This directory contains zipped multiple alignments of the following assemblies to the D. melanogaster genome (dm1, Jan. 2003): - D. yakuba (droYak1, Apr. 2004) - D. pseudoobscura (dp2, Aug. 2003) - A. gambiae (anoGam1, Feb. 2003) Each chr*.maf.gz file contains all the alignments to that particular D. melanogaster chromosome. The droYak1, dp2, and anoGam1 directories contain gzipped files containing the pairwise (blastz) alignments used in the multiple alignment. For a description of the multiple alignment format (MAF), see http://genome.ucsc.edu/goldenPath/help/maf.html. --------------------------------------------------------------- If you plan to download a large file or multiple files from this directory, we recommend you use ftp rather than downloading the files via our website. To do so, ftp to hgdownload.cse.ucsc.edu, then go to the directory goldenPath/dm1/multizDroYak1Dp2AnoGam1/. To download multiple files, use the "mget" command: mget ... - or - mget -a (to download all the files in the directory) All the tables in this directory are freely available for public use.