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 2006-05-30 09:09 16M
chr10.gz 2006-05-30 09:09 12M
chr11.gz 2006-05-30 09:10 11M
chr12.gz 2006-05-30 09:10 13M
chr13.gz 2006-05-30 09:10 14M
chr14.gz 2006-05-30 09:10 21M
chr15.gz 2006-05-30 09:10 13M
chr16.gz 2006-05-30 09:11 14M
chr17.gz 2006-05-30 09:11 14M
chr18.gz 2006-05-30 09:11 12M
chr19.gz 2006-05-30 09:11 11M
chr2.gz 2006-05-30 09:11 15M
chr20.gz 2006-05-30 09:11 14M
chr21.gz 2006-05-30 09:12 12M
chr22.gz 2006-05-30 09:12 11M
chr23.gz 2006-05-30 09:12 12M
chr24.gz 2006-05-30 09:12 10M
chr25.gz 2006-05-30 09:12 9.2M
chr3.gz 2006-05-30 09:12 16M
chr4.gz 2006-05-30 09:12 11M
chr5.gz 2006-05-30 09:13 18M
chr6.gz 2006-05-30 09:13 16M
chr7.gz 2006-05-30 09:13 19M
chr8.gz 2006-05-30 09:13 15M
chr9.gz 2006-05-30 09:13 13M
chrM.gz 2006-05-30 09:13 26K
chrNA_random.gz 2006-05-30 09:14 49M
chrUn_random.gz 2006-05-30 09:14 13M
md5sum.txt 2006-05-30 09:27 1.2K