This directory contains the Btau_2.0 cow genome assembly (bosTau2,
Mar. 2005) produced by the Baylor College of Medicine Human Genome
Sequencing Center. For more information about these data, see the
Baylor web page at 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 January 12 2005 version with RepBase
libraries: RepBase Update 9.11, RM database version 20050112
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 split into scaffold1 through scaffold98058
- Bin0 fragments assembled into artificial chromosome chrBin0
with 500 bp-gap padding
- chrM obtained from NCBI (gi=12800)
----------------------------------------------------------------
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/bosTau2/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 -
scaffolds.fa.gz 2005-09-26 15:45 379M
md5sum.txt 2005-09-26 16:54 1.5K
chrX.fa.gz 2005-09-26 16:18 13M
chrM.fa.gz 2005-09-26 16:18 5.3K
chrBin0.fa.gz 2005-09-26 16:18 65M
chr29.fa.gz 2005-09-26 16:18 11M
chr28.fa.gz 2005-09-26 16:18 9.0M
chr27.fa.gz 2005-09-26 16:18 8.0M
chr26.fa.gz 2005-09-26 16:18 9.2M
chr25.fa.gz 2005-09-26 16:18 11M
chr24.fa.gz 2005-09-26 16:18 12M
chr23.fa.gz 2005-09-26 16:18 11M
chr22.fa.gz 2005-09-26 16:18 13M
chr21.fa.gz 2005-09-26 16:18 13M
chr20.fa.gz 2005-09-26 16:18 11M
chr19.fa.gz 2005-09-26 16:18 15M
chr18.fa.gz 2005-09-26 16:18 15M
chr17.fa.gz 2005-09-26 16:18 12M
chr16.fa.gz 2005-09-26 16:18 15M
chr15.fa.gz 2005-09-26 16:18 14M
chr14.fa.gz 2005-09-26 16:18 13M
chr13.fa.gz 2005-09-26 16:18 16M
chr12.fa.gz 2005-09-26 16:18 13M
chr11.fa.gz 2005-09-26 16:18 23M
chr10.fa.gz 2005-09-26 16:18 18M
chr9.fa.gz 2005-09-26 16:17 16M
chr8.fa.gz 2005-09-26 16:17 16M
chr7.fa.gz 2005-09-26 16:17 18M
chr6.fa.gz 2005-09-26 16:17 18M
chr5.fa.gz 2005-09-26 16:17 20M
chr4.fa.gz 2005-09-26 16:17 18M
chr3.fa.gz 2005-09-26 16:17 22M
chr2.fa.gz 2005-09-26 16:17 22M
chr1.fa.gz 2005-09-26 16:17 26M