Hi Idit, You can download this data by going to "Downloads", clicking into your desired organism, and then selecting your pairing (Human/Mouse) under Pairwise Alignments. This will take you to a downloads page that contains the alignment in different formats, as well as information on the file types and how to download the data. Given that you want a chromosome specific listing, we think the files in "axtNet/" might best suit your needs.
Here are links to the download pages: http://hgdownload.cse.ucsc.edu/goldenPath/hg19/vsMm9/ -Best alignment of mouse on human http://hgdownload.cse.ucsc.edu/goldenPath/mm9/vsHg19/ -Best alignment of human on mouse You can also view chromosome-specific alignment data by using our Chain and Net tracks in the browser. When you turn one on, you should see a chromosome color key below the main display. In mm9, you should be able to find "Human Chain/Net" under "Comparative Genomics", while in hg19, you have to click into "Placental Chain/Net" and select only "Mouse" under species (there will be two listings, one for Chains, one for Net). I hope this helps. Feel free to ask us further questions. Antonio Coelho UCSC Genome Bioinformatics Group Idit Kosti wrote: > Hello, > I'm looking for human - mouse alignment (hg19-mm9) for each > chromosome separately. I couldn't find it in the downloads section. > Where can I find it? (does it exists?) > Thanks a lot, > Idit > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
