This directory contains a dump of the UCSC genome annotation database for
the Dec. 2011 (Baylor/dasNov3) assembly of the armadillo genome (dasNov3, Baylor College of Medicine Dasnov3.0 (GCA_000208655.2)).
The annotations were generated by UCSC and collaborators worldwide.

For more information about this assembly, please note the NCBI resources:
    http://www.ncbi.nlm.nih.gov/genome/235
    http://www.ncbi.nlm.nih.gov/genome/assembly/326198
    http://www.ncbi.nlm.nih.gov/bioproject/12594

Files included in this directory (updated nightly):

  - *.sql files:  the MySQL commands used to create the tables

  - *.txt.gz files: the database tables in a tab-delimited format
    compressed with gzip.

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=dasNov3
and click the "describe table schema" button.  There is also a "view
table schema" link on the configuration page for each track.

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If you plan to download a large file or multiple files from this 
directory, we recommend 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/dasNov3/database/. To download multiple 
files, use the "mget" command:

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

Alternate methods to ftp access.

Using an rsync command to download the entire directory:
    rsync -avzP rsync://hgdownload.cse.ucsc.edu/goldenPath/dasNov3/database/ .
For a single file, e.g. gc5BaseBw.txt.gz
    rsync -avzP 
        rsync://hgdownload.cse.ucsc.edu/goldenPath/dasNov3/database/gc5BaseBw.txt.gz .

Or with wget, all files:
    wget --timestamping 
        'ftp://hgdownload.cse.ucsc.edu/goldenPath/dasNov3/database/*'
With wget, a single file: 
    wget --timestamping 
        'ftp://hgdownload.cse.ucsc.edu/goldenPath/dasNov3/database/gc5BaseBw.txt.gz' 
        -O gc5BaseBw.txt.gz

Please note that some files contents, such as this example gc5BaseBw.txt.gz,
will point to the data being hosted in another /gbdb/ location, which
refers to ftp://hgdownload.cse.ucsc.edu/gbdb/

To uncompress the *.txt.gz files:
    gunzip <table>.txt.gz
The tables can be loaded directly from the .txt.gz compressed file.
It is not necessary to uncompress them to load into a database,
as shown in the example below.

To load one of the tables directly into your local mirror database,
for example the table chromInfo:
## create table from the sql definition
$ hgsql dasNov3 < chromInfo.sql
## load data from the txt.gz file
$ zcat chromInfo.txt.gz | hgsql dasNov3 --local-infile=1 
        -e 'LOAD DATA LOCAL INFILE "/dev/stdin" INTO TABLE chromInfo;'

For conditions of use regarding the Armadillo genome sequence data, see
http://www.hgsc.bcm.edu/content/conditions-use

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GenBank Data Usage

The GenBank database is designed to provide and encourage access within 
the scientific community to the most up to date and comprehensive DNA 
sequence information. Therefore, NCBI places no restrictions on the use 
or distribution of the GenBank data. However, some submitters may claim 
patent, copyright, or other intellectual property rights in all or a 
portion of the data they have submitted. NCBI is not in a position to 
assess the validity of such claims, and therefore cannot provide comment 
or unrestricted permission concerning the use, copying, or distribution 
of the information contained in GenBank.

