This directory contains the Nov. 13 2004 ARACHNE assembly of the chimpanzee
genome (UCSC version panTro1) produced by the Chimpanzee Sequencing
Consortium.
Files included in this directory:
- chr*.fa.zip: compressed FASTA sequence of each chromosome.
Each chromosome is in a separate file in a zipped Fasta format.
Repeats -- which are shown in lower case -- are annotated by
RepeatMasker run at the sensitive setting. The primate library
and 3 chimp repeats from the chimp analysis group were used
with the 6/19/03 release of RepeatMasker. Tandem repeats of period
12 or less are also masked out using Tandem Repeats Finder.
The main assembly is contained in the chrN.fa files, where N is the
name of the chromosome. The chrN_random.fa files contain sequence that
cannot be placed with certainty at a specific place on the chromosome.
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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/panTro1/chromosomes. To download multiple
files, use the "mget" command:
mget <filename1> <filename2> ...
- or -
mget -a (to download all the files in the directory)
The chimp sequence is made freely available before scientific
publication with the following understanding:
1. The data may be freely downloaded, used in analyses, and repackaged
in databases.
2. Users are free to use the data in scientific papers analyzing
particular genes and regions if the providers of these data are
properly acknowledged. See http://genome.ucsc.edu/goldenPath/credits.html
for credit information.
3. The centers producing the data reserve the right to publish the initial
large-scale analyses of the data set, including large-scale identification
of regions of evolutionary conservation and large-scale genomic assembly.
Large-scale refers to regions with size on the order of a chromosome (that
is, 30 Mb or more).
4. Any redistribution of the data should carry this notice.
Name Last modified Size Description
Parent Directory -
chr1.fa.zip 2004-01-23 09:26 62M
chr2.fa.zip 2004-01-23 09:28 56M
chr2_random.fa.zip 2004-01-23 09:29 4.1M
chr3.fa.zip 2004-01-23 09:31 54M
chr3_random.fa.zip 2004-01-23 09:31 3.7M
chr4.fa.zip 2004-01-23 09:34 51M
chr4_random.fa.zip 2004-01-23 09:34 3.8M
chr5.fa.zip 2004-01-23 09:37 48M
chr5_random.fa.zip 2004-01-23 09:37 4.0M
chr6.fa.zip 2004-01-23 09:39 42M
chr6_random.fa.zip 2004-01-23 09:39 5.2M
chr7.fa.zip 2004-01-23 09:41 41M
chr7_random.fa.zip 2004-01-23 09:41 3.1M
chr8.fa.zip 2004-01-23 09:43 37M
chr8_random.fa.zip 2004-01-23 09:43 3.2M
chr9.fa.zip 2004-01-23 09:44 37M
chr9_random.fa.zip 2004-01-23 09:45 3.3M
chrM.fa.zip 2004-01-23 09:45 626
chrX.fa.zip 2004-01-23 09:46 35M
chrX_random.fa.zip 2004-01-23 09:46 4.2M
chrY.fa.zip 2004-01-23 09:46 2.2M
chrY_random.fa.zip 2004-01-23 09:46 710K
chr10.fa.zip 2004-01-23 09:48 30M
chr10_random.fa.zip 2004-01-23 09:48 2.6M
chr11.fa.zip 2004-01-23 09:49 30M
chr11_random.fa.zip 2004-01-23 09:49 2.9M
chr12.fa.zip 2004-01-23 09:50 30M
chr12_random.fa.zip 2004-01-23 09:50 3.1M
chr13.fa.zip 2004-01-23 09:52 37M
chr13_random.fa.zip 2004-01-23 09:52 2.9M
chr14.fa.zip 2004-01-23 09:53 23M
chr14_random.fa.zip 2004-01-23 09:53 7.0M
chr15.fa.zip 2004-01-23 09:55 25M
chr15_random.fa.zip 2004-01-23 09:55 1.6M
chr16.fa.zip 2004-01-23 09:56 21M
chr16_random.fa.zip 2004-01-23 09:56 3.2M
chr17.fa.zip 2004-01-23 09:57 20M
chr17_random.fa.zip 2004-01-23 09:57 2.8M
chr18.fa.zip 2004-01-23 09:58 20M
chr18_random.fa.zip 2004-01-23 09:58 2.4M
chr19.fa.zip 2004-01-23 09:58 15M
chr19_random.fa.zip 2004-01-23 09:59 8.5M
chr20.fa.zip 2004-01-23 09:59 14M
chr20_random.fa.zip 2004-01-23 09:59 1.6M
chr21.fa.zip 2004-01-23 10:00 17M
chr21_random.fa.zip 2004-01-23 10:00 1.4M
chr22.fa.zip 2004-01-23 10:00 9.6M
chr22_random.fa.zip 2004-01-23 10:00 692K
chr23.fa.zip 2004-01-23 10:01 8.8M
chr23_random.fa.zip 2004-01-23 10:01 928K
chr1_random.fa.zip 2004-01-26 15:22 6.5M
chrUn_random.fa.zip 2004-01-26 15:23 27M
md5sum.txt 2004-02-19 21:11 2.5K