This directory contains the Feb. 2008 assembly of the C. brenneri genome
(UCSC version caePb2, WUSTL version 6.0.1) in one gzip-compressed FASTA 
file per chromosome.

Various strains of this Caenorhabditis are named Caenorhabditis n. sp. 4.
PB2801, LKC28, CB5161, SB129, SB280.

This assembly was produced by the Genome Sequencing Center at
the Washington University School of Medicine in St. Louis (WUSTL).
For more information on the C. brenneri genome, see the project website:
http://genome.wustl.edu/genome.cgi?GENOME=Caenorhabditis%20brenneri.

Files included in this directory:

  - chrUn.fa.gz: compressed FASTA sequence of the UCSC artifical
    chromosome chrUn. Repeats from WindowMasker and Tandem Repeats Finder
    (with period of 12 or less) are shown in lower case; non-repeating sequence
    is shown in upper case.

  - md5sum.txt - checksums of files in this directory

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If you plan 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 to hgdownload.cse.ucsc.edu, then 
go to the directory goldenPath/caePb2/chromosomes. To download multiple 
files, use the "mget" command:

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

Alternate methods to ftp access.
    
Using an rsync command to download the entire directory:
    rsync -avzP rsync://hgdownload.cse.ucsc.edu/goldenPath/caePb2/chromosomes/ .
For a single file, e.g. chrUn.fa.gz
    rsync -avzP 
        rsync://hgdownload.cse.ucsc.edu/goldenPath/caePb2/chromosomes/chrUn.fa.gz .
    
Or with wget, all files:
    wget --timestamping 
        'ftp://hgdownload.cse.ucsc.edu/goldenPath/caePb2/chromosomes/*'
With wget, a single file:
    wget --timestamping 
        'ftp://hgdownload.cse.ucsc.edu/goldenPath/caePb2/chromosomes/chrUn.fa.gz' 
        -O chrUn.fa.gz
    
To uncompress the fa.gz files:
    gunzip <file>.fa.gz

------------------------------------------------------------------
The C. brenneri sequence is made freely available to the community by the
Genome Sequencing Center at the WUSTL School of Medicine. Please see the
WUSTL data use policy at http://genome.wustl.edu/data.cgi for data use
restrictions and citation information.

      Name                    Last modified      Size  Description
      Parent Directory                             -   
      chrUn.fa.gz             2008-05-13 13:39   55M  
      md5sum.txt              2008-05-13 13:41   46