This directory contains the Mar. 2006 assembly of the lancelet genome
(UCSC version braFlo1; JGI v.1.0, March 2006) in one gzip-compressed FASTA 
file per chromosome.

This assembly was produced by the US DOE Joint Genome Institute (JGI).
For more information on the lancelet genome, see the project website at
http://genome.jgi-psf.org/Brafl1/Brafl1.info.html.

Files included in this directory:

  - chr*.fa.gz: compressed FASTA sequence of each chromosome.
    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.

  - Checksum values for all files in this directory can be found in md5sum.txt.

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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/braFlo1/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/braFlo1/chromosomes/ .
For a single file, e.g. chrM.fa.gz
    rsync -avzP 
        rsync://hgdownload.cse.ucsc.edu/goldenPath/braFlo1/chromosomes/chrM.fa.gz .
    
Or with wget, all files:
    wget --timestamping 
        'ftp://hgdownload.cse.ucsc.edu/goldenPath/braFlo1/chromosomes/*'
With wget, a single file:
    wget --timestamping 
        'ftp://hgdownload.cse.ucsc.edu/goldenPath/braFlo1/chromosomes/chrM.fa.gz' 
        -O chrM.fa.gz
    
To uncompress the fa.gz files:
    gunzip <file>.fa.gz

------------------------------------------------------------------
The lancelet sequence is made freely available before scientific publication
by the JGI. Please see the JGI data release policy at
http://genome.jgi-psf.org/Brafl1/Brafl1.download.html for usage restrictions 
and citation information. 

      Name                                               Last modified      Size  Description
      Parent Directory                                                        -   
      md5sum.txt                                         2008-05-01 14:17   91   
      chrUn.fa.gz                                        2008-05-01 14:06  265M  
      chrM.fa.gz                                         2008-05-01 14:06  5.0K