This directory contains a dump of the UCSC genome annotation database for the
    25 Mar-2014 (Chlorocebus_sabeus 1.1/chlSab2) assembly of the green monkey genome
    (chlSab2, Vervet Genomics Consortium GCA_000409795.2) .

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/13136
    http://www.ncbi.nlm.nih.gov/genome/assembly/132581
    http://www.ncbi.nlm.nih.gov/bioproject/215854

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=chlSab2
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 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/chlSab2/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/chlSab2/database/ .
For a single file, e.g. gc5BaseBw.txt.gz
    rsync -avzP 
        rsync://hgdownload.cse.ucsc.edu/goldenPath/chlSab2/database/gc5BaseBw.txt.gz .

Or with wget, all files:
    wget --timestamping 
        'ftp://hgdownload.cse.ucsc.edu/goldenPath/chlSab2/database/*'
With wget, a single file:
    wget --timestamping 
        'ftp://hgdownload.cse.ucsc.edu/goldenPath/chlSab2/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 chlSab2 < chromInfo.sql
## load data from the txt.gz file
$ zcat chromInfo.txt.gz | hgsql chlSab2 --local-infile=1 
        -e 'LOAD DATA LOCAL INFILE "/dev/stdin" INTO TABLE chromInfo;'

-----------------------------------------------------------------------------
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.
-----------------------------------------------------------------------------
All the files and tables in this directory are freely usable for any purpose.

