This directory contains a dump of the UCSC genome annotation 
database for the Oct. 2004 assembly of the opossum genome (UCSC
version monDom1) from the Broad Institute at MIT and Harvard.

The directory is updated nightly. The .txt.gz files contain the 
database tables in a tab-delimited format compressed with gzip.  
The .sql files contain the MySQL commands used to create the tables.  
To see descriptions of the tables underlying Genome Browser annotation
tracks, select the table in the Table Browser:
  http://genome.ucsc.edu/cgi-bin/hgTables?db=monDom1
and click the "describe table schema" button.  There is also a "view
table schema" link on the configuration page for each track.

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/monDom1/database. To download multiple files, 
use the "mget" command:

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

All the tables in this directory are freely usable for any 
purpose. The opossum sequence is made freely available before scientific 
publication with the following understanding: 

1. The data may be freely downloaded, used in analyses, and repackaged 
   in databases. 
2. Users are free to use the data in scientific papers analyzing 
   particular genes and regions if the providers of these data (The
   Broad Institute) are properly acknowledged. 
3. The centers producing the data reserve the right to publish the 
   initial large-scale analyses of the data set, including large-scale 
   identification of regions of evolutionary conservation and large-scale 
   genomic assembly.  Large-scale refers to regions with size on the order 
   of a chromosome (that is, 30 Mb or more). 
4. Any redistribution of the data should carry this notice. 

