This directory contains compressed phastCons scores for multiple
alignments of the following assemblies to the human genome
(hg17, May 2004):

  - chimp (Nov 2003, panTro1) 
  - mouse (Aug 2005, mm7) 
  - rat (Jun 2003, rn3)
  - 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 (Jun 2005, monDom2) 
  - 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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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/hg17/phastCons. 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 hg17 Conservation track in the Genome
Browser.
      Name                    Last modified      Size  Description
Parent Directory - md5sum.txt 2006-04-14 10:55 2.1K chrY.gz 2006-04-13 18:42 6.3M chrX_random.gz 2006-04-13 18:42 614K chrX.gz 2006-04-13 18:42 77M chrM.gz 2006-04-13 18:41 18K chr9_random.gz 2006-04-13 18:41 275K chr9.gz 2006-04-13 18:41 62M chr8_random.gz 2006-04-13 18:40 188K chr8.gz 2006-04-13 18:40 74M chr7_random.gz 2006-04-13 18:39 204K chr7.gz 2006-04-13 18:39 80M chr6_random.gz 2006-04-13 18:38 859K chr6_hla_hap2.gz 2006-04-13 18:38 49K chr6_hla_hap1.gz 2006-04-13 18:38 46K chr6.gz 2006-04-13 18:38 92M chr5_random.gz 2006-04-13 18:37 45K chr5.gz 2006-04-13 18:37 95M chr4_random.gz 2006-04-13 18:36 263K chr4.gz 2006-04-13 18:36 101M chr3_random.gz 2006-04-13 18:35 446K chr3.gz 2006-04-13 18:35 107M chr2_random.gz 2006-04-13 18:34 97K chr2.gz 2006-04-13 18:34 130M chr22_random.gz 2006-04-13 18:32 105K chr22.gz 2006-04-13 18:32 14M chr21.gz 2006-04-13 18:32 17M chr20.gz 2006-04-13 18:32 30M chr1_random.gz 2006-04-13 18:32 1.6M chr1.gz 2006-04-13 18:32 120M chr19_random.gz 2006-04-13 18:30 38K chr19.gz 2006-04-13 18:30 20M chr18_random.gz 2006-04-13 18:30 3.9K chr18.gz 2006-04-13 18:30 40M chr17_random.gz 2006-04-13 18:30 694K chr17.gz 2006-04-13 18:30 39M chr16_random.gz 2006-04-13 18:29 33K chr16.gz 2006-04-13 18:29 37M chr15_random.gz 2006-04-13 18:29 321K chr15.gz 2006-04-13 18:29 44M chr14.gz 2006-04-13 18:28 48M chr13_random.gz 2006-04-13 18:28 78K chr13.gz 2006-04-13 18:28 52M chr12_random.gz 2006-04-13 18:27 206K chr12.gz 2006-04-13 18:27 69M chr11.gz 2006-04-13 18:26 68M chr10_random.gz 2006-04-13 18:25 43K chr10.gz 2006-04-13 18:25 68M