This directory contains compressed phastCons scores for multiple
alignments of the following assemblies to the human genome
(hg18, Mar. 2006):
- chimp (Nov 2003, panTro1)
- mouse (Feb 2006, mm8)
- rat (Nov 2004, rn4)
- rabbit (May 2005, oryCun1)
- macaque (Jan 2006, rheMac2)
- dog (May 2005, canFam2)
- cow (Mar 2005, bosTau2)
- armadillo (May 2005, dasNov1)
- elephant (May 2005, loxAfr1)
- tenrec (Jul 2005, echTel1)
- opossum (Jan 2006, monDom4)
- chicken (Feb 2004, galGal2)
- frog (Oct 2004, xenTro1)
- zebrafish (May 2005, danRer3)
- tetraodon (Feb 2004, tetNig1)
- fugu (Aug 2002, fr1)
For a description of the phastCons file format, see
http://genome.ucsc.edu/goldenPath/help/phastCons.html.
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To download a large file or multiple files from this directory, we recommend
that you use ftp rather than downloading the files via our website. To do so:
ftp hgdownload.cse.ucsc.edu
user name: anonymous
password: <your email address>
go to the directory goldenPath/hg18/phastCons17way
To download multiple files from the UNIX command line, use the "mget" command.
mget <filename1> <filename2> ...
- or -
mget -a (to download all the files in the directory)
Use the "prompt" command to toggle the interactive mode if you do not want
to be prompted for each file that you download.
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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.
---------------------------------------------------------------
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 hg17 Conservation track in the Genome
Browser.
Name Last modified Size Description
Parent Directory -
elliotsEncode.mod 2007-02-06 09:21 1.1K
md5sum.txt 2006-04-06 15:35 2.2K
chr18_random.gz 2006-04-06 14:36 4.1K
chrM.gz 2006-04-06 14:45 18K
chr16_random.gz 2006-04-06 14:35 32K
chr22_h2_hap1.gz 2006-04-06 14:38 33K
chr19_random.gz 2006-04-06 14:36 36K
chr11_random.gz 2006-04-06 14:32 42K
chr10_random.gz 2006-04-06 14:31 42K
chr5_random.gz 2006-04-06 14:41 44K
chr2_random.gz 2006-04-06 14:38 51K
chr13_random.gz 2006-04-06 14:33 78K
chr22_random.gz 2006-04-06 14:38 106K
chr7_random.gz 2006-04-06 14:43 146K
chr8_random.gz 2006-04-06 14:44 190K
chr9_random.gz 2006-04-06 14:45 203K
chr4_random.gz 2006-04-06 14:40 221K
chr15_random.gz 2006-04-06 14:34 321K
chr3_random.gz 2006-04-06 14:39 343K
chr21_random.gz 2006-04-06 14:38 481K
chrX_random.gz 2006-04-06 14:46 575K
chr1_random.gz 2006-04-06 14:36 591K
chr17_random.gz 2006-04-06 14:35 690K
chr6_random.gz 2006-04-06 14:43 833K
chr5_h2_hap1.gz 2006-04-06 14:41 870K
chr6_qbl_hap2.gz 2006-04-06 14:43 1.9M
chr6_cox_hap1.gz 2006-04-06 14:43 2.1M
chrY.gz 2006-04-06 14:46 6.3M
chr22.gz 2006-04-06 14:38 14M
chr21.gz 2006-04-06 14:38 17M
chr19.gz 2006-04-06 14:36 20M
chr20.gz 2006-04-06 14:38 30M
chr16.gz 2006-04-06 14:35 37M
chr17.gz 2006-04-06 14:35 39M
chr18.gz 2006-04-06 14:36 40M
chr15.gz 2006-04-06 14:34 44M
chr14.gz 2006-04-06 14:34 48M
chr13.gz 2006-04-06 14:33 52M
chr9.gz 2006-04-06 14:45 63M
chr10.gz 2006-04-06 14:31 68M
chr11.gz 2006-04-06 14:32 68M
chr12.gz 2006-04-06 14:33 69M
chr8.gz 2006-04-06 14:44 74M
chrX.gz 2006-04-06 14:46 77M
chr7.gz 2006-04-06 14:43 80M
chr6.gz 2006-04-06 14:43 92M
chr5.gz 2006-04-06 14:41 95M
chr4.gz 2006-04-06 14:40 101M
chr3.gz 2006-04-06 14:39 107M
chr1.gz 2006-04-06 14:30 121M
chr2.gz 2006-04-06 14:37 130M