Genome data

Drosophila melanogaster/pseudoobscura:
	In the case of D.melanogaster, we used Genome Release 5.38 for all analyses. In the case of D.pseudoobscura, we used Release 2.0 (Nov 2005). The data can be downloaded from FlyBase.
Drosophila simulans/yakuba:
	Both genomes (droSim1/ droYak2) are from the Genome Sequencing Center at Washington University School of Medicine in St. Louis. You can download the genomes from the UCSC Genome Bioinformatics Site.
Anopheles gambiae:
	Our analysis was based on the the Feb. 2003 assembly of the A. gambiae genome (anoGam1) from the International Anopheles Genome Project (version MOZ2). You can download the genomes from the UCSC Genome Bioinformatics Site. Since the experiments by Hahn et al. were based on Affymetrix chips, we downloaded the sequences from the Affymetrix Site.