This directory contains the March 10, 2003 Genbank 
freeze assembled by NCBI. The annotations are from UCSC 
and collaborators worldwide.

Due to its large size, we are no longer providing the 
database.zip file for this assembly (Genome Browser database
as tab-delimited files and associated MySQL table creation 
files). The files formerly contained in database.zip may still 
be downloaded individually from this assembly's database 
directory. 

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/10mar2003/bigZips. To download multiple files, use 
the "mget" command:

    mget <filename1> <filename2> ...
    - or -
    mget -a (to download all the files in the directory) 
 
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chromFa.zip - The working draft sequence chromosome in one file per
    chromosome.  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.

contigFa.zip - The working draft sequence one file per NCBI contig.
    All contigs are in forward orientation relative to the chromosome,
    which means that some will be reversed relative to their
    orientation in the NCBI assembly. Repeats are in lower case while
    non-repeating sequence is in upper case.

chromFaMasked.zip - the working draft sequence chromosomes,
    in one file per chromosome. Repeats are masked by capital N's and
    non-repeating sequence is shown in upper case.  

contigFaMasked.zip - the working draft sequence contigs,
    in one file per contig. Repeats are masked by capital N's and
    non-repeating sequence is shown in upper case.  

chromAgp.zip - Similar to contigAGP.zip, but it unpacks to one 
    file per chromosome.  

contigAgp.zip - Description of how the working draft was generated 
    from fragments at a contig layout level. 

chromOut.zip - RepeatMasker .out file for chromosomes.  These were 
    created with RepeatMasker at the -s sensitive setting.

contigOut.zip - RepeatMasker .out file for contigs.  These were 
    created with RepeatMasker at the -s sensitive setting.

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

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

liftAll.zip - A file that contains the offsets of contigs within
    chromosomes.

mrna.zip - A zipped-up file of human mRNA from GenBank.    

upstream1000.zip - Sequences 1000 bases upstream of annotated
    transcription start of RefSeq genes.  This only includes
    cases where the transcription start is annotated separately
    from the coding region start.
upstream2000.zip - As above but 2000 bases.
upstream5000.zip - As above but 5000 bases.