Hello Maria, This data is in .wig format in the "fixed step" format. This file type is described in this link. In general for this file, you can expect one line per base, unless there is no conservation data at that position. http://genome.ucsc.edu/goldenPath/help/wiggle.html
Coverage over the genome can vary for several reason. A discussion (including references to the paper associated with the algorithm used to generate the data) in is this prior answer: https://lists.soe.ucsc.edu/pipermail/genome/2010-March/021443.html Hopefully this help, but let us know if you have more questions, Thanks, Jennifer --------------------------------- Jennifer Jackson UCSC Genome Informatics Group http://genome.ucsc.edu/ On 3/16/10 10:14 AM, Maria Poptsova wrote: > Hello, > > I'd like to understand conservation tracks for PhyloP. I downloaded a > PhyloP primates scores for 22nd chromosome as: > > http://hgdownload.cse.ucsc.edu/goldenPath/hg19/phyloP46way/primates/chr22.phyloP46way.primate.wigFix.gz. > <http://hgdownload.cse.ucsc.edu/goldenPath/hg19/phyloP46way/primates/chr22.phyloP46way.primate.wigFix.gz> > > The file chr22.phyloP46way.primate.wigFix contains phyloP scores - one > score at one line. As far as I understand, each score corresponds to > individual site, or? If it is so then I have a question. The file > chr22.phyloP46way.primate.wigFix contains 34,343,843 lines while the > size of the chr22 is 50,685,268. Could you please explain me how the > scores in chr22.phyloP46way.primate.wigFix are related to the > chromosome's sites? > > Thank you, > Maria > > > > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
