Hello, The question is a bit difficult to interpret. Here are some potential answers - but write back with more details if none of these address what you are asking for.
If you want the genomic sequence, one fasta record per chromosome, the data is available via ftp from our downloads server. Here are some links to the instructions: http://genome.ucsc.edu/FAQ/FAQdownloads#download1 http://genome.ucsc.edu/goldenPath/help/hgTracksHelp.html#Download If you want genome alignments (FlyBase, etc), the alignments are organized per query transcript, but can be organized by chromosome if extracted from the Table browser or created from the files on the Downloads server. If you instead are referring to the Comparative alignments (one genome vs another) or the Conservation data (multiple genomes), the data is organized by multiple-alignment block, but it can also be grouped by chromosome (the blocks are not continuous) and extracted from the Table browser or created from files on the Downloads server. http://genome.ucsc.edu/goldenPath/help/hgTracksHelp.html#TableBrowser Again, please write back to clarify if is not the information you are looking for, Jennifer ------------------------------------------------ Jennifer Jackson UCSC Genome Bioinformatics Group ----- "Miquel Ramia" <[email protected]> wrote: > From: "Miquel Ramia" <[email protected]> > To: [email protected] > Sent: Thursday, December 3, 2009 7:51:12 AM GMT -08:00 US/Canada Pacific > Subject: [Genome] whole fasta alignment > > Hi, > > We are interested in the d.melanogaster-d.simulans alignment. We've > seen > that using the browser you can see the sequences continuously, but you > > only can download little alignments instead. We wonder if there is a > > way to get the whole alignment in one sequence for each specie (for > each > chromosome) and not divided in small parts. > > kind regards. > > -- > > Miquel Ràmia > > > > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
