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.
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      Name                        Last modified      Size  Description
Parent Directory - all_mrna.sql 2018-04-01 05:56 2.1K all_mrna.txt.gz 2018-04-01 05:56 2.9K augustusGene.sql 2015-07-26 12:00 1.9K augustusGene.txt.gz 2015-07-26 12:00 2.4M bigFiles.sql 2021-05-02 03:12 1.4K bigFiles.txt.gz 2021-05-02 03:12 94 chainHg38.sql 2018-01-07 07:05 1.7K chainHg38.txt.gz 2018-01-07 07:05 392M chainHg38Link.sql 2018-01-07 07:07 1.5K chainHg38Link.txt.gz 2018-01-07 07:09 1.4G chainMm10.sql 2012-11-21 15:39 1.7K chainMm10.txt.gz 2012-11-21 15:40 115M chainMm10Link.sql 2012-11-21 15:34 1.5K chainMm10Link.txt.gz 2012-11-21 15:36 711M chromAlias.sql 2018-02-18 06:14 1.4K chromAlias.txt.gz 2018-02-18 06:14 474K chromInfo.sql 2012-11-21 15:46 1.4K chromInfo.txt.gz 2012-11-21 15:46 251K cpgIslandExt.sql 2012-11-21 15:48 1.7K cpgIslandExt.txt.gz 2012-11-21 15:48 1.6M cpgIslandExtUnmasked.sql 2014-06-01 11:04 1.7K cpgIslandExtUnmasked.txt.gz 2014-06-01 11:04 2.7M cytoBandIdeo.sql 2013-04-28 12:59 1.5K cytoBandIdeo.txt.gz 2013-04-28 12:59 246K ensGene.sql 2020-08-31 15:29 1.9K ensGene.txt.gz 2020-08-31 15:29 2.5M ensGtp.sql 2020-08-31 15:29 1.4K ensGtp.txt.gz 2020-08-31 15:29 380K ensPep.sql 2020-08-31 15:51 1.3K ensPep.txt.gz 2020-08-31 15:51 7.6M ensemblSource.sql 2020-08-31 15:51 1.4K ensemblSource.txt.gz 2020-08-31 15:51 112K ensemblToGeneName.sql 2020-08-31 15:29 1.4K ensemblToGeneName.txt.gz 2020-08-31 15:29 137K extNcbiRefSeq.sql 2020-05-10 03:27 1.4K extNcbiRefSeq.txt.gz 2020-05-10 03:27 91 gap.sql 2012-11-21 15:48 1.6K gap.txt.gz 2012-11-21 15:48 3.3M gbLoaded.sql 2020-08-18 22:48 1.6K gbLoaded.txt.gz 2020-08-18 22:48 34K gc5BaseBw.sql 2012-11-21 15:43 1.3K gc5BaseBw.txt.gz 2012-11-21 15:43 63 genscan.sql 2012-11-21 15:41 1.7K genscan.txt.gz 2012-11-21 15:41 3.7M gold.sql 2012-11-21 15:49 1.7K gold.txt.gz 2012-11-21 15:49 4.7M grp.sql 2014-03-02 03:40 1.3K grp.txt.gz 2014-03-02 03:40 208 hgFindSpec.sql 2020-12-06 07:52 1.7K hgFindSpec.txt.gz 2020-12-06 07:52 1.1K history.sql 2012-11-21 15:41 1.6K history.txt.gz 2012-11-21 15:41 511 microsat.sql 2015-08-23 13:40 1.5K microsat.txt.gz 2015-08-23 13:40 98K mrnaOrientInfo.sql 2018-04-01 05:53 1.8K mrnaOrientInfo.txt.gz 2018-04-01 05:53 682 ncbiRefSeq.sql 2020-05-10 03:27 1.9K ncbiRefSeq.txt.gz 2020-05-10 03:27 2.7M ncbiRefSeqCds.sql 2020-05-10 03:27 1.3K ncbiRefSeqCds.txt.gz 2020-05-10 03:27 261K ncbiRefSeqCurated.sql 2020-05-10 03:27 2.0K ncbiRefSeqCurated.txt.gz 2020-05-10 03:27 2.2K ncbiRefSeqLink.sql 2020-05-10 03:27 2.0K ncbiRefSeqLink.txt.gz 2020-05-10 03:27 1.3M ncbiRefSeqOther.sql 2020-05-10 03:27 1.3K ncbiRefSeqOther.txt.gz 2020-05-10 03:27 75 ncbiRefSeqPepTable.sql 2020-05-10 03:27 1.4K ncbiRefSeqPepTable.txt.gz 2020-05-10 03:27 8.3M ncbiRefSeqPredicted.sql 2020-05-10 03:27 2.0K ncbiRefSeqPredicted.txt.gz 2020-05-10 03:27 2.7M ncbiRefSeqPsl.sql 2020-05-10 03:27 2.1K ncbiRefSeqPsl.txt.gz 2020-05-10 03:27 3.2M nestedRepeats.sql 2012-11-21 15:44 1.9K nestedRepeats.txt.gz 2012-11-21 15:44 17M netHg38.sql 2018-01-07 07:07 2.1K netHg38.txt.gz 2018-01-07 07:07 61M netMm10.sql 2012-11-21 15:41 2.1K netMm10.txt.gz 2012-11-21 15:41 53M rmsk.sql 2012-11-21 15:40 1.9K rmsk.txt.gz 2012-11-21 15:40 135M seqNcbiRefSeq.sql 2020-05-10 03:27 1.5K seqNcbiRefSeq.txt.gz 2020-05-10 03:27 690K simpleRepeat.sql 2012-11-21 15:48 1.9K simpleRepeat.txt.gz 2012-11-21 15:48 18M tableDescriptions.sql 2020-04-26 03:23 1.4K tableDescriptions.txt.gz 2020-04-26 03:23 6.2K tableList.sql 2021-05-02 03:12 1.6K tableList.txt.gz 2021-05-02 03:12 2.9K trackDb.sql 2020-12-02 17:32 2.0K trackDb.txt.gz 2020-12-02 17:32 40K ucscToINSDC.sql 2013-09-15 11:04 1.4K ucscToINSDC.txt.gz 2013-09-15 11:04 361K ucscToRefSeq.sql 2018-02-18 06:14 1.4K ucscToRefSeq.txt.gz 2018-02-18 06:14 370K windowmaskerSdust.sql 2012-11-21 15:44 1.5K windowmaskerSdust.txt.gz 2012-11-21 15:45 174M xenoMrna.sql 2020-08-18 22:31 2.1K xenoMrna.txt.gz 2020-08-18 22:31 429M xenoRefFlat.sql 2020-08-18 22:45 1.7K xenoRefFlat.txt.gz 2020-08-18 22:45 39M xenoRefGene.sql 2020-08-18 22:45 1.9K xenoRefGene.txt.gz 2020-08-18 22:45 43M xenoRefSeqAli.sql 2020-08-18 22:48 2.1K xenoRefSeqAli.txt.gz 2020-08-18 22:48 46M