This directory contains the Dec. 2008 assembly of the zebrafish genome
(danRer6, Wellcome Trust Sanger Institute, Zv8 assembly (CAAK00000000.5)), as well as repeat annotations and GenBank sequences.

This assembly was produced by The Wellcome Trust Sanger Institute in Cambridge, UK.
For more information on the zebrafish genome, see the project website:

Files included in this directory:

  - chr*.fa.gz: gzip compressed FASTA sequence of each chromosome.
    Repeats (from RepeatMasker and Tandem Repeat Finder) 
    are in lower case while non-repeating sequence is in upper case.

  - unmappedScaffolds.fa.gz: gzip compressed FASTA sequence of all the 
    unmapped scaffolds. These are repeatmasked as described above.

  - md5sum.txt - Checksum file.

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
[username: anonymous, password: your email address], then cd to the
directory goldenPath/danRer6/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:// .
For a single file, e.g. chromFa.tar.gz
    rsync -avzP 
        rsync:// .

Or with wget, all files:
    wget --timestamping 
With wget, a single file:
    wget --timestamping 
        -O chr1.fa.gz

To unpack the *.tar.gz files:
    tar xvzf <file>.tar.gz
To uncompress the fa.gz files:
    gunzip <file>.fa.gz

      Name                    Last modified      Size  Description
Parent Directory - chr1.fa.gz 2010-01-25 16:09 18M chr2.fa.gz 2010-01-25 16:09 18M chr3.fa.gz 2010-01-25 16:08 19M chr4.fa.gz 2010-01-25 16:08 21M chr5.fa.gz 2010-01-25 16:07 23M chr6.fa.gz 2010-01-25 16:08 19M chr7.fa.gz 2010-01-25 16:07 24M chr8.fa.gz 2010-01-25 16:09 17M chr9.fa.gz 2010-01-25 16:10 17M chr10.fa.gz 2010-01-25 16:13 13M chr11.fa.gz 2010-01-25 16:12 14M chr12.fa.gz 2010-01-25 16:12 14M chr13.fa.gz 2010-01-25 16:11 16M chr14.fa.gz 2010-01-25 16:10 16M chr15.fa.gz 2010-01-25 16:12 15M chr16.fa.gz 2010-01-25 16:10 16M chr17.fa.gz 2010-01-25 16:11 15M chr18.fa.gz 2010-01-25 16:11 15M chr19.fa.gz 2010-01-25 16:11 15M chr20.fa.gz 2010-01-25 16:10 16M chr21.fa.gz 2010-01-25 16:12 15M chr22.fa.gz 2010-01-25 16:13 13M chr23.fa.gz 2010-01-25 16:12 14M chr24.fa.gz 2010-01-25 16:13 12M chr25.fa.gz 2010-01-25 16:13 12M chrM.fa.gz 2010-01-25 16:13 5.4K md5sum.txt 2010-01-26 15:30 1.2K unmappedScaffolds.fa.gz 2010-01-25 16:25 56M