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All the files and tables in this directory are freely usable for any purpose.
-----------------------------------------------------------------------------
      Name                        Last modified      Size  Description
Parent Directory - gc5BaseBw.txt.gz 2012-11-21 15:43 63 ncbiRefSeqOther.txt.gz 2020-05-10 03:27 75 extNcbiRefSeq.txt.gz 2020-05-10 03:27 91 bigFiles.txt.gz 2024-04-21 03:28 94 grp.txt.gz 2014-03-02 03:40 208 history.txt.gz 2012-11-21 15:41 511 mrnaOrientInfo.txt.gz 2018-04-01 05:53 682 hgFindSpec.txt.gz 2024-01-31 15:13 1.2K hgFindSpec_pushedout.txt.gz 2023-12-05 13:52 1.2K gc5BaseBw.sql 2012-11-21 15:43 1.3K ncbiRefSeqOther.sql 2020-05-10 03:27 1.3K ncbiRefSeqCds.sql 2020-05-10 03:27 1.3K ensPep.sql 2021-05-25 14:32 1.3K grp.sql 2014-03-02 03:40 1.3K ncbiRefSeqPepTable.sql 2020-05-10 03:27 1.4K ensemblSource.sql 2021-05-25 14:32 1.4K bigFiles.sql 2024-04-21 03:28 1.4K chromInfo.sql 2012-11-21 15:46 1.4K ensemblToGeneName.sql 2021-05-25 14:28 1.4K chromAlias.sql 2018-02-18 06:14 1.4K tableDescriptions.sql 2024-04-20 02:03 1.4K ucscToINSDC.sql 2013-09-15 11:04 1.4K ucscToRefSeq.sql 2018-02-18 06:14 1.4K extNcbiRefSeq.sql 2020-05-10 03:27 1.4K ensGtp.sql 2021-05-25 14:28 1.4K microsat.sql 2015-08-23 13:40 1.5K windowmaskerSdust.sql 2012-11-21 15:44 1.5K cytoBandIdeo.sql 2013-04-28 12:59 1.5K chainHg38Link.sql 2018-01-07 07:07 1.5K chainMm10Link.sql 2012-11-21 15:34 1.5K seqNcbiRefSeq.sql 2020-05-10 03:27 1.5K tableList.sql 2024-04-21 03:28 1.6K history.sql 2012-11-21 15:41 1.6K gap.sql 2012-11-21 15:48 1.6K gbLoaded.sql 2020-08-18 22:48 1.6K gold.sql 2012-11-21 15:49 1.7K genscan.sql 2012-11-21 15:41 1.7K cpgIslandExt.sql 2012-11-21 15:48 1.7K chainHg38.sql 2018-01-07 07:05 1.7K chainMm10.sql 2012-11-21 15:39 1.7K cpgIslandExtUnmasked.sql 2014-06-01 11:04 1.7K xenoRefFlat.sql 2020-08-18 22:45 1.7K hgFindSpec.sql 2024-01-31 15:13 1.8K mrnaOrientInfo.sql 2018-04-01 05:53 1.8K hgFindSpec_pushedout.sql 2023-12-05 13:52 1.8K rmsk.sql 2012-11-21 15:40 1.9K simpleRepeat.sql 2012-11-21 15:48 1.9K ncbiRefSeq.sql 2020-05-10 03:27 1.9K nestedRepeats.sql 2012-11-21 15:44 1.9K augustusGene.sql 2015-07-26 12:00 1.9K ensGene.sql 2021-05-25 14:28 1.9K ncbiRefSeqCurated.sql 2020-05-10 03:27 2.0K xenoRefGene.sql 2020-08-18 22:45 2.0K ncbiRefSeqPredicted.sql 2020-05-10 03:27 2.0K ncbiRefSeqLink.sql 2020-05-10 03:27 2.0K trackDb.sql 2024-01-31 15:13 2.1K trackDb_pushedout.sql 2023-12-05 13:52 2.1K netHg38.sql 2018-01-07 07:07 2.1K netMm10.sql 2012-11-21 15:41 2.1K all_mrna.sql 2018-04-01 05:56 2.1K ncbiRefSeqPsl.sql 2020-05-10 03:27 2.1K xenoMrna.sql 2020-08-18 22:31 2.1K xenoRefSeqAli.sql 2020-08-18 22:48 2.1K ncbiRefSeqCurated.txt.gz 2020-05-10 03:27 2.2K all_mrna.txt.gz 2018-04-01 05:56 2.9K tableList.txt.gz 2024-04-21 03:28 3.1K tableDescriptions.txt.gz 2024-04-20 02:03 6.3K trackDb_pushedout.txt.gz 2023-12-05 13:52 29K gbLoaded.txt.gz 2020-08-18 22:48 34K trackDb.txt.gz 2024-01-31 15:13 44K microsat.txt.gz 2015-08-23 13:40 98K ensemblSource.txt.gz 2021-05-25 14:32 112K ensemblToGeneName.txt.gz 2021-05-25 14:28 136K cytoBandIdeo.txt.gz 2013-04-28 12:59 246K chromInfo.txt.gz 2012-11-21 15:46 251K ncbiRefSeqCds.txt.gz 2020-05-10 03:27 261K ucscToINSDC.txt.gz 2013-09-15 11:04 361K ucscToRefSeq.txt.gz 2018-02-18 06:14 370K ensGtp.txt.gz 2021-05-25 14:28 380K chromAlias.txt.gz 2018-02-18 06:14 474K seqNcbiRefSeq.txt.gz 2020-05-10 03:27 690K ncbiRefSeqLink.txt.gz 2020-05-10 03:27 1.3M cpgIslandExt.txt.gz 2012-11-21 15:48 1.6M augustusGene.txt.gz 2015-07-26 12:00 2.4M ensGene.txt.gz 2021-05-25 14:28 2.5M cpgIslandExtUnmasked.txt.gz 2014-06-01 11:04 2.7M ncbiRefSeqPredicted.txt.gz 2020-05-10 03:27 2.7M ncbiRefSeq.txt.gz 2020-05-10 03:27 2.7M ncbiRefSeqPsl.txt.gz 2020-05-10 03:27 3.2M gap.txt.gz 2012-11-21 15:48 3.3M genscan.txt.gz 2012-11-21 15:41 3.7M gold.txt.gz 2012-11-21 15:49 4.7M ensPep.txt.gz 2021-05-25 14:32 7.6M ncbiRefSeqPepTable.txt.gz 2020-05-10 03:27 8.3M nestedRepeats.txt.gz 2012-11-21 15:44 17M simpleRepeat.txt.gz 2012-11-21 15:48 18M xenoRefFlat.txt.gz 2020-08-18 22:45 39M xenoRefGene.txt.gz 2020-08-18 22:45 43M xenoRefSeqAli.txt.gz 2020-08-18 22:48 46M netMm10.txt.gz 2012-11-21 15:41 53M netHg38.txt.gz 2018-01-07 07:07 61M chainMm10.txt.gz 2012-11-21 15:40 115M rmsk.txt.gz 2012-11-21 15:40 135M windowmaskerSdust.txt.gz 2012-11-21 15:45 174M chainHg38.txt.gz 2018-01-07 07:05 392M xenoMrna.txt.gz 2020-08-18 22:31 429M chainMm10Link.txt.gz 2012-11-21 15:36 711M chainHg38Link.txt.gz 2018-01-07 07:09 1.4G