This directory contains the Jul. 2007 Zv7 assembly of the zebrafish genome
(danRer5) obtained from the Wellcome Trust Sanger Institute, as well as 
repeat annotations and GenBank sequences.

This assembly was produced by a collaboration between the
Wellcome Trust Sanger Institute in Cambridge, UK, the Max Planck Institute
for Developmental Biology in Tuebingen, Germany, the Netherlands Institute
for Developmental Biology (Hubrecht Laboratory), Utrecht, The Netherlands
and Yi Zhou and Leonard Zon from the Children's Hospital in Boston,
Massachusetts.

For more information on the zebrafish genome, see the project website:
http://www.sanger.ac.uk/Projects/D_rerio/

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.
    May 17 2007 (open-3-1-8) version of
    RepeatMasker with the RepeatMasker library RELEASE 20061006. The
    RepeatMasker library included the addition of repeats from the 
    zebunc.ref (Zebrafish Unclassified) repeats library from RepBase12.07 
    from the Genetic Information Research Institute (GIRI). Some repeats were 
    removed from zebunc.ref because they mask out real genes (see the 
    danRer5 RepeatMasker track description page for more details).

  - 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 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/danRer5/chromosomes. To download multiple files, 
use the "mget" command:

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

The Zv7 zebrafish sequence data were produced by the Zebrafish Sequencing 
Group at the Sanger Institute and can be obtained directly from 
ftp://ftp.ensembl.org/pub/assembly/zebrafish/Zv7release/. All sequence data 
are made available before scientific publication with the understanding that 
the groups involved in generating the data intend to publish the initial 
large-scale analyses of the dataset. This will include a summary detailing 
the data that have beeen generated and key features of the genome identified 
from genomic assembly and clone mapping/sequencing. Any redistribution of 
the data should carry this notice. 

[ICO]NameLast modifiedSizeDescription

[DIR]Parent Directory  -  
[TXT]README.txt16-Sep-2007 13:04 2.6K 
[   ]chr1.fa.gz10-Sep-2007 19:51 17M 
[   ]chr2.fa.gz10-Sep-2007 19:51 17M 
[   ]chr3.fa.gz10-Sep-2007 19:51 19M 
[   ]chr4.fa.gz10-Sep-2007 19:51 13M 
[   ]chr5.fa.gz10-Sep-2007 19:51 22M 
[   ]chr6.fa.gz10-Sep-2007 19:51 18M 
[   ]chr7.fa.gz10-Sep-2007 19:51 22M 
[   ]chr8.fa.gz10-Sep-2007 19:51 17M 
[   ]chr9.fa.gz10-Sep-2007 19:51 16M 
[   ]chr10.fa.gz10-Sep-2007 19:51 13M 
[   ]chr11.fa.gz10-Sep-2007 19:51 14M 
[   ]chr12.fa.gz10-Sep-2007 19:52 15M 
[   ]chr13.fa.gz10-Sep-2007 19:52 17M 
[   ]chr14.fa.gz10-Sep-2007 19:52 17M 
[   ]chr15.fa.gz10-Sep-2007 19:52 14M 
[   ]chr16.fa.gz10-Sep-2007 19:52 16M 
[   ]chr17.fa.gz10-Sep-2007 19:52 16M 
[   ]chr18.fa.gz10-Sep-2007 19:52 15M 
[   ]chr19.fa.gz10-Sep-2007 19:52 14M 
[   ]chr20.fa.gz10-Sep-2007 19:52 17M 
[   ]chr21.fa.gz10-Sep-2007 19:52 14M 
[   ]chr22.fa.gz10-Sep-2007 19:52 12M 
[   ]chr23.fa.gz10-Sep-2007 19:52 14M 
[   ]chr24.fa.gz10-Sep-2007 19:52 12M 
[   ]chr25.fa.gz10-Sep-2007 19:52 10M 
[   ]chrM.fa.gz10-Sep-2007 19:52 5.3K 
[TXT]md5sum.txt14-Sep-2007 16:23 1.2K 
[   ]unmappedScaffolds.fa.gz14-Sep-2007 16:08 50M 

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