This directory contains compressed multiple alignments of the
following assemblies to the D. melanogaster genome
(dm2, Apr. 2004, BDGP Release 4 + DHGP Release 3.2).
- D. simulans (droSim1, Apr. 2005)
- D. sechellia (droSec1, Oct. 2005)
- D. yakuba (droYak2, Nov. 2005)
- D. erecta (droEre2, Feb. 2006)
- D. ananassae (droAna3, Feb. 2006)
- D. pseudoobscura (dp4, Feb. 2006)
- D. persimilis (droPer1, Oct. 2005)
- D. willistoni (droWil1, Feb. 2006)
- D. virilis (droVir3, Feb. 2006)
- D. mojavensis (droMoj3, Feb. 2006)
- D. grimshawi (droGri2, Feb. 2006)
- A. gambiae (anoGam1, Feb. 2003)
- A. mellifera (apiMel2, Jan. 2005)
- T. castaneum (triCas2, Sep. 2005)
Files included in this directory:
- chr*.maf.gz files: each contain all the alignments to that
particular D. melanogaster 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
D. melanogaster, 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 D. melanogaster;
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 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 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/dm2/multiz15way. 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 usable for any
purpose. For data use restrictions regarding the individual
genome assemblies, see http://genome.ucsc.edu/goldenPath/credits.html.
Name Last modified Size Description
Parent Directory -
chr2L.maf.gz 2006-09-28 21:26 98M
chr2R.maf.gz 2006-09-28 21:27 86M
chr2h.maf.gz 2006-09-28 21:27 3.8M
chr3L.maf.gz 2006-09-28 21:28 102M
chr3R.maf.gz 2006-09-28 21:29 120M
chr3h.maf.gz 2006-09-28 21:29 6.0M
chr4.maf.gz 2006-09-28 21:29 5.6M
chr4h.maf.gz 2006-09-28 21:29 220K
chrM.maf.gz 2006-09-28 21:29 85K
chrU.maf.gz 2006-09-28 21:29 11M
chrX.maf.gz 2006-09-28 21:30 92M
chrXh.maf.gz 2006-09-28 21:30 1.3M
chrYh.maf.gz 2006-09-28 21:30 796K
maf/ 2019-11-06 10:49 -
md5sum.txt 2006-09-28 21:46 769