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 -
chr1.maf.gz 2004-07-20 14:51 233M
chr1_random.maf.gz 2004-07-20 14:56 3.1M
chr2.maf.gz 2004-07-20 14:57 246M
chr2_random.maf.gz 2004-07-20 14:57 266K
chr3.maf.gz 2004-07-20 14:58 203M
chr3_random.maf.gz 2004-07-20 14:58 889K
chr4.maf.gz 2004-07-20 14:59 186M
chr4_random.maf.gz 2004-07-20 14:59 699K
chr5.maf.gz 2004-07-20 15:00 182M
chr5_random.maf.gz 2004-07-20 15:00 104K
chr6.maf.gz 2004-07-20 15:01 172M
chr6_hla_hap1.maf.gz 2004-07-20 15:01 183
chr6_hla_hap2.maf.gz 2004-07-20 15:01 116K
chr6_random.maf.gz 2004-07-20 15:01 1.7M
chr7.maf.gz 2004-07-20 15:02 156M
chr7_random.maf.gz 2004-07-20 15:02 517K
chr8.maf.gz 2004-07-20 15:02 144M
chr8_random.maf.gz 2004-07-20 15:02 397K
chr9.maf.gz 2004-07-20 15:03 121M
chr9_random.maf.gz 2004-07-20 15:03 540K
chr10.maf.gz 2004-07-20 14:51 138M
chr10_random.maf.gz 2004-07-20 14:51 98K
chr11.maf.gz 2004-07-20 14:52 137M
chr12.maf.gz 2004-07-20 14:53 133M
chr12_random.maf.gz 2004-07-20 14:53 402K
chr13.maf.gz 2004-07-20 14:53 95M
chr13_random.maf.gz 2004-07-20 14:53 221K
chr14.maf.gz 2004-07-20 14:54 92M
chr15.maf.gz 2004-07-20 14:54 88M
chr15_random.maf.gz 2004-07-20 14:54 756K
chr16.maf.gz 2004-07-20 14:55 84M
chr16_random.maf.gz 2004-07-20 14:55 75K
chr17.maf.gz 2004-07-20 14:55 86M
chr17_random.maf.gz 2004-07-20 14:55 1.7M
chr18.maf.gz 2004-07-20 14:55 76M
chr18_random.maf.gz 2004-07-20 14:55 188
chr19.maf.gz 2004-07-20 14:56 52M
chr19_random.maf.gz 2004-07-20 14:56 168K
chr20.maf.gz 2004-07-20 14:57 63M
chr21.maf.gz 2004-07-20 14:57 33M
chr22.maf.gz 2004-07-20 14:57 36M
chr22_random.maf.gz 2004-07-20 14:57 243K
chrM.maf.gz 2004-07-20 15:03 46K
chrX.maf.gz 2004-07-20 15:03 121M
chrX_random.maf.gz 2004-07-20 15:03 946K
chrY.maf.gz 2004-07-20 15:04 15M
md5sum.txt 2006-04-21 15:40 2.2K
multiz8way.sql 2006-04-25 10:46 631
multiz8way.txt.gz 2006-04-25 10:51 175M