This directory contains compressed multiple alignments of the 
following assemblies to the chicken genome (galGal3, May 2006):

  - human (Mar 2006, hg18) 
  - mouse (Feb 2006, mm8)
  - rat (Nov. 2004, rn4) 
  - opossum (Jan 2006, monDom4) 
  - frog (Aug 2005, xenTro2) 
  - zebrafish (Mar 2006, danRer4) 

Files included in this directory:
  - chr*.maf.gz files: each contain all the alignments to that 
    particular chicken 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 
    chicken, 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 chicken; 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.

---------------------------------------------------------------
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/galGal3/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 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 - maf/ 2019-11-06 10:55 - md5sum.txt 2008-10-16 12:21 2.8K chrZ_random.maf.gz 2006-07-28 11:35 118K chrZ.maf.gz 2006-07-28 11:35 29M chrW_random.maf.gz 2006-07-28 11:35 247K chrW.maf.gz 2006-07-28 11:35 88K chrUn_random.maf.gz 2006-07-28 11:35 19M chrM.maf.gz 2006-07-28 11:34 36K chrE64_random.maf.gz 2006-07-28 11:34 193K chrE64.maf.gz 2006-07-28 11:34 49K chrE22C19W28_E50C23_random.maf.gz 2006-07-28 11:34 139K chrE22C19W28_E50C23.maf.gz 2006-07-28 11:34 771K chr9.maf.gz 2006-07-28 11:34 12M chr8_random.maf.gz 2006-07-28 11:34 289K chr8.maf.gz 2006-07-28 11:34 16M chr7_random.maf.gz 2006-07-28 11:34 53K chr7.maf.gz 2006-07-28 11:34 19M chr6_random.maf.gz 2006-07-28 11:34 2.8K chr6.maf.gz 2006-07-28 11:34 16M chr5_random.maf.gz 2006-07-28 11:34 19K chr5.maf.gz 2006-07-28 11:34 28M chr4_random.maf.gz 2006-07-28 11:33 83K chr4.maf.gz 2006-07-28 11:33 39M chr32.maf.gz 2006-07-28 11:33 64 chr3.maf.gz 2006-07-28 11:33 47M chr28_random.maf.gz 2006-07-28 11:32 91K chr28.maf.gz 2006-07-28 11:32 2.7M chr2_random.maf.gz 2006-07-28 11:32 31K chr27.maf.gz 2006-07-28 11:32 2.5M chr26.maf.gz 2006-07-28 11:32 3.4M chr25_random.maf.gz 2006-07-28 11:32 11K chr25.maf.gz 2006-07-28 11:32 1.0M chr24.maf.gz 2006-07-28 11:32 3.9M chr23.maf.gz 2006-07-28 11:32 3.1M chr22_random.maf.gz 2006-07-28 11:32 78K chr22.maf.gz 2006-07-28 11:32 2.2M chr21.maf.gz 2006-07-28 11:32 4.5M chr20_random.maf.gz 2006-07-28 11:31 34K chr20.maf.gz 2006-07-28 11:31 7.3M chr2.maf.gz 2006-07-28 11:31 59M chr19.maf.gz 2006-07-28 11:30 6.2M chr1_random.maf.gz 2006-07-28 11:30 98K chr18_random.maf.gz 2006-07-28 11:30 22K chr18.maf.gz 2006-07-28 11:30 6.3M chr17_random.maf.gz 2006-07-28 11:30 71 chr17.maf.gz 2006-07-28 11:30 6.3M chr16_random.maf.gz 2006-07-28 11:30 129K chr16.maf.gz 2006-07-28 11:30 334K chr15.maf.gz 2006-07-28 11:30 7.3M chr14.maf.gz 2006-07-28 11:30 8.3M chr13_random.maf.gz 2006-07-28 11:30 14K chr13.maf.gz 2006-07-28 11:30 8.6M chr12_random.maf.gz 2006-07-28 11:30 71 chr12.maf.gz 2006-07-28 11:30 9.8M chr11_random.maf.gz 2006-07-28 11:30 7.7K chr11.maf.gz 2006-07-28 11:30 11M chr10_random.maf.gz 2006-07-28 11:30 2.5K chr10.maf.gz 2006-07-28 11:30 12M chr1.maf.gz 2006-07-28 11:29 76M