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.

---------------------------------------------------------------
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        18-Nov-2008 12:25      -  
 chr1.gz                 06-Apr-2006 14:30   121M  
 chr10.gz                06-Apr-2006 14:31  67.5M  
 chr10_random.gz         06-Apr-2006 14:31    42k  
 chr11.gz                06-Apr-2006 14:32  67.8M  
 chr11_random.gz         06-Apr-2006 14:32    42k  
 chr12.gz                06-Apr-2006 14:33  69.0M  
 chr13.gz                06-Apr-2006 14:33  51.6M  
 chr13_random.gz         06-Apr-2006 14:33    78k  
 chr14.gz                06-Apr-2006 14:34  47.9M  
 chr15.gz                06-Apr-2006 14:34  44.0M  
 chr15_random.gz         06-Apr-2006 14:34   321k  
 chr16.gz                06-Apr-2006 14:35  37.0M  
 chr16_random.gz         06-Apr-2006 14:35    32k  
 chr17.gz                06-Apr-2006 14:35  38.6M  
 chr17_random.gz         06-Apr-2006 14:35   690k  
 chr18.gz                06-Apr-2006 14:36  39.8M  
 chr18_random.gz         06-Apr-2006 14:36     4k  
 chr19.gz                06-Apr-2006 14:36  19.9M  
 chr19_random.gz         06-Apr-2006 14:36    36k  
 chr1_random.gz          06-Apr-2006 14:36   591k  
 chr2.gz                 06-Apr-2006 14:37   130M  
 chr20.gz                06-Apr-2006 14:38  29.8M  
 chr21.gz                06-Apr-2006 14:38  16.5M  
 chr21_random.gz         06-Apr-2006 14:38   481k  
 chr22.gz                06-Apr-2006 14:38  14.4M  
 chr22_h2_hap1.gz        06-Apr-2006 14:38    33k  
 chr22_random.gz         06-Apr-2006 14:38   106k  
 chr2_random.gz          06-Apr-2006 14:38    51k  
 chr3.gz                 06-Apr-2006 14:39   107M  
 chr3_random.gz          06-Apr-2006 14:39   343k  
 chr4.gz                 06-Apr-2006 14:40   101M  
 chr4_random.gz          06-Apr-2006 14:40   221k  
 chr5.gz                 06-Apr-2006 14:41  95.1M  
 chr5_h2_hap1.gz         06-Apr-2006 14:41   870k  
 chr5_random.gz          06-Apr-2006 14:41    44k  
 chr6.gz                 06-Apr-2006 14:43  92.0M  
 chr6_cox_hap1.gz        06-Apr-2006 14:43   2.1M  
 chr6_qbl_hap2.gz        06-Apr-2006 14:43   1.9M  
 chr6_random.gz          06-Apr-2006 14:43   833k  
 chr7.gz                 06-Apr-2006 14:43  80.0M  
 chr7_random.gz          06-Apr-2006 14:43   146k  
 chr8.gz                 06-Apr-2006 14:44  74.5M  
 chr8_random.gz          06-Apr-2006 14:44   190k  
 chr9.gz                 06-Apr-2006 14:45  62.6M  
 chr9_random.gz          06-Apr-2006 14:45   203k  
 chrM.gz                 06-Apr-2006 14:45    18k  
 chrX.gz                 06-Apr-2006 14:46  76.9M  
 chrX_random.gz          06-Apr-2006 14:46   575k  
 chrY.gz                 06-Apr-2006 14:46   6.3M  
 elliotsEncode.mod       06-Feb-2007 09:21     1k  
 md5sum.txt              06-Apr-2006 15:35     2k  
 testDownloads.csh       08-Nov-2007 15:46     1k