Compara.{release}.{protein|ncrna}_{species_collection}.homologies.tsv.gz Contains all the orthologies in a single tab-separated file. Each orthology is represented on one line in this format: gene_stable_id1 seq_stable_id1 species1 %identity1 homology_type gene_stable_id2 seq_stable_id2 species2 %identity2 where seq_stable_id is either a protein or a transcript stable ID, depending on whether the gene is protein-coding or not