This directory contains the Sept. 2005 assembly of the T. castaneum genome
(triCas2, Baylor), as well as repeat annotations and GenBank sequences.

This assembly was produced by the Baylor College of Medicine Human Genome Sequencing Center.
For more information on the T. castaneum genome, see the project website:
  http://www.hgsc.bcm.tmc.edu/projects/tribolium/

Files included in this directory:

triCas2.agp.gz - Description of how the assembly was generated from
    fragments.

triCas2.fa.gz - "Soft-masked" assembly sequence in one file.
    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.

triCas2.ga.masked.gz - "Hard-masked" assembly sequence in one file.
    Repeats are masked by capital Ns; non-repeating sequence is shown in
    upper case.

triCas2.fa.out.gz - RepeatMasker .out file.  The May 3 2005 (open-3-1-0) 
    version of RepeatMasker was used with the RepBase Update 9.11 library, 
    RM database version 20050112.

triCas2.trf.bed.gz - Tandem Repeats Finder locations, filtered to keep repeats
    with period less than or equal to 12, and translated into UCSC's BED
    format.

md5sum.txt - checksums of files in this directory


triCas2.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 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/triCas2/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 the T. castaneum genome sequence data, see
http://www.hgsc.bcm.tmc.edu/projects/conditions_for_use.html .

      Name                    Last modified      Size  Description
      Parent Directory                             -   
      md5sum.txt              2006-10-26 16:01  257   
      triCas2.agp.gz          2006-10-26 15:59  218K  
      triCas2.chrom.sizes     2005-10-22 21:58   97K  
      triCas2.fa.gz           2006-10-26 16:00   45M  
      triCas2.fa.masked.gz    2006-10-26 16:01   44M  
      triCas2.fa.out.gz       2006-10-26 15:59  2.2M  
      triCas2.trf.bed.gz      2006-10-26 15:59  136K