This directory contains compressed phastCons scores for multiple
alignments of the following assemblies to the zebrafish genome
(danRer3, May 2005):
- Human (hg18, Feb. 2006)
- Mouse (mm7, Aug. 2005)
- Fugu (fr1, Aug. 2002)
- Tetraodon (tetNig1, Feb. 2004)
For a description of the phastCons file format, see
http://genome.ucsc.edu/goldenPath/help/phastCons.html.
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If you plan to download a large file or multiple files from this
directory, we recommend you use ftp rather than downloading the files
via our website. To do so, ftp to hgdownload.cse.ucsc.edu, then go to
the directory goldenPath/danRer3/phastCons5wayScores. To download
multiple files, use the "mget" command:
mget <filename1> <filename2> ...
- or -
mget -a (to download all the files in the directory)
All the files in this directory are freely available for public use.
For data use restrictions regarding the genome assemblies used in this
annotation, see http://genome.ucsc.edu/goldenPath/credits.html.
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References for phastCons:
Siepel, A., Bejerano, G., Pedersen, J.S., Hinrichs, A., Hou, M.,
Rosenbloom, K., Clawson, H., Spieth, J., Hillier, L.W., Richards, S.,
Weinstock, G.M., Wilson, R. K., Gibbs, R.A., Kent, W.J., Miller, W.,
and Haussler, D. Evolutionarily conserved elements in vertebrate, insect,
worm, and yeast genomes. Genome Res. 15, 1034-1050 (2005).
(http://www.genome.org/cgi/doi/10.1101/gr.3715005)
Siepel, A. and Haussler, D. Phylogenetic hidden Markov models.
In R. Nielsen, ed., Statistical Methods in Molecular Evolution,
Springer (in press) (2004).
For a discussion of the methods used to calculate the phastCons scores,
see the description page for the danRer3 Conservation track in the Genome
Browser.
Name Last modified Size Description
Parent Directory -
md5sum.txt 2006-02-07 09:47 1.3K
chrUn.data.gz 2006-02-07 09:40 35M
chrNA.data.gz 2006-02-07 09:40 45M
chrM.data.gz 2006-02-07 09:39 27K
chr25.data.gz 2006-02-07 09:38 5.3M
chr24.data.gz 2006-02-07 09:38 6.7M
chr23.data.gz 2006-02-07 09:38 11M
chr22.data.gz 2006-02-07 09:38 9.4M
chr21.data.gz 2006-02-07 09:38 7.6M
chr20.data.gz 2006-02-07 09:38 11M
chr19.data.gz 2006-02-07 09:37 13M
chr18.data.gz 2006-02-07 09:37 9.7M
chr17.data.gz 2006-02-07 09:37 9.5M
chr16.data.gz 2006-02-07 09:37 10M
chr15.data.gz 2006-02-07 09:37 9.0M
chr14.data.gz 2006-02-07 09:37 14M
chr13.data.gz 2006-02-07 09:37 9.6M
chr12.data.gz 2006-02-07 09:36 6.9M
chr11.data.gz 2006-02-07 09:36 7.7M
chr10.data.gz 2006-02-07 09:36 7.9M
chr9.data.gz 2006-02-07 09:39 8.6M
chr8.data.gz 2006-02-07 09:39 8.1M
chr7.data.gz 2006-02-07 09:39 12M
chr6.data.gz 2006-02-07 09:39 6.5M
chr5.data.gz 2006-02-07 09:39 15M
chr4.data.gz 2006-02-07 09:38 7.2M
chr3.data.gz 2006-02-07 09:38 9.6M
chr2.data.gz 2006-02-07 09:38 9.7M
chr1.data.gz 2006-02-07 09:36 11M