Summary Results for Various Species with PhyloMarker v 3.0
All options were the default options in PhyloMarker 3.0
Results for fish species with PhyloMarker v2.0
| Species | # of Genes | # of Exons | # of Single Copy Exons | # of Introns | # of Single Copy Introns | Exon Markers | Intron Markers |
|---|---|---|---|---|---|---|---|
| Chicken | 17934 | 9768 | 4380 | 39871 | 9077 | ||
| Zebra Finch | 18581 | 5865 | 2288 | 31053 | 10567 | ||
| Chicken vs Zebra Finch | 730 | 37 | |||||
| Rat | 29516 | 16110 | 4896 | 49314 | 4176 | ||
| Mouse | 36822 | 41018 | 6681 | 76337 | 2988 | ||
| Rat vs Mouse | 1038 | 595 | |||||
| Fugu | 19388 | 9981 | 1644 | 59734 | 4249 | ||
| Oryzias | 20422 | 6858 | 4458 | 29430 | 2623 | ||
| Fugu vs Oryzias | 197 | 3 | |||||
| Bushbaby | 28085 | 8557 | 2998 | 26779 | 5982 | ||
| Mouse lemur | 24994 | 4979 | 1788 | 17928 | 4684 | ||
| Bushbaby Vs Mouse lemur | 576 | 220 | |||||
Results for fish species with PhyloMarker v2.0
| Fish Species Used | Old Results | New Results with Phylomarker |
| 1. Exons in four model species of fish | ||
| Danio rerion(version: Z.0) | 6746 | 8256 |
| Takifugu rubripes (version: Fugu 2.0): | 3483 | 4391 |
| Gasterosteus aculeatus(version: BROAD S1): | 3283 | 3262 |
| Oryzias latipes (version: MEDAKA 1): | 2873 | 2479 |
| Tetraodon nigroviridis | N/A | 2314 |
| 2. Putative single copy exons in four model species of fish | ||
| Danio rerion: | 2797 | 1894 |
| Takifugu rubripes: | 1822 | 835 |
| Gasterosteus aculeatus: | 2132 | 1150 |
| Oryzias latipes: | 1809 | 948 |
| Tetraodon nigroviridis | N/A | 858 |
| 3. Putative orthologs between model fish species | ||
| Danio rerion vs Takifugu rubripes: | 138 | 27 |
| Danio rerion vs Gasterosteus aculeatus: | 131* | 60 |
| Danio rerion vs Oryzias latipes: | 113* | 49 |
| Danio rerion vs Tetraodon nigroviridis | N/A | 42 |
| Takifugu rubripes vs Gasterosteus aculeatus: | 281 | 62 |
| Takifugu rubripes vs Oryzias latipes: | 208 | 34 |
| Takifugu rubripes vs Tetraodon nigroviridis: | N/A | 160 |
| Tetraodon nigroviridis vs Oryzias latipes: | N/A | 36 |
| Tetraodon nigroviridis vs Gasterosteus aculeatus: | N/A | 66 |
| Gasterosteus aculeatus vs Oryzias latipes: | N/A | 129 |
| * 20% coverage applied instead of 50% | ||
| 4. Putative orthologs among 3 model fish species | ||
| (Takifugu rubripes vs Oryzias latipes) AND (Takifugu rubripes vs Gasterosteus aculeatus): | 155 | 25(80/20) |
| (Takifugu rubripes vs Oryzias latipes) AND (Takifugu rubripes vs Danio rerion): | 61 | 8(80/20) |
| (Takifugu rubripes vs Oryzias latipes) AND (Takifugu rubripes vs Tetraodon nigroviridis) | N/A | 17(80/20) |
| (Takifugu rubripes vs Gasterosteus aculeatus) AND (Takifugu rubripes vs Danio rerion): | 63 | 9(80/20) |
| (Takifugu rubripes vs Tetraodon nigroviridis) AND (Takifugu rubripes vs Gasterosteus aculeatus) | N/A | 37(80/20) |
| (Takifugu rubripes vs Tetraodon nigroviridis) AND (Takifugu rubripes vs Danio rerion) | N/A | 8(80/20) |
| 5. Putative orthologs among 4 model fish species | ||
| (Takifugu rubripes vs Oryzias latipes) AND (Takifugu rubripes vs Gasterosteus aculeatus) AND (Takifugu rubripes vs Danio rerion):: | 41 | N/A |
News
Summer/Fall 2010
By: admin on 02-21-2011 at 10:52
Lots of things have changed! Phylomarke... Read More
Spring/Summer 2010
By: admin on 06-15-2010 at 02:06
Website has been updated to a new style.... Read More
Summer/Fall 2009
By: admin on 06-15-2010 at 02:03
run.pl has been extensively developed. P... Read More