This directory contains the Feb. 2013 (WBcel235/ce11) assembly of the
C. elegans genome (ce11, C. elegans Sequencing Consortium WBcel235)
in one gzip-compressed FASTA file per chromosome.
For more information about this assembly, please note the NCBI resources:
http://www.ncbi.nlm.nih.gov/genome/41
http://www.ncbi.nlm.nih.gov/assembly/554278
http://www.ncbi.nlm.nih.gov/bioproject/13758
Repeats from RepeatMasker and Tandem Repeats Finder (with period
of 12 or less) are shown in lower case; non-repeating sequence is
shown in upper case.
This assembly was produced by the Washington University School of Medicine GSC and
the Wellcome Trust Sanger Institute as part of the
C. elegans Sequencing Consortium Genome Project.
For more information on the C. elegans genome, see the project website:
http://genome.wustl.edu/genomes/detail/caenorhabditis-elegans/
http://genome.wustl.edu/projects/detail/sequencing-the-roundworm-c-elegans/
Files included in this directory:
- chr*.fa.gz: compressed FASTA sequence of each 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/ce11/chromosomes. To download multiple
files, use the "mget" command:
mget <filename1> <filename2> ...
- or -
mget -a (to download all the files in the directory)
Alternate methods to ftp access.
Using an rsync command to download the entire directory:
rsync -avzP rsync://hgdownload.cse.ucsc.edu/goldenPath/ce11/chromosomes/ .
For a single file, e.g. chrM.fa.gz
rsync -avzP
rsync://hgdownload.cse.ucsc.edu/goldenPath/ce11/chromosomes/chrM.fa.gz .
Or with wget, all files:
wget --timestamping
'ftp://hgdownload.cse.ucsc.edu/goldenPath/ce11/chromosomes/*'
With wget, a single file:
wget --timestamping
'ftp://hgdownload.cse.ucsc.edu/goldenPath/ce11/chromosomes/chrM.fa.gz'
-O chrM.fa.gz
To uncompress the fa.gz files:
gunzip <file>.fa.gz
The C. elegans sequence is made freely available to the community by the
Genome Sequencing Center, Washington University School of Medicine, 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 these data
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.
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GenBank Data Usage
The GenBank database is designed to provide and encourage access within
the scientific community to the most up to date and comprehensive DNA
sequence information. Therefore, NCBI places no restrictions on the use
or distribution of the GenBank data. However, some submitters may claim
patent, copyright, or other intellectual property rights in all or a
portion of the data they have submitted. NCBI is not in a position to
assess the validity of such claims, and therefore cannot provide comment
or unrestricted permission concerning the use, copying, or distribution
of the information contained in GenBank.
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Name Last modified Size Description
Parent Directory -
md5sum.txt 2015-09-11 10:55 319
chrM.fa.gz 2015-09-11 10:54 4.3K
chrIII.fa.gz 2015-09-11 10:54 4.1M
chrII.fa.gz 2015-09-11 10:54 4.6M
chrI.fa.gz 2015-09-11 10:54 4.6M
chrX.fa.gz 2015-09-11 10:54 5.4M
chrIV.fa.gz 2015-09-11 10:54 5.3M
chrV.fa.gz 2015-09-11 10:54 6.3M