This directory contains compressed phastCons scores for multiple
alignments of the following assemblies to the zebrafish genome
(danRer4, Mar. 2006):
- Fugu (fr1, Aug. 2002)
- Tetraodon (tetNig1, Feb. 2004)
- X. tropicalis (xenTro2, Aug. 2005)
- Opossum (monDom4, Jan. 2006)
- Mouse (mm8, Feb. 2006)
- Human (hg18, Mar. 2006)
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/danRer4/phastCons7wayScores. 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 -
chr1.gz 30-May-2006 09:09 16M
chr2.gz 30-May-2006 09:11 15M
chr3.gz 30-May-2006 09:12 16M
chr4.gz 30-May-2006 09:12 11M
chr5.gz 30-May-2006 09:13 18M
chr6.gz 30-May-2006 09:13 16M
chr7.gz 30-May-2006 09:13 19M
chr8.gz 30-May-2006 09:13 15M
chr9.gz 30-May-2006 09:13 13M
chr10.gz 30-May-2006 09:09 12M
chr11.gz 30-May-2006 09:10 11M
chr12.gz 30-May-2006 09:10 13M
chr13.gz 30-May-2006 09:10 14M
chr14.gz 30-May-2006 09:10 21M
chr15.gz 30-May-2006 09:10 13M
chr16.gz 30-May-2006 09:11 14M
chr17.gz 30-May-2006 09:11 14M
chr18.gz 30-May-2006 09:11 12M
chr19.gz 30-May-2006 09:11 11M
chr20.gz 30-May-2006 09:11 14M
chr21.gz 30-May-2006 09:12 12M
chr22.gz 30-May-2006 09:12 11M
chr23.gz 30-May-2006 09:12 12M
chr24.gz 30-May-2006 09:12 10M
chr25.gz 30-May-2006 09:12 9.2M
chrM.gz 30-May-2006 09:13 26K
chrNA_random.gz 30-May-2006 09:14 49M
chrUn_random.gz 30-May-2006 09:14 13M
md5sum.txt 30-May-2006 09:27 1.2K