      Name                        Last modified      Size  Description
Parent Directory - xenoRefSeqAli.txt.gz 2020-08-18 17:40 27M xenoRefSeqAli.sql 2020-08-18 17:40 2.1K xenoRefGene.txt.gz 2020-08-18 17:40 27M xenoRefGene.sql 2020-08-18 17:40 2.0K xenoRefFlat.txt.gz 2020-08-18 17:40 24M xenoRefFlat.sql 2020-08-18 17:40 1.7K windowmaskerSdust.txt.gz 2016-10-16 05:45 147M windowmaskerSdust.sql 2016-10-16 05:45 1.5K ucscToRefSeq.txt.gz 2018-02-18 05:48 18K ucscToRefSeq.sql 2018-02-18 05:48 1.4K ucscToINSDC.txt.gz 2016-10-16 05:45 17K ucscToINSDC.sql 2016-10-16 05:45 1.4K trackDb_pushedout.txt.gz 2023-12-05 13:52 32K trackDb_pushedout.sql 2023-12-05 13:52 2.1K trackDb.txt.gz 2024-01-31 15:13 53K trackDb.sql 2024-01-31 15:13 2.1K tableList.txt.gz 2024-04-14 03:14 3.4K tableList.sql 2024-04-14 03:14 1.6K tableDescriptions.txt.gz 2024-04-13 02:03 6.3K tableDescriptions.sql 2024-04-13 02:03 1.4K simpleRepeat.txt.gz 2016-10-16 05:44 26M simpleRepeat.sql 2016-10-16 05:44 1.9K seqNcbiRefSeq.txt.gz 2021-02-10 16:10 1.1M seqNcbiRefSeq.sql 2021-02-10 16:10 1.6K rmsk.txt.gz 2016-10-16 05:44 135M rmsk.sql 2016-10-16 05:44 1.9K netTarSyr2.txt.gz 2016-10-16 05:43 68M netTarSyr2.sql 2016-10-16 05:43 2.1K netRheMac8.txt.gz 2016-10-16 05:43 14M netRheMac8.sql 2016-10-16 05:43 2.1K netHg38.txt.gz 2016-10-16 05:43 23M netHg38.sql 2016-10-16 05:43 2.1K nestedRepeats.txt.gz 2016-10-16 05:43 17M nestedRepeats.sql 2016-10-16 05:43 1.9K ncbiRefSeqPsl.txt.gz 2021-02-10 15:48 5.2M ncbiRefSeqPsl.sql 2021-02-10 15:48 2.1K ncbiRefSeqPredicted.txt.gz 2021-02-10 15:48 3.7M ncbiRefSeqPredicted.sql 2021-02-10 15:48 2.0K ncbiRefSeqPepTable.txt.gz 2021-02-10 16:10 8.4M ncbiRefSeqPepTable.sql 2021-02-10 16:10 1.4K ncbiRefSeqOther.txt.gz 2021-02-10 16:10 75 ncbiRefSeqOther.sql 2021-02-10 16:10 1.3K ncbiRefSeqLink.txt.gz 2021-02-10 15:48 1.7M ncbiRefSeqLink.sql 2021-02-10 15:48 2.0K ncbiRefSeqCurated.txt.gz 2021-02-10 15:47 322 ncbiRefSeqCurated.sql 2021-02-10 15:47 2.0K ncbiRefSeqCds.txt.gz 2021-02-10 16:10 419K ncbiRefSeqCds.sql 2021-02-10 16:10 1.4K ncbiRefSeq.txt.gz 2021-02-10 15:47 3.7M ncbiRefSeq.sql 2021-02-10 15:47 2.0K mrnaOrientInfo.txt.gz 2019-07-14 05:57 7.8K mrnaOrientInfo.sql 2019-07-14 05:57 1.8K microsat.txt.gz 2016-10-16 05:43 332K microsat.sql 2016-10-16 05:43 1.5K intronEst.txt.gz 2016-10-16 05:43 1.0M intronEst.sql 2016-10-16 05:43 2.1K history.txt.gz 2016-10-16 05:43 1.1K history.sql 2016-10-16 05:43 1.6K hgFindSpec_pushedout.txt.gz 2023-12-05 13:52 1.2K hgFindSpec_pushedout.sql 2023-12-05 13:52 1.8K hgFindSpec.txt.gz 2024-01-31 15:13 1.2K hgFindSpec.sql 2024-01-31 15:13 1.8K grp.txt.gz 2021-06-08 09:45 200 grp.sql 2021-06-08 09:45 1.4K gold.txt.gz 2016-10-16 05:43 2.7M gold.sql 2016-10-16 05:43 1.7K genscan.txt.gz 2016-10-16 05:43 2.8M genscan.sql 2016-10-16 05:43 1.7K gc5BaseBw.txt.gz 2016-10-16 05:43 66 gc5BaseBw.sql 2016-10-16 05:43 1.3K gbLoaded.txt.gz 2020-08-18 17:40 38K gbLoaded.sql 2020-08-18 17:40 1.6K gap.txt.gz 2016-10-16 05:43 1.7M gap.sql 2016-10-16 05:43 1.6K extNcbiRefSeq.txt.gz 2021-02-10 16:10 91 extNcbiRefSeq.sql 2021-02-10 16:10 1.5K estOrientInfo.txt.gz 2016-10-16 05:43 456K estOrientInfo.sql 2016-10-16 05:43 1.8K ensemblToGeneName.txt.gz 2021-05-25 14:25 138K ensemblToGeneName.sql 2021-05-25 14:25 1.4K ensemblSource.txt.gz 2021-05-25 14:25 74K ensemblSource.sql 2021-05-25 14:25 1.4K ensPep.txt.gz 2021-05-25 14:25 5.9M ensPep.sql 2021-05-25 14:25 1.3K ensGtp.txt.gz 2021-05-25 14:25 240K ensGtp.sql 2021-05-25 14:25 1.4K ensGene.txt.gz 2021-05-25 14:25 2.1M ensGene.sql 2021-05-25 14:25 1.9K cytoBandIdeo.txt.gz 2016-10-16 05:43 12K cytoBandIdeo.sql 2016-10-16 05:43 1.5K cpgIslandExtUnmasked.txt.gz 2016-10-16 05:43 1.0M cpgIslandExtUnmasked.sql 2016-10-16 05:43 1.7K cpgIslandExt.txt.gz 2016-10-16 05:43 591K cpgIslandExt.sql 2016-10-16 05:43 1.7K chromInfo.txt.gz 2016-10-16 05:43 13K chromInfo.sql 2016-10-16 05:43 1.4K chromAlias.txt.gz 2018-02-18 05:48 21K chromAlias.sql 2018-02-18 05:48 1.4K chainTarSyr2Link.txt.gz 2016-10-16 05:38 1.1G chainTarSyr2Link.sql 2016-10-16 05:36 1.5K chainTarSyr2.txt.gz 2016-10-16 05:35 285M chainTarSyr2.sql 2016-10-16 05:35 1.7K chainRheMac8Link.txt.gz 2016-10-16 05:34 121M chainRheMac8Link.sql 2016-10-16 05:34 1.5K chainRheMac8.txt.gz 2016-10-16 05:34 23M chainRheMac8.sql 2016-10-16 05:34 1.7K chainHg38Link.txt.gz 2016-10-16 05:33 186M chainHg38Link.sql 2016-10-16 05:33 1.5K chainHg38.txt.gz 2016-10-16 05:33 17M chainHg38.sql 2016-10-16 05:33 1.7K bigFiles.txt.gz 2024-04-14 03:14 95 bigFiles.sql 2024-04-14 03:14 1.4K augustusGene.txt.gz 2016-10-16 05:33 2.2M augustusGene.sql 2016-10-16 05:33 1.9K all_mrna.txt.gz 2019-07-14 05:58 37K all_mrna.sql 2019-07-14 05:58 2.1K all_est.txt.gz 2016-10-16 05:33 1.4M all_est.sql 2016-10-16 05:33 2.1K