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Phylomarker - mining phylogenetic markers for assembling the Tree of Life
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This project is dedicated to developing a bioinformatics pipeline for mining nuclear gene markers for phylogeny inference.

Results

1. Exons in four model species of fish
Danio rerion(version: Zv5): 6746
Takifugu rubripes (version: Fugu 2.0): 3483
Gasterosteus aculeatus (version: BROAD S1): 3283
Oryzias latipes (version: MEDAKA 1): 2873

2. Putative single copy exons in four model species of fish
Danio rerion: 2797
Takifugu rubripes: 1822
Gasterosteus aculeatus: 2132
Oryzias latipes: 1809

3. Putative orthologs between model fish species
Danio rerion vs Takifugu rubripes: 138
Danio rerionvs vs Gasterosteus aculeatus:131*
Danio rerion vs Oryzias latipes: 113*
Takifugu rubripes vs Gasterosteus aculeatus: 281
Takifugu rubripes vs Oryzias latipes:208
Gasterosteus aculeatus vs Oryzias latipes: 225
* 20% coverage applied instead of 50%.

4. Putative orthologs among model fish species
(Takifugu rubripes vs Oryzias latipes) AND (Takifugu rubripes vs Gasterosteus aculeatus): 155
(Takifugu rubripes vs Oryzias latipes) AND Danio rerion vs Takifugu rubripes): 61
(Takifugu rubripes vs Gasterosteus aculeatus) AND (Danio rerion vs Takifugu rubripes): 63
(Takifugu rubripes vs Oryzias latipes) AND (Takifugu rubripes vs Gasterosteus aculeatus) AND (Danio rerion vs Takifugu rubripes): 41