This directory contains compressed phastCons scores for multiple
alignments of the following assemblies to the dog genome (May 2005, canFam2):

  - human (May 2004, hg17) 
  - mouse (mm6, Mar. 2005)
  - rat (rn3, Jun. 2003)

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/canFam2/phastCons. To download multiple files, 
use the "mget" command:

    mget <filename1> <filename2> ...
    - or -
    mget -a (to download all the files in the directory)

All files in this directory are freely available for public use.
For data use restrictions regarding the other 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 Statistical Methods in Molecular Evolution (ed. Nielsen, R.) (Springer,
2005). 

For a discussion of the methods used to calculate the phastCons scores,
see the description page for the Conservation track in the Genome
Browser.
      Name                    Last modified      Size  Description
Parent Directory - md5sum.txt 2005-12-13 18:30 1.8K chrX.pp.gz 2005-12-13 18:11 100M chrUn.pp.gz 2005-12-13 18:30 15M chrM.pp.gz 2005-12-13 18:10 21K chr38.pp.gz 2005-12-13 18:30 25M chr37.pp.gz 2005-12-13 18:30 33M chr36.pp.gz 2005-12-13 18:29 33M chr35.pp.gz 2005-12-13 18:29 26M chr34.pp.gz 2005-12-13 18:29 42M chr33.pp.gz 2005-12-13 18:28 32M chr32.pp.gz 2005-12-13 18:28 38M chr31.pp.gz 2005-12-13 18:27 38M chr30.pp.gz 2005-12-13 18:26 42M chr29.pp.gz 2005-12-13 18:26 42M chr28.pp.gz 2005-12-13 18:25 43M chr27.pp.gz 2005-12-13 18:25 45M chr26.pp.gz 2005-12-13 18:24 37M chr25.pp.gz 2005-12-13 18:24 51M chr24.pp.gz 2005-12-13 18:23 50M chr23.pp.gz 2005-12-13 18:22 54M chr22.pp.gz 2005-12-13 18:22 61M chr21.pp.gz 2005-12-13 18:21 50M chr20.pp.gz 2005-12-13 18:20 59M chr19.pp.gz 2005-12-13 18:19 53M chr18.pp.gz 2005-12-13 18:19 54M chr17.pp.gz 2005-12-13 18:18 66M chr16.pp.gz 2005-12-13 18:17 56M chr15.pp.gz 2005-12-13 18:17 65M chr14.pp.gz 2005-12-13 18:16 63M chr13.pp.gz 2005-12-13 18:15 64M chr12.pp.gz 2005-12-13 18:14 73M chr11.pp.gz 2005-12-13 18:13 76M chr10.pp.gz 2005-12-13 18:12 70M chr9.pp.gz 2005-12-13 18:10 64M chr8.pp.gz 2005-12-13 18:09 75M chr7.pp.gz 2005-12-13 18:08 83M chr6.pp.gz 2005-12-13 18:07 76M chr5.pp.gz 2005-12-13 18:06 92M chr4.pp.gz 2005-12-13 18:05 92M chr3.pp.gz 2005-12-13 18:04 91M chr2.pp.gz 2005-12-13 18:02 85M chr1.pp.gz 2005-12-13 18:01 118M