This directory contains the Apis mellifera Amel_2.0 assembly 
(apiMel2, Jan. 2005) from the Baylor College of Medicine HGSC Honey 
Bee Genome Project. For more information, see the Baylor website: 
http://www.hgsc.bcm.tmc.edu/projects/honeybee/.

Files included in this directory:

md5sum.txt - Checksums of the files in this directory.

apiMel2.2bit - contains the complete A. mellifera/apiMel2 genome sequence
    in the 2bit file format.  Repeats from RepeatMasker and Tandem Repeats
    Finder (with period of 12 or less) are shown in lower case; non-repeating
    sequence is shown in upper case.  The utility program, twoBitToFa (available
    from the kent src tree), can be used to extract .fa file(s) from
    this file.  A pre-compiled version of the command line tool can be
    found at:
        http://hgdownload.cse.ucsc.edu/admin/exe/linux.x86_64/
    See also:
        http://genome.ucsc.edu/admin/git.html
        http://genome.ucsc.edu/admin/jk-install.html

GroupAgp.zip - Description of how the working draft was generated from
    fragments at a linkage group layout level.

GroupFa.zip - The working draft sequence in one file per linkage group.
    Repeats from RepeatMasker and Tandem Repeats Finder (with period
    of 12 or less) are in lower case while non-repeating sequence is
    in upper case.

GroupFaMasked.zip - The working draft sequence in one file per
    linkage group. Repeats are masked by capital Ns and non-repeating
    sequence is shown in upper case.

GroupOut.zip - RepeatMasker .out file for linkage groups.  These were 
    created with RepeatMasker at the -s sensitive setting.

GroupTrf.zip - Tandem Repeats Finder locations, filtered to keep repeats
    with period less than or equal to 12, translated into one .bed file.


apiMel2.chrom.sizes - Two-column tab-separated text file containing assembly
    sequence names and sizes.

-----------------------------------------------------------
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/apiMel2/bigZips. To download multiple files, use 
the "mget" command:

    mget <filename1> <filename2> ...
    - or -
    mget -a (to download all the files in the directory) 

For conditions of use regarding these data, see
http://www.hgsc.bcm.tmc.edu/projects/conditions_for_use.html.

      Name                    Last modified      Size  Description
      Parent Directory                             -   
      apiMel2.chrom.sizes     2005-02-05 03:35  273   
      apiMel2.2bit            2005-02-08 02:25  123M  
      GroupFa.zip             2005-02-28 15:43   69M  
      GroupFaMasked.zip       2005-02-28 15:43   62M  
      GroupOut.zip            2005-02-28 15:43   10M  
      GroupTrf.zip            2005-02-28 16:04  1.1M  
      GroupAgp.zip            2005-02-28 16:31  399K  
      md5sum.txt              2014-02-03 11:05  239   
      mrna.fa.gz              2019-10-14 20:33   51M  
      mrna.fa.gz.md5          2019-10-14 20:33   45   
      xenoMrna.fa.gz          2019-10-14 20:43  6.7G  
      xenoMrna.fa.gz.md5      2019-10-14 20:43   49   
      est.fa.gz               2019-10-14 20:48   13M  
      est.fa.gz.md5           2019-10-14 20:48   44   
      xenoRefMrna.fa.gz       2019-10-14 20:48  330M  
      xenoRefMrna.fa.gz.md5   2019-10-14 20:48   52   
      apiMel2.fa.gz           2020-01-23 02:17   69M