This directory contains zipped multiple alignments of the zebrafish genome
(danRer4, Mar. 2006) to the following assemblies:
- Fugu (fr1, Aug. 2002)
- Tetraodon (tetNig1, Feb. 2004)
- X. tropicalis (xenTro2, Aug. 2005)
- Opossum (monDom4, Jan. 2006)
- Mouse (mm8, Feb. 2006)
- Human (hg18, Mar. 2006)
The chr*.maf.gz files each contain all the alignments to that
particular zebrafish chromosome.
The maf/upstream*.maf.gz files contain alignments in regions upstream of
annotated transcription starts 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
zebrafish, 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 zebrafish; 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. These files
are updated weekly.
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/danRer4/multiz7way/. 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 aligned genomes, see
http://genome.ucsc.edu/goldenPath/credits.html.
Name Last modified Size Description
Parent Directory -
chr1.maf.gz 29-May-2006 12:55 27M
chr10.maf.gz 29-May-2006 12:56 22M
chr11.maf.gz 29-May-2006 12:56 20M
chr12.maf.gz 29-May-2006 12:56 23M
chr13.maf.gz 29-May-2006 12:56 26M
chr14.maf.gz 29-May-2006 12:57 32M
chr15.maf.gz 29-May-2006 12:57 22M
chr16.maf.gz 29-May-2006 12:57 25M
chr17.maf.gz 29-May-2006 12:58 27M
chr18.maf.gz 29-May-2006 12:58 22M
chr19.maf.gz 29-May-2006 12:58 20M
chr2.maf.gz 29-May-2006 12:58 25M
chr20.maf.gz 29-May-2006 12:59 24M
chr21.maf.gz 29-May-2006 12:59 22M
chr22.maf.gz 29-May-2006 12:59 17M
chr23.maf.gz 29-May-2006 12:59 21M
chr24.maf.gz 29-May-2006 13:00 18M
chr25.maf.gz 29-May-2006 13:00 16M
chr3.maf.gz 29-May-2006 13:00 29M
chr4.maf.gz 29-May-2006 13:00 17M
chr5.maf.gz 29-May-2006 13:01 33M
chr6.maf.gz 29-May-2006 13:01 28M
chr7.maf.gz 29-May-2006 13:01 34M
chr8.maf.gz 29-May-2006 13:02 26M
chr9.maf.gz 29-May-2006 13:02 23M
chrM.maf.gz 29-May-2006 13:02 32K
chrNA_random.maf.gz 29-May-2006 13:02 39M
chrUn_random.maf.gz 29-May-2006 13:03 10M
md5sum.txt 16-Oct-2008 12:18 1.3K
maf/ 21-Jul-2017 00:31 -