergenic (‑140/+39) | rlmF/valS | ribosomal RNA large subunit methyltransferase F/valine‑‑tRNA ligase | |||||
| * | ? | NC_002947 | 6032808 = | 55 (0.610) | 19 (0.280) | 14/198 | 4.9 | 34.5% | intergenic (+16/+120) | dppA‑IV/PP_5284 | dipeptide transport protein/hypothetical protein |
| ? | NC_002947 | 6032890 = | 31 (0.460) | intergenic (+98/+38) | dppA‑IV/PP_5284 | dipeptide transport protein/hypothetical protein | |||||
| * | ? | NC_002947 | 5594143 = | 55 (0.610) | 17 (0.240) | 14/208 | 5.2 | 29.7% | intergenic (‑39/+106) | PP_4921/thiC | NCS1 family transporter/phosphomethylpyrimidine synthase |
| ? | NC_002947 | 5594236 = | 37 (0.520) | intergenic (‑132/+13) | PP_4921/thiC | NCS1 family transporter/phosphomethylpyrimidine synthase | |||||
| * | ? | NC_002947 | = 2063227 | 43 (0.480) | 19 (0.260) | 14/214 | 5.4 | 34.3% | intergenic (+41/‑166) | PP_1838/PP_1839 | membrane protein/hypothetical protein |
| ? | NC_002947 | = 2063271 | 38 (0.520) | intergenic (+85/‑122) | PP_1838/PP_1839 | membrane protein/hypothetical protein | |||||
| * | ? | NC_002947 | = 1780127 | 43 (0.480) | 15 (0.190) | 15/226 | 5.4 | 29.2% | intergenic (+44/+62) | PP_1587/dapC | NhaP‑type Na+(K+)/H+ antiporter/N‑succinyl‑L,L‑diaminopimelate aminotransferase |
| ? | NC_002947 | = 1780151 | 36 (0.470) | intergenic (+68/+38) | PP_1587/dapC | NhaP‑type Na+(K+)/H+ antiporter/N‑succinyl‑L,L‑diaminopimelate aminotransferase | |||||
| * | ? | NC_002947 | 5704565 = | 54 (0.600) | 15 (0.210) | 13/212 | 5.6 | 22.0% | intergenic (+34/+78) | PP_5006/PP_5007 | TetR family transcriptional regulator/polyhydroxyalkanoate granule‑associated protein GA2 |
| ? | NC_002947 | 5704628 = | 63 (0.870) | intergenic (+97/+15) | PP_5006/PP_5007 | TetR family transcriptional regulator/polyhydroxyalkanoate granule‑associated protein GA2 | |||||
| * | ? | NC_002947 | = 4896443 | 59 (0.660) | 19 (0.250) | 14/222 | 5.6 | 30.2% | intergenic (+31/‑177) | PP_4304/sbp‑I | VIC family cation transporter/sulfate ABC transporter substrate‑binding protein |
| ? | NC_002947 | = 4896490 | 38 (0.500) | intergenic (+78/‑130) | PP_4304/sbp‑I | VIC family cation transporter/sulfate ABC transporter substrate‑binding protein | |||||