Hello Jiannan, More information about the CDS FASTA alignments is here: http://genome.ucsc.edu/goldenPath/help/hgTablesHelp.html#FASTA
You can create your own version of this file using the Table Browser, as described above. There is not an easy way to add orangutan (ponAbe2) to the current 28-way multiple alignment; however, we are anticipating the release of a 44-way multiple alignment that does include orangutan. You can access it now on our test server: http://genome-test.cse.ucsc.edu/cgi-bin/hgGateway Keep in mind that the track has not undergone our regular quality assurance checks yet, and so is subject to change before release. -- Brooke Rhead UCSC Genome Bioinformatics Group On 12/20/08 6:13 AM, lin wrote: > Hi, > I found the file "refGene.exonAA.fa.gz" in > hgdownload.cse.ucsc.edu/goldenPath/hg18/multiz28way/alignments/. I see this > file is FASTA alignments of the CDS regions for refseq. Could you explain how > UCSC creates this file? Is there any pipeline or software to create it? > I found human's multiz28way does't contains Orangutan (ponAbe2). When I > want to add Orangutan into this multiz28way refGene.exonAA.fa.gz, how can I > do it? > Many thanks! > Best Wishes! > Jiannan Lin > _______________________________________________ > Genome maillist - [email protected] > http://www.soe.ucsc.edu/mailman/listinfo/genome > _______________________________________________ Genome maillist - [email protected] http://www.soe.ucsc.edu/mailman/listinfo/genome
