This directory contains the August 2006 assembly of the cow genome
(bosTau3, Baylor Btau_3.1). This assembly was produced by the
Baylor College of Medicine Human Genome Sequencing Center.
For more information on the cow genome, see the project website:
http://www.hgsc.bcm.tmc.edu/projects/bovine/ .
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.
RepeatMasker version: October 6 2006 (open-3-1-6)
libraries: RepBase Update, RM database version 20061006
chrUn.scaffolds.fa.gz: components of Baylor ChrUn artificial chromosome
treated as separate scaffolds. Treatment is otherwise the same
as for chr*.fa.gz above.
md5sum.txt - MD5 checksum of these files to verify correct transmission
UCSC modifications made to the original data set:
- Chr changed to chr
- Chr30 renamed to chrX
- ChrUn kept in separate scaffolds
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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/bosTau3/chromosomes. To download
multiple files, use the "mget" command:
mget <filename1> <filename2> ...
- or -
mget -a (to download all the files in the directory)
To unpack the fa.gz files:
gunzip <file>.fa.gz
Please review the restrictions on the use of the cow assembly data at
http://www.hgsc.bcm.tmc.edu/projects/conditions_for_use.html.
Name Last modified Size Description
Parent Directory -
chr1.fa.gz 2007-12-07 10:12 43M
chr2.fa.gz 2007-12-07 10:13 38M
chr3.fa.gz 2007-12-07 10:14 34M
chr4.fa.gz 2007-12-07 10:14 33M
chr5.fa.gz 2007-12-07 10:15 35M
chr6.fa.gz 2007-12-07 10:15 33M
chr7.fa.gz 2007-12-07 10:16 30M
chr8.fa.gz 2007-12-07 10:16 31M
chr9.fa.gz 2007-12-07 10:17 28M
chr10.fa.gz 2007-12-07 10:17 29M
chr11.fa.gz 2007-12-07 10:18 30M
chr12.fa.gz 2007-12-07 10:18 23M
chr13.fa.gz 2007-12-07 10:18 25M
chr14.fa.gz 2007-12-07 10:19 25M
chr15.fa.gz 2007-12-07 10:19 22M
chr16.fa.gz 2007-12-07 10:20 22M
chr17.fa.gz 2007-12-07 10:20 21M
chr18.fa.gz 2007-12-07 10:20 18M
chr19.fa.gz 2007-12-07 10:20 19M
chr20.fa.gz 2007-12-07 10:21 20M
chr21.fa.gz 2007-12-07 10:21 19M
chr22.fa.gz 2007-12-07 10:21 18M
chr23.fa.gz 2007-12-07 10:22 14M
chr24.fa.gz 2007-12-07 10:22 18M
chr25.fa.gz 2007-12-07 10:22 13M
chr26.fa.gz 2007-12-07 10:22 14M
chr27.fa.gz 2007-12-07 10:23 13M
chr28.fa.gz 2007-12-07 10:23 12M
chr29.fa.gz 2007-12-07 10:23 13M
chrUn.scaffolds.fa.gz 2007-12-07 10:34 137M
chrX.fa.gz 2007-12-07 10:23 29M
md5sum.txt 2007-12-07 10:43 1.4K