This directory contains the Nov. 2002 human genome freeze
assembled by NCBI. The annotations are generated by UCSC and
collaborators worldwide.
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/14nov2002/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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chromAgp.zip - Similar to contigAGP.zip, but it unpacks 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 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.
chromOut.zip - RepeatMasker .out file for chromosomes. 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.
contigAgp.zip - Description of how the working draft was generated
from fragments at a contig layout level.
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 from RepeatMasker and
Tandem Repeats Finder (with period of 12 or less) are in lower case
while non-repeating sequence is 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.
contigOut.zip - RepeatMasker .out file for contigs. These were
created with RepeatMasker at the -s sensitive setting.
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.
Name Last modified Size Description
Parent Directory -
chromAgp.zip 2002-12-04 14:32 723K
chromFa.zip 2003-02-03 17:33 893M
chromFaMasked.zip 2003-02-03 17:38 489M
chromOut.zip 2002-12-04 14:35 150M
chromTrf.zip 2002-12-04 16:57 6.7M
contigAgp.zip 2002-12-04 15:43 880K
contigFa.zip 2002-12-04 16:31 893M
contigFaMasked.zip 2002-12-04 16:57 488M
contigOut.zip 2002-12-04 15:47 149M
contigTrf.zip 2002-12-04 17:00 7.2M
liftAll.zip 2003-01-07 13:12 13K
mrna.zip 2003-01-14 09:38 55M
upstream1000.zip 2003-01-24 08:55 4.8M
upstream2000.zip 2003-01-24 08:57 9.1M
upstream5000.zip 2003-01-24 08:59 22M