This directory contains the June 28, 2002 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
hgarchive.cse.ucsc.edu, then go to the directory
goldenPath/28jun2002/bigZips. To download multiple files, use
the "mget" command:
mget <filename1> <filename2> ...
- or -
mget -a (to download all the files in the directory)
------------------------------------------------------------
chromAgp.zip - Description of how the assembly was generated from
fragments, unpacking to one file per chromosome.
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;
non-repeating sequence is in upper case.
chromMm2AxtBest.zip - AXT alignments of Feb. 2002 release Mouse (mm2)
against human, generated by Scott Schwartz and filtered by
Jim Kent's axtBest program. Unpacks to one file per chromosome.
chromOut.zip - RepeatMasker .out file for chromosomes. These were
created with RepeatMasker at the -s sensitive setting.
contigAgp.zip - Description of how the working draft was generated
from fragments at a contig layout level.
contigFa.zip - The working draft sequence, in 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
from RepeatMasker and Tandem Repeats Finder (with period of
12 or less) are in lower case; non-repeating sequence
is in upper case.
contigOut.zip - RepeatMasker .out file for contigs. These were
created with RepeatMasker at the -s sensitive setting.
database.zip - The Genome Browser database as tab-delimited files
and associated MySQL table creation files.
liftAll.zip - A file that contains the offsets of contigs within
chromosomes.
mrna.zip - A zipped-up file of human mRNA from GenBank.
Name Last modified Size Description
Parent Directory -
liftAll.zip 2002-08-14 11:16 19K
chromAgp.zip 2002-08-06 09:41 1.0M
contigAgp.zip 2002-08-06 09:41 1.2M
mrna.zip 2002-08-01 13:32 39M
contigOut.zip 2002-08-01 13:43 147M
chromOut.zip 2002-08-01 12:31 148M
chromMm2AxtBest.zip 2002-08-08 15:35 577M
contigFa.zip 2002-08-01 13:28 882M
chromFa.zip 2003-01-02 09:59 883M