This directory contains compressed phastCons scores for multiple
alignments of the following assemblies to the D. melanogaster genome
(dm2, Apr. 2004, BDGP Release 4 + DHGP Release 3.2).  

- D. simulans (droSim1, Apr. 2005)
- D. yakuba (droYak1, Apr. 2004)
- D. ananassae (droAna1, Jul. 2004)
- D. pseudoobscura (dp3, Nov. 2004)
- D. virilis (droVir1, Jul. 2004) 
- D. mojavensis (droMoj1, Aug. 2004) 
- A. gambiae (anoGam1, Feb. 2003) 
- A. mellifera (apiMel1, Jul. 2004) 

For a description of the phastCons file format, see .

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, then go to 
the directory goldenPath/dm2/phastCons9way. 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 .

References for phastCons:

Siepel, A. et al. Evolutionarily conserved elements in vertebrate, insect, 
worm, and yeast genomes. Genome Res. 15, 1034-1050 (2005).

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 dm2 Conservation track in the Genome
      Name                    Last modified      Size  Description
Parent Directory - md5sum.txt 2005-05-27 18:16 594 chrYh.pp.gz 2005-05-27 18:16 236K chrXh.pp.gz 2005-05-27 18:16 419K chr4h.pp.gz 2005-05-27 18:16 77K chr3h.pp.gz 2005-05-27 18:16 2.0M chr3R.pp.gz 2005-05-27 18:16 38M chr3L.pp.gz 2005-05-27 18:16 32M chr2h.pp.gz 2005-05-27 18:15 1.3M chr2R.pp.gz 2005-05-27 18:15 28M chr2L.pp.gz 2005-05-27 18:15 30M chrX.pp.gz 2005-05-27 18:15 31M chrU.pp.gz 2005-05-27 18:14 3.7M chrM.pp.gz 2005-05-27 18:14 24K chr4.pp.gz 2005-05-27 18:14 1.6M