This directory contains zipped multiple alignments of the Human genome
(hg17, May 2004) to the following assemblies:
- Chimp Nov. 2003 (panTro1)
- Mouse May 2004 (mm5)
- Rat Jun. 2003 (rn3)
- Dog Jul. 2004 (canFam1)
- Chicken Feb. 2004 (galGal2)
- Fugu Aug. 2002 (fr1)
- Zebrafish Nov. 2003 (danRer1)
The chr*.maf.gz files each contain all the alignments to that
particular human chromosome.
The upstream*.maf.gz files contain alignments in regions upstream of
annotated transcription start for RefSeq genes with annotated 5' UTRs.
These files differ from the standard MAF format: they display
alignments that extend from start to end of the upstream region in
human, whether or not alignments actually exist. In situations where no
alignments exist or the alignments of one or more species are missing,
dot (".") is used as a placeholder. Multiple regions of an assembly's
sequence may align to a single region in human; therefore, only the
species name is displayed in the alignment data and no position information
is recorded. The alignment score is always zero in these files.
For a description of the multiple alignment format (MAF),
see http://genome.ucsc.edu/goldenPath/help/maf.html.
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If you plan to download a large file or multiple files from this
directory, we recommend 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/hg17/multiz8way/. To download multiple
files, use the "mget" command:
mget <filename1> <filename2> ...
- or -
mget -a (to download all the files in the directory)
All the files in this directory are freely available for public use.
For data restrictions regarding the chimp, dog, chicken, fugu, and
zebrafish genomes, see http://genome.ucsc.edu/goldenPath/credits.html.
Name Last modified Size Description
Parent Directory -
chr6_hla_hap1.maf.gz 2004-07-20 15:01 183
chr18_random.maf.gz 2004-07-20 14:55 188
multiz8way.sql 2006-04-25 10:46 631
md5sum.txt 2006-04-21 15:40 2.2K
chrM.maf.gz 2004-07-20 15:03 46K
chr16_random.maf.gz 2004-07-20 14:55 75K
chr10_random.maf.gz 2004-07-20 14:51 98K
chr5_random.maf.gz 2004-07-20 15:00 104K
chr6_hla_hap2.maf.gz 2004-07-20 15:01 116K
chr19_random.maf.gz 2004-07-20 14:56 168K
chr13_random.maf.gz 2004-07-20 14:53 221K
chr22_random.maf.gz 2004-07-20 14:57 243K
chr2_random.maf.gz 2004-07-20 14:57 266K
chr8_random.maf.gz 2004-07-20 15:02 397K
chr12_random.maf.gz 2004-07-20 14:53 402K
chr7_random.maf.gz 2004-07-20 15:02 517K
chr9_random.maf.gz 2004-07-20 15:03 540K
chr4_random.maf.gz 2004-07-20 14:59 699K
chr15_random.maf.gz 2004-07-20 14:54 756K
chr3_random.maf.gz 2004-07-20 14:58 889K
chrX_random.maf.gz 2004-07-20 15:03 946K
chr17_random.maf.gz 2004-07-20 14:55 1.7M
chr6_random.maf.gz 2004-07-20 15:01 1.7M
chr1_random.maf.gz 2004-07-20 14:56 3.1M
chrY.maf.gz 2004-07-20 15:04 15M
chr21.maf.gz 2004-07-20 14:57 33M
chr22.maf.gz 2004-07-20 14:57 36M
chr19.maf.gz 2004-07-20 14:56 52M
chr20.maf.gz 2004-07-20 14:57 63M
chr18.maf.gz 2004-07-20 14:55 76M
chr16.maf.gz 2004-07-20 14:55 84M
chr17.maf.gz 2004-07-20 14:55 86M
chr15.maf.gz 2004-07-20 14:54 88M
chr14.maf.gz 2004-07-20 14:54 92M
chr13.maf.gz 2004-07-20 14:53 95M
chr9.maf.gz 2004-07-20 15:03 121M
chrX.maf.gz 2004-07-20 15:03 121M
chr12.maf.gz 2004-07-20 14:53 133M
chr11.maf.gz 2004-07-20 14:52 137M
chr10.maf.gz 2004-07-20 14:51 138M
chr8.maf.gz 2004-07-20 15:02 144M
chr7.maf.gz 2004-07-20 15:02 156M
chr6.maf.gz 2004-07-20 15:01 172M
multiz8way.txt.gz 2006-04-25 10:51 175M
chr5.maf.gz 2004-07-20 15:00 182M
chr4.maf.gz 2004-07-20 14:59 186M
chr3.maf.gz 2004-07-20 14:58 203M
chr1.maf.gz 2004-07-20 14:51 233M
chr2.maf.gz 2004-07-20 14:57 246M