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/ 2021-08-03 18:55 - chr32.maf.gz 2006-07-28 11:33 64 chr12_random.maf.gz 2006-07-28 11:30 71 chr17_random.maf.gz 2006-07-28 11:30 71 chr10_random.maf.gz 2006-07-28 11:30 2.5K chr6_random.maf.gz 2006-07-28 11:34 2.8K md5sum.txt 2008-10-16 12:21 2.8K chr11_random.maf.gz 2006-07-28 11:30 7.7K chr25_random.maf.gz 2006-07-28 11:32 11K chr13_random.maf.gz 2006-07-28 11:30 14K chr5_random.maf.gz 2006-07-28 11:34 19K chr18_random.maf.gz 2006-07-28 11:30 22K chr2_random.maf.gz 2006-07-28 11:32 31K chr20_random.maf.gz 2006-07-28 11:31 34K chrM.maf.gz 2006-07-28 11:34 36K chrE64.maf.gz 2006-07-28 11:34 49K chr7_random.maf.gz 2006-07-28 11:34 53K chr22_random.maf.gz 2006-07-28 11:32 78K chr4_random.maf.gz 2006-07-28 11:33 83K chrW.maf.gz 2006-07-28 11:35 88K chr28_random.maf.gz 2006-07-28 11:32 91K chr1_random.maf.gz 2006-07-28 11:30 98K chrZ_random.maf.gz 2006-07-28 11:35 118K chr16_random.maf.gz 2006-07-28 11:30 129K chrE22C19W28_E50C23_random.maf.gz 2006-07-28 11:34 139K chrE64_random.maf.gz 2006-07-28 11:34 193K chrW_random.maf.gz 2006-07-28 11:35 247K chr8_random.maf.gz 2006-07-28 11:34 289K chr16.maf.gz 2006-07-28 11:30 334K chrE22C19W28_E50C23.maf.gz 2006-07-28 11:34 771K chr25.maf.gz 2006-07-28 11:32 1.0M chr22.maf.gz 2006-07-28 11:32 2.2M chr27.maf.gz 2006-07-28 11:32 2.5M chr28.maf.gz 2006-07-28 11:32 2.7M chr23.maf.gz 2006-07-28 11:32 3.1M chr26.maf.gz 2006-07-28 11:32 3.4M chr24.maf.gz 2006-07-28 11:32 3.9M chr21.maf.gz 2006-07-28 11:32 4.5M chr19.maf.gz 2006-07-28 11:30 6.2M chr18.maf.gz 2006-07-28 11:30 6.3M chr17.maf.gz 2006-07-28 11:30 6.3M chr15.maf.gz 2006-07-28 11:30 7.3M chr20.maf.gz 2006-07-28 11:31 7.3M chr14.maf.gz 2006-07-28 11:30 8.3M chr13.maf.gz 2006-07-28 11:30 8.6M chr12.maf.gz 2006-07-28 11:30 9.8M chr11.maf.gz 2006-07-28 11:30 11M chr9.maf.gz 2006-07-28 11:34 12M chr10.maf.gz 2006-07-28 11:30 12M chr8.maf.gz 2006-07-28 11:34 16M chr6.maf.gz 2006-07-28 11:34 16M chr7.maf.gz 2006-07-28 11:34 19M chrUn_random.maf.gz 2006-07-28 11:35 19M chr5.maf.gz 2006-07-28 11:34 28M chrZ.maf.gz 2006-07-28 11:35 29M chr4.maf.gz 2006-07-28 11:33 39M chr3.maf.gz 2006-07-28 11:33 47M chr2.maf.gz 2006-07-28 11:31 59M chr1.maf.gz 2006-07-28 11:29 76M