This directory contains the Build 36.1 finished human genome assembly
(hg18, Mar. 2006) in one gzip-compressed FASTA file per chromosome.
The chromosomal sequences were assembled by the International Human
Genome Project sequencing centers.
Files included in this directory:
- chr*.fa.gz: compressed FASTA sequence of each chromosome.
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. Repeat masking was done using the following
RepeatMasker/RepBase versions: RepBase Update 9.11, RM database
version 20050112. The main assembly is found in the chrN.fa
files, where N is the name of the chromosome. The chrN_random.fa
files contain clones that are not yet finished or cannot be placed
with certainty at a specific place on the chromosome. In some
cases, including the human HLA region on chromosome 6, the
chrN_random.fa files also contain haplotypes that differ from the
main assembly.
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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/hg18/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/hg18/chromosomes/ .
For a single file, e.g. chrM.fa.gz
rsync -avzP
rsync://hgdownload.cse.ucsc.edu/goldenPath/hg18/chromosomes/chrM.fa.gz .
Or with wget, all files:
wget --timestamping
'ftp://hgdownload.cse.ucsc.edu/goldenPath/hg18/chromosomes/*'
With wget, a single file:
wget --timestamping
'ftp://hgdownload.cse.ucsc.edu/goldenPath/hg18/chromosomes/chrM.fa.gz'
-O chrM.fa.gz
To uncompress the fa.gz files:
gunzip <file>.fa.gz
All the files in this directory are freely available for public use.
Name Last modified Size Description
Parent Directory -
chr1.fa.gz 2005-12-09 14:58 70M
chr1_random.fa.gz 2005-12-09 14:58 391K
chr2.fa.gz 2005-12-09 14:58 74M
chr2_random.fa.gz 2005-12-09 14:58 58K
chr3.fa.gz 2005-12-09 14:58 61M
chr3_random.fa.gz 2005-12-09 14:58 197K
chr4.fa.gz 2005-12-09 14:59 59M
chr4_random.fa.gz 2005-12-09 14:59 204K
chr5.fa.gz 2005-12-09 14:59 56M
chr5_h2_hap1.fa.gz 2005-12-09 15:02 550K
chr5_random.fa.gz 2005-12-09 14:59 47K
chr6.fa.gz 2005-12-09 14:59 52M
chr6_cox_hap1.fa.gz 2005-12-09 15:02 1.5M
chr6_qbl_hap2.fa.gz 2005-12-09 15:02 1.3M
chr6_random.fa.gz 2005-12-09 14:59 587K
chr7.fa.gz 2005-12-09 14:59 48M
chr7_random.fa.gz 2005-12-09 14:59 144K
chr8.fa.gz 2005-12-09 15:00 45M
chr8_random.fa.gz 2005-12-09 15:00 165K
chr9.fa.gz 2005-12-09 15:00 38M
chr9_random.fa.gz 2005-12-09 15:00 224K
chr10.fa.gz 2005-12-09 15:00 41M
chr10_random.fa.gz 2005-12-09 15:00 35K
chr11.fa.gz 2005-12-09 15:00 41M
chr11_random.fa.gz 2005-12-09 15:00 39K
chr12.fa.gz 2005-12-09 15:00 41M
chr13.fa.gz 2005-12-09 15:01 30M
chr13_random.fa.gz 2005-12-09 15:01 60K
chr14.fa.gz 2005-12-09 15:01 28M
chr15.fa.gz 2005-12-09 15:01 25M
chr15_random.fa.gz 2005-12-09 15:01 187K
chr16.fa.gz 2005-12-09 15:01 24M
chr16_random.fa.gz 2005-12-09 15:01 33K
chr17.fa.gz 2005-12-09 15:01 24M
chr17_random.fa.gz 2005-12-09 15:01 573K
chr18.fa.gz 2005-12-09 15:01 23M
chr18_random.fa.gz 2005-12-09 15:01 1.4K
chr19.fa.gz 2005-12-09 15:01 17M
chr19_random.fa.gz 2005-12-09 15:01 69K
chr20.fa.gz 2005-12-09 15:01 19M
chr21.fa.gz 2005-12-09 15:01 11M
chr21_random.fa.gz 2005-12-09 15:01 414K
chr22.fa.gz 2005-12-09 15:01 11M
chr22_h2_hap1.fa.gz 2005-12-09 15:02 21K
chr22_random.fa.gz 2005-12-09 15:01 67K
chrM.fa.gz 2005-12-09 15:02 5.4K
chrX.fa.gz 2005-12-09 15:02 47M
chrX_random.fa.gz 2005-12-09 15:02 467K
chrY.fa.gz 2005-12-09 15:02 7.9M