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.

-----------------------------------------------------------------
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.
[ICO]NameLast modifiedSizeDescription

[DIR]Parent Directory  -  
[TXT]README.txt02-Jul-2007 12:40 2.4K 
[   ]chr1.gz06-Apr-2006 14:30 121M 
[   ]chr1_random.gz06-Apr-2006 14:36 591K 
[   ]chr2.gz06-Apr-2006 14:37 130M 
[   ]chr2_random.gz06-Apr-2006 14:38 51K 
[   ]chr3.gz06-Apr-2006 14:39 107M 
[   ]chr3_random.gz06-Apr-2006 14:39 343K 
[   ]chr4.gz06-Apr-2006 14:40 101M 
[   ]chr4_random.gz06-Apr-2006 14:40 221K 
[   ]chr5.gz06-Apr-2006 14:41 95M 
[   ]chr5_h2_hap1.gz06-Apr-2006 14:41 870K 
[   ]chr5_random.gz06-Apr-2006 14:41 44K 
[   ]chr6.gz06-Apr-2006 14:43 92M 
[   ]chr6_cox_hap1.gz06-Apr-2006 14:43 2.1M 
[   ]chr6_qbl_hap2.gz06-Apr-2006 14:43 1.9M 
[   ]chr6_random.gz06-Apr-2006 14:43 833K 
[   ]chr7.gz06-Apr-2006 14:43 80M 
[   ]chr7_random.gz06-Apr-2006 14:43 146K 
[   ]chr8.gz06-Apr-2006 14:44 74M 
[   ]chr8_random.gz06-Apr-2006 14:44 190K 
[   ]chr9.gz06-Apr-2006 14:45 63M 
[   ]chr9_random.gz06-Apr-2006 14:45 203K 
[   ]chr10.gz06-Apr-2006 14:31 68M 
[   ]chr10_random.gz06-Apr-2006 14:31 42K 
[   ]chr11.gz06-Apr-2006 14:32 68M 
[   ]chr11_random.gz06-Apr-2006 14:32 42K 
[   ]chr12.gz06-Apr-2006 14:33 69M 
[   ]chr13.gz06-Apr-2006 14:33 52M 
[   ]chr13_random.gz06-Apr-2006 14:33 78K 
[   ]chr14.gz06-Apr-2006 14:34 48M 
[   ]chr15.gz06-Apr-2006 14:34 44M 
[   ]chr15_random.gz06-Apr-2006 14:34 321K 
[   ]chr16.gz06-Apr-2006 14:35 37M 
[   ]chr16_random.gz06-Apr-2006 14:35 32K 
[   ]chr17.gz06-Apr-2006 14:35 39M 
[   ]chr17_random.gz06-Apr-2006 14:35 690K 
[   ]chr18.gz06-Apr-2006 14:36 40M 
[   ]chr18_random.gz06-Apr-2006 14:36 4.1K 
[   ]chr19.gz06-Apr-2006 14:36 20M 
[   ]chr19_random.gz06-Apr-2006 14:36 36K 
[   ]chr20.gz06-Apr-2006 14:38 30M 
[   ]chr21.gz06-Apr-2006 14:38 17M 
[   ]chr21_random.gz06-Apr-2006 14:38 481K 
[   ]chr22.gz06-Apr-2006 14:38 14M 
[   ]chr22_h2_hap1.gz06-Apr-2006 14:38 33K 
[   ]chr22_random.gz06-Apr-2006 14:38 106K 
[   ]chrM.gz06-Apr-2006 14:45 18K 
[   ]chrX.gz06-Apr-2006 14:46 77M 
[   ]chrX_random.gz06-Apr-2006 14:46 575K 
[   ]chrY.gz06-Apr-2006 14:46 6.3M 
[SND]elliotsEncode.mod06-Feb-2007 09:21 1.1K 
[TXT]md5sum.txt06-Apr-2006 15:35 2.2K 
[   ]testDownloads.csh08-Nov-2007 15:46 247  

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