This directory contains the Feb. 2003 freeze of the mouse
genome from the Mouse Genome Sequencing Consortium. This
assembly was produced at NCBI.
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/mmFeb2003/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 assembly sequence in one file per chromosome.
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.
chromFaMasked.zip - The assembly sequence in one file per
chromosome. Repeats are masked by capital Ns; non-repeating
sequence is shown in upper case.
chromOut.zip - RepeatMasker .out file for chromosomes. These were
created by RepeatMasker at the -s sensitive setting.
chromTrf.zip - Tandem Repeats Finder locations, filtered to keep
repeats with period of less than or equal to 12, and translated
into one .bed file per chromosome.
contigAgp.zip - Description of how the assembly was generated from
fragments at a contig layout level.
contigFa.zip - The assembly sequence contig, in one file per contig.
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.
contigFaMasked.zip - The assembly sequence contigs, in one file
per contig. Repeats are masked by capital Ns; non-repeating sequence
is shown in upper case.
contigOut.zip - RepeatMasker .out file for contigs. These were
created by RepeatMasker at the -s sensitive setting.
contigTrf.zip - Tandem Repeats Finder locations, filtered to keep repeats
with period less than or equal to 12, and translated into one .bed
file per contig.
liftAll.zip - A file that contains the offsets of contigs within
chromosomes.
mrna.zip - Mouse mRNA from GenBank.
refMrna.zip - RefSeq mRNA from the same species as the genome.
upstream1000.zip - Sequences 1000 bases upstream of annotated
transcription start of RefSeq genes. This includes only the
cases where the transcription start is annotated separately
from the coding region start. Note that upstream files are
generated only when an assembly is released. Therefore, the
data may be slightly out of synch with the RefSeq data in
assemblies that are incrementally updated nightly.
upstream2000.zip - Same as upstream1000, but 2000 bases.
upstream5000.zip - Same as upstream1000, but 5000 bases.
xenoMrna.zip - All GenBank mRNA from species other than that of the genome.
Name Last modified Size Description
Parent Directory -
chromAgp.zip 2003-03-05 12:12 4.3M
chromFa.zip 2003-03-05 13:06 789M
chromFaMasked.zip 2003-03-05 13:37 471M
chromOut.zip 2003-03-05 12:16 143M
chromTrf.zip 2003-03-05 15:03 16M
contigAgp.zip 2003-03-05 13:38 4.4M
contigFa.zip 2003-03-05 14:31 789M
contigFaMasked.zip 2003-03-05 15:02 471M
contigOut.zip 2003-03-05 13:42 142M
contigTrf.zip 2003-03-05 15:03 16M
est.fa.gz 2004-07-24 23:11 626M
liftAll.zip 2003-12-16 09:41 7.2K
mrna.zip 2004-07-24 23:11 66M
refMrna.zip 2004-07-24 23:11 12M
upstream1000.zip 2003-04-25 14:12 3.3M
upstream2000.zip 2003-04-25 14:12 6.4M
upstream5000.zip 2003-04-25 14:13 15M
xenoMrna.zip 2004-07-24 23:12 231M