      Name                        Last modified      Size  Description
Parent Directory - blastHg17KG.txt.gz 2005-01-15 05:36 4.3M chainDanRer2.txt.gz 2005-01-15 05:36 4.7M chainDanRer2Link.txt.gz 2005-01-15 05:37 46M chainGalGal2.txt.gz 2005-01-15 05:37 8.7M chainGalGal2Link.txt.gz 2005-01-15 05:38 67M chainHg17.txt.gz 2005-01-15 05:39 40M chainHg17Link.txt.gz 2005-01-15 05:44 476M chromInfo.txt.gz 2005-01-15 05:57 105K cpgIslandExt.txt.gz 2005-01-15 05:57 545K extFile.txt.gz 2005-01-15 05:57 182 gap.txt.gz 2005-01-15 05:57 1.1M gc5Base.txt.gz 2005-01-15 05:58 14M genscan.txt.gz 2005-01-15 05:58 2.4M genscanPep.txt.gz 2005-01-15 05:58 8.8M gold.txt.gz 2005-01-15 05:59 1.8M history.txt.gz 2005-01-15 05:59 508 mostConserved.txt.gz 2005-01-15 05:59 19M multiz5way.txt.gz 2005-01-15 05:59 15M netDanRer2.txt.gz 2005-01-15 06:00 6.0M netGalGal2.txt.gz 2005-01-15 06:00 9.4M netHg17.txt.gz 2005-01-15 06:01 35M quality.txt.gz 2005-01-15 06:04 67M rmsk.txt.gz 2005-01-15 06:10 446M simpleRepeat.txt.gz 2005-01-15 06:14 16M phastCons5.txt.gz 2005-01-20 04:50 30M danRer2_netBlastz.txt.gz 2005-01-20 04:51 2.2M galGal2_netBlastz.txt.gz 2005-01-20 04:51 4.2M hg17_netBlastz.txt.gz 2005-01-20 04:52 11M mm5_netBlastz.txt.gz 2005-01-20 04:52 7.3M contigAcc.txt.gz 2005-03-24 05:08 546K chainMm6.txt.gz 2005-05-05 06:37 34M chainMm6Link.txt.gz 2005-05-05 06:43 369M netMm6.txt.gz 2005-05-05 06:48 22M microsat.sql 2006-08-03 07:52 1.3K microsat.txt.gz 2006-08-03 07:52 1.0M gbDelete_tmp.sql 2009-08-19 15:43 1.3K gbDelete_tmp.txt.gz 2009-08-19 15:43 171K blastHg17KG.sql 2013-10-01 12:48 1.3K chainDanRer2.sql 2013-10-01 12:48 886 chainDanRer2Link.sql 2013-10-01 12:48 585 chainGalGal2.sql 2013-10-01 12:48 886 chainGalGal2Link.sql 2013-10-01 12:48 585 chainHg17.sql 2013-10-01 12:48 880 chainHg17Link.sql 2013-10-01 12:48 579 chainMm6.sql 2013-10-01 12:48 878 chainMm6Link.sql 2013-10-01 12:48 577 chromInfo.sql 2013-10-01 12:48 396 contigAcc.sql 2013-10-01 12:48 343 cpgIslandExt.sql 2013-10-01 12:48 751 danRer2_netBlastz.sql 2013-10-01 12:48 675 extFile.sql 2013-10-01 12:48 445 galGal2_netBlastz.sql 2013-10-01 12:48 675 gap.sql 2013-10-01 12:48 722 gc5Base.sql 2013-10-01 12:48 890 genscan.sql 2013-10-01 12:48 748 genscanPep.sql 2013-10-01 12:48 330 gold.sql 2013-10-01 12:48 799 hg17_netBlastz.sql 2013-10-01 12:48 669 history.sql 2013-10-01 12:48 537 mm5_netBlastz.sql 2013-10-01 12:48 667 mostConserved.sql 2013-10-01 12:48 650 multiz5way.sql 2013-10-01 12:48 661 netDanRer2.sql 2013-10-01 12:48 1.3K netGalGal2.sql 2013-10-01 12:48 1.3K netHg17.sql 2013-10-01 12:48 1.3K netMm6.sql 2013-10-01 12:48 1.3K phastCons5.sql 2013-10-01 12:48 898 quality.sql 2013-10-01 12:48 890 rmsk.sql 2013-10-01 12:48 1.1K simpleRepeat.sql 2013-10-01 12:48 1.1K grp.sql 2014-03-02 04:14 1.4K grp.txt.gz 2014-03-02 04:14 223 cpgIslandExtUnmasked.sql 2014-06-01 16:52 1.7K cpgIslandExtUnmasked.txt.gz 2014-06-01 16:52 594K augustusGene.sql 2015-07-26 16:38 1.9K augustusGene.txt.gz 2015-07-26 16:38 2.0M xenoMrna.sql 2016-02-21 20:04 2.4K xenoMrna.txt.gz 2016-02-21 20:04 290M all_mrna.sql 2019-03-17 11:24 2.1K all_mrna.txt.gz 2019-03-17 11:24 65K mrnaOrientInfo.sql 2019-03-17 11:24 1.8K mrnaOrientInfo.txt.gz 2019-03-17 11:24 14K xenoRefGene.sql 2020-08-22 12:05 2.0K xenoRefGene.txt.gz 2020-08-22 12:05 34M xenoRefFlat.sql 2020-08-22 12:05 1.7K xenoRefFlat.txt.gz 2020-08-22 12:05 31M xenoRefSeqAli.sql 2020-08-22 12:05 2.1K xenoRefSeqAli.txt.gz 2020-08-22 12:05 32M gbLoaded.sql 2020-08-22 12:20 1.6K gbLoaded.txt.gz 2020-08-22 12:20 15K trackDb.sql 2023-03-28 13:51 2.1K trackDb.txt.gz 2023-03-28 13:51 25K hgFindSpec.sql 2023-03-28 13:51 1.8K hgFindSpec.txt.gz 2023-03-28 13:51 732 tableDescriptions.sql 2024-06-15 02:03 1.5K tableDescriptions.txt.gz 2024-06-15 02:03 5.5K tableList.sql 2024-06-16 03:29 1.6K tableList.txt.gz 2024-06-16 03:29 3.0K bigFiles.sql 2024-06-16 03:29 1.4K bigFiles.txt.gz 2024-06-16 03:29 33