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 90 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 | 73.9% | 171.5 / 63.5 | 69 | intergenic (+464/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,275 | 0 | A | G | 73.9% | 113.1 / 34.8 | 69 | intergenic (+466/+286) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,327,127 | 0 | C | T | 53.3% | 19.6 / 258.8 | 197 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 4,741,298 | 1 | . | T | 51.8% | 151.2 / 157.1 | 85 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | . | 51.8% | 127.9 / 196.9 | 85 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 51.2% | 1.3 / 112.0 | 85 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,403,597 | 0 | T | C | 50.8% | ‑6.2 / 77.6 | 59 | intergenic (‑57/+24) | PP_1227/PP_1228 | membrane protein/methyl‑accepting chemotaxis transducer |
| * | NC_002947 | 1,403,596 | 0 | G | A | 49.2% | 3.4 / 80.2 | 61 | intergenic (‑56/+25) | PP_1227/PP_1228 | membrane protein/methyl‑accepting chemotaxis transducer |
| * | NC_002947 | 699,725 | 0 | A | G | 48.5% | 25.1 / 177.4 | 137 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 4,741,299 | 0 | C | T | 48.2% | 19.0 / 101.2 | 85 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 48.2% | ‑2.6 / 116.8 | 85 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 48.2% | 26.4 / 124.6 | 85 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,348,749 | 0 | A | G | 41.4% | 118.0 / 207.8 | 191 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 195,634 | 0 | C | T | 41.1% | 195.4 / 304.7 | 276 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,049,951 | 0 | A | G | 40.0% | 44.8 / 67.1 | 65 | intergenic (+40/‑61) | quiA/oprB‑III | quinate dehydrogenase/carbohydrate‑selective porin |
| * | NC_002947 | 5,655,687 | 0 | C | A | 38.2% | 78.3 / 71.0 | 76 | intergenic (‑91/+61) | epd/tktA | D‑erythrose 4‑phosphate dehydrogenase/transketolase A |
| * | NC_002947 | 1,506,943 | 0 | C | T | 38.1% | 56.0 / 58.9 | 63 | intergenic (+55/‑62) | petC/sspA | ubiquinol‑‑cytochrome c reductase cytochrome c1 subunit/stringent starvation protein A |
| * | NC_002947 | 4,842,949 | 1 | . | G | 37.6% | 90.7 / 151.0 | 85 | intergenic (+48/‑249) | ccoP‑II/PP_4259 | cbb3‑type cytochrome c oxidase subunit/iron‑sulfur cluster‑binding protein |
| * | NC_002947 | 1,070,265 | 0 | G | C | 37.5% | 51.9 / 54.4 | 48 | intergenic (+62/+82) | aroP‑I/PP_0928 | aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger‑like protein |
| * | NC_002947 | 1,070,268 | 0 | G | C | 36.7% | 53.1 / 55.6 | 49 | intergenic (+65/+79) | aroP‑I/PP_0928 | aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger‑like protein |
| Marginal new junction evidence (lowest skew 10 of 750 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 652785 | 103 (0.770) | 49 (0.430) | 33/220 | 4.0 | 52.9% | 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 | = 4808224 | 0 (0.000) | 53 (0.430) | 30/236 | 5.0 | 44.0% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 5988821 = | 135 (1.110) | intergenic (+59/‑487) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 6006630 | 67 (0.500) | 34 (0.350) | 22/188 | 5.1 | 44.0% | intergenic (+42/+57) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator |
| ? | NC_002947 | = 6006642 | 38 (0.390) | intergenic (+54/+45) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator | |||||
| * | ? | NC_002947 | = 4808224 | 0 (0.000) | 42 (0.370) | 25/220 | 5.5 | 45.9% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5989005 | 99 (0.870) | intergenic (+243/‑303) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 4896443 | 86 (0.640) | 41 (0.360) | 24/218 | 5.7 | 41.2% | intergenic (+31/‑177) | PP_4304/sbp‑I | VIC family cation transporter/sulfate ABC transporter substrate‑binding protein |
| ? | NC_002947 | = 4896490 | 45 (0.400) | intergenic (+78/‑130) | PP_4304/sbp‑I | VIC family cation transporter/sulfate ABC transporter substrate‑binding protein | |||||
| * | ? | NC_002947 | 6006595 = | 71 (0.530) | 32 (0.330) | 19/188 | 5.9 | 41.7% | intergenic (+7/+92) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator |
| ? | NC_002947 | 6006679 = | 38 (0.390) | intergenic (+91/+8) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator | |||||
| * | ? | NC_002947 | = 6032840 | 72 (0.540) | 22 (0.220) | 19/194 | 6.1 | 33.1% | intergenic (+48/+88) | dppA‑IV/PP_5284 | dipeptide transport protein/hypothetical protein |
| ? | NC_002947 | = 6032856 | 35 (0.350) | intergenic (+64/+72) | dppA‑IV/PP_5284 | dipeptide transport protein/hypothetical protein | |||||
| * | ? | NC_002947 | 5477138 = | 99 (0.740) | 24 (0.260) | 16/178 | 6.4 | 29.7% | intergenic (+3/+109) | PP_4813/PP_4814 | PAP2 family protein/DedA family protein/ATP‑dependent protease La domain‑containing protein |
| ? | NC_002947 | 5477237 = | 46 (0.500) | intergenic (+102/+10) | PP_4813/PP_4814 | PAP2 family protein/DedA family protein/ATP‑dependent protease La domain‑containing protein | |||||
| * | ? | NC_002947 | = 2063227 | 59 (0.440) | 26 (0.240) | 20/210 | 6.4 | 29.8% | intergenic (+41/‑166) | PP_1838/PP_1839 | membrane protein/hypothetical protein |
| ? | NC_002947 | = 2063271 | 75 (0.690) | intergenic (+85/‑122) | PP_1838/PP_1839 | membrane protein/hypothetical protein | |||||
| * | ? | NC_002947 | = 4586100 | 75 (0.560) | 19 (0.200) | 16/184 | 6.6 | 25.1% | intergenic (+139/+78) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| ? | NC_002947 | = 4586128 | 60 (0.630) | intergenic (+167/+50) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase | |||||