Hi, I stumbled across an issue which was already mentioned in the mailing list a few years ago and seemed to be solved. I've downloaded phastCons values for the multiple alignments of the chromosomes of the 6 nematodes via the browser tool and the ftp server (http://hgdownload.cse.ucsc.edu/goldenPath/ce6/phastCons6way/). Somehow the values for the positions differ, e.g.:
values from the table tool: track type=wiggle_0 name="Conservation" description="Multiz Alignment & Conservation (6 nematodes)" # output date: 2008-11-12 16:34:21 UTC # chrom specified: chrI # position specified: 1-10000000 # This data has been compressed with a minor loss in resolution. # (Worst case: 0.0078125) The original source data # (before querying and compression) is available at # http://hgdownload.cse.ucsc.edu/downloads.html variableStep chrom=chrI span=1 1521 0.208543 1522 0.339598 1523 0.415472 1524 0.601709 1525 0.718969 1526 0.787945 1527 0.822433 1528 0.829331 1529 0.822433 1530 0.787945 values from the chrI.data.gz file from the ftp directory: fixedStep chrom=chrI start=1521 step=1 0.215 0.345 0.419 0.604 0.720 0.793 0.823 0.833 0.827 0.789 How is that possible? And which values are correct? Best, Alex -- web: www.bioinf.uni-leipzig.de phone: +49 341 97-16702 fax: +49 341 97-16679 skype: alex.donath -- By the time you've read this, you've already read it! _______________________________________________ Genome maillist - [email protected] http://www.soe.ucsc.edu/mailman/listinfo/genome
