This directory contains a dump of the UCSC genome annotation database for
the Sep. 2011 (ICGSC Felis_catus 6.2/felCat5) assembly of the cat genome
(felCat5, International Cat Genome Sequencing Consortium Felis_catus-6.2
(NCBI project 16726, accession AANG00000000.2, GCA_000181335.2)).
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/78
    http://www.ncbi.nlm.nih.gov/genome/assembly/320798
    http://www.ncbi.nlm.nih.gov/bioproject/16726

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=felCat5
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/felCat5/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/felCat5/database/ .
For a single file, e.g. gc5BaseBw.txt.gz
    rsync -avzP 
        rsync://hgdownload.cse.ucsc.edu/goldenPath/felCat5/database/gc5BaseBw.txt.gz .

Or with wget, all files:
    wget --timestamping 
        'ftp://hgdownload.cse.ucsc.edu/goldenPath/felCat5/database/*'
With wget, a single file: 
    wget --timestamping 
        'ftp://hgdownload.cse.ucsc.edu/goldenPath/felCat5/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 felCat5 < chromInfo.sql
## load data from the txt.gz file
$ zcat chromInfo.txt.gz | hgsql felCat5 --local-infile=1 
        -e 'LOAD DATA LOCAL INFILE "/dev/stdin" INTO TABLE chromInfo;'

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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 - xenoRefSeqAli.txt.gz 2020-08-21 17:45 34M xenoRefSeqAli.sql 2020-08-21 17:45 2.1K xenoRefGene.txt.gz 2020-08-21 17:41 33M xenoRefGene.sql 2020-08-21 17:41 1.9K xenoRefFlat.txt.gz 2020-08-21 17:41 30M xenoRefFlat.sql 2020-08-21 17:41 1.7K xenoMrna.txt.gz 2020-08-21 17:33 317M xenoMrna.sql 2020-08-21 17:33 2.1K windowmaskerSdust.txt.gz 2012-11-21 14:13 125M windowmaskerSdust.sql 2012-11-21 14:12 1.5K ucscToRefSeq.txt.gz 2018-02-18 06:28 41K ucscToRefSeq.sql 2018-02-18 06:28 1.4K ucscToINSDC.txt.gz 2013-09-15 12:58 40K ucscToINSDC.sql 2013-09-15 12:58 1.4K trackDb.txt.gz 2021-12-27 12:20 26K trackDb.sql 2021-12-27 12:20 2.1K tableList.txt.gz 2022-08-07 03:10 2.8K tableList.sql 2022-08-07 03:10 1.6K tableDescriptions.txt.gz 2019-07-21 03:41 5.4K tableDescriptions.sql 2019-07-21 03:41 1.4K simpleRepeat.txt.gz 2012-11-21 14:10 19M simpleRepeat.sql 2012-11-21 14:10 1.9K rmsk.txt.gz 2012-11-21 14:12 120M rmsk.sql 2012-11-21 14:12 1.9K refSeqAli.txt.gz 2020-08-21 17:45 40K refSeqAli.sql 2020-08-21 17:45 2.1K refGene.txt.gz 2020-08-21 17:41 38K refGene.sql 2020-08-21 17:41 1.9K refFlat.txt.gz 2020-08-21 17:41 35K refFlat.sql 2020-08-21 17:41 1.7K netMm10.txt.gz 2012-11-21 14:16 61M netMm10.sql 2012-11-21 14:16 2.1K netHg19.txt.gz 2014-04-06 18:01 64M netHg19.sql 2014-04-06 18:01 2.1K nestedRepeats.txt.gz 2012-11-21 14:13 14M nestedRepeats.sql 2012-11-21 14:13 1.9K mrnaOrientInfo.txt.gz 2020-08-21 17:41 49K mrnaOrientInfo.sql 2020-08-21 17:41 1.8K microsat.