This directory contains the Build 36 "essentially finished" mouse genome 
(UCSC mm8, February 2006) from the Mouse Genome Sequencing Consortium. This 
assembly was produced at NCBI.  

Files included in this directory:

  - chr*.fa.gz: compressed FASTA sequence of each chromosome.
    Each chromosome is in a separate file in a gzip Fasta format. 
    Repeats -- which are shown in lower case -- are annotated by 
    RepeatMasker run at the sensitive setting and Tandem Repeats Finder
    (repeats of period 12 or less).

md5sum.txt - MD5 checksum of these files to verify correct transmission

The main assembly is contained in the chrN.fa.gz files, where N is the name 
of the chromosome.  The chrN_random.fa.gz files contain clones that are not 
yet finished or cannot be placed with certainty at a specific place on 
the chromosome.

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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/mm8/chromosomes. To download multiple 
files, use the "mget" command:

    mget <filename1> <filename2> ...
    - or -
    mget -a (to download all the files in the directory) 

The rsync command to download the entire directory:
    rsync -avzP rsync://hgdownload.cse.ucsc.edu/goldenPath/mm8/chromosomes/ .
For a single file, e.g. chrM.fa.gz
    rsync -avzP \
	rsync://hgdownload.cse.ucsc.edu/goldenPath/mm8/chromosomes/chrM.fa.gz .

Or with wget, all files:
    wget --timestamping \
	'ftp://hgdownload.cse.ucsc.edu/goldenPath/mm8/chromosomes/*'
With wget, a single file:
    wget --timestamping \
	'ftp://hgdownload.cse.ucsc.edu/goldenPath/mm8/chromosomes/chrM.fa.gz' \
	-O chrM.fa.gz

To unpack the fa.gz files:
    gunzip <file>.fa.gz

All the files in this directory are freely available for public use.

This file last updated: 2006-02-16 - 16 February 2006
      Name                    Last modified      Size  Description
Parent Directory - md5sum.txt 2006-02-16 12:36 1.6K chrUn_random.fa.gz 2006-02-16 10:20 217K chr17_random.fa.gz 2006-02-16 10:20 14K chr15_random.fa.gz 2006-02-16 10:20 19K chr13_random.fa.gz 2006-02-16 10:20 125K chrY_random.fa.gz 2006-02-16 10:20 4.1M chr10_random.fa.gz 2006-02-16 10:20 3.7K chrX_random.fa.gz 2006-02-16 10:20 13K chr19.fa.gz 2006-02-16 10:20 18M chr9_random.fa.gz 2006-02-16 10:20 5.9K chr8_random.fa.gz 2006-02-16 10:20 67K chr7_random.fa.gz 2006-02-16 10:20 33K chr5_random.fa.gz 2006-02-16 10:20 824K chr1_random.fa.gz 2006-02-16 10:20 25K chr18.fa.gz 2006-02-16 10:20 27M chr17.fa.gz 2006-02-16 10:20 29M chr16.fa.gz 2006-02-16 10:20 30M chr15.fa.gz 2006-02-16 10:20 31M chr14.fa.gz 2006-02-16 10:19 38M chr13.fa.gz 2006-02-16 10:19 36M chr12.fa.gz 2006-02-16 10:19 36M chr11.fa.gz 2006-02-16 10:19 37M chr10.fa.gz 2006-02-16 10:19 40M chrY.fa.gz 2006-02-16 10:19 824K chrX.fa.gz 2006-02-16 10:19 50M chrM.fa.gz 2006-02-16 10:18 5.3K chr9.fa.gz 2006-02-16 10:18 38M chr8.fa.gz 2006-02-16 10:18 39M chr7.fa.gz 2006-02-16 10:18 44M chr6.fa.gz 2006-02-16 10:18 46M chr5.fa.gz 2006-02-16 10:18 46M chr4.fa.gz 2006-02-16 10:17 47M chr3.fa.gz 2006-02-16 10:17 49M chr2.fa.gz 2006-02-16 10:17 56M chr1.fa.gz 2006-02-16 10:17 60M