This directory contains compressed FASTA alignments for the CDS regions of the C. elegans genome (ce6, May 2008) aligned to the following assemblies: - C. remanei May 2007, caeRem3 chain net - C. briggsae Jan 2007, cb3 chain net - C. brenneri Feb 2008, caePb1 chain net - C. japonica Mar 2008, caeJap1 chain net - P. pacificus May 2007, priPac1 chain net Files included in this directory: - sangerGene.exon*.fa.gz: for each exon in the ce6 WormBase Gene track, this file contains either amino acids (AA) or nucleotides (Nuc) for ce6 and the aligning genomes. - refGene.exon*.fa.gz: for each exon in the ce6 RefSeq Gene track, this file contains either amino acids (AA) or nucleotides (Nuc) for ce6 and the aligning genomes. For a description of multiple alignment format (MAF), see http://genome.ucsc.edu/goldenPath/help/maf.html and http://genome.ucsc.edu/goldenPath/help/hgTablesHelp.html#FASTA. --------------------------------------------------------------- To download a large file or multiple files from this directory, we recommend that you use ftp rather than downloading the files via our website. To do so: ftp hgdownload.cse.ucsc.edu user name: anonymous password: <your email address> go to the directory goldenPath/ce6/multiz6way/alignments/ To download multiple files from the UNIX command line, use the "mget" command. mget <filename1> <filename2> ... - or - mget -a (to download all the files in the directory) Use the "prompt" command to toggle the interactive mode if you do not want to be prompted for each file that you download. All the files in this directory are freely usable for any purpose. For data use restrictions regarding the individual genome assemblies, see http://genome.ucsc.edu/goldenPath/credits.html.
Name Last modified Size Description
Parent Directory - refGene.exonAA.fa.gz 2008-09-30 13:42 26M refGene.exonNuc.fa.gz 2008-09-30 13:43 48M sangerGene.exonAA.fa.gz 2008-09-30 14:58 26M sangerGene.exonNuc.fa.gz 2008-09-30 14:59 49M md5sum.txt 2008-10-02 15:05 228