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.
Name Last modified Size Description
Parent Directory - md5sum.txt 2007-09-14 16:23 1.2K chrM.fa.gz 2007-09-10 19:52 5.3K chr25.fa.gz 2007-09-10 19:52 10M chr22.fa.gz 2007-09-10 19:52 12M chr24.fa.gz 2007-09-10 19:52 12M chr4.fa.gz 2007-09-10 19:51 13M chr10.fa.gz 2007-09-10 19:51 13M chr11.fa.gz 2007-09-10 19:51 14M chr21.fa.gz 2007-09-10 19:52 14M chr19.fa.gz 2007-09-10 19:52 14M chr15.fa.gz 2007-09-10 19:52 14M chr23.fa.gz 2007-09-10 19:52 14M chr12.fa.gz 2007-09-10 19:52 15M chr18.fa.gz 2007-09-10 19:52 15M chr9.fa.gz 2007-09-10 19:51 16M chr17.fa.gz 2007-09-10 19:52 16M chr16.fa.gz 2007-09-10 19:52 16M chr13.fa.gz 2007-09-10 19:52 17M chr2.fa.gz 2007-09-10 19:51 17M chr1.fa.gz 2007-09-10 19:51 17M chr20.fa.gz 2007-09-10 19:52 17M chr8.fa.gz 2007-09-10 19:51 17M chr14.fa.gz 2007-09-10 19:52 17M chr6.fa.gz 2007-09-10 19:51 18M chr3.fa.gz 2007-09-10 19:51 19M chr7.fa.gz 2007-09-10 19:51 22M chr5.fa.gz 2007-09-10 19:51 22M unmappedScaffolds.fa.gz 2007-09-14 16:08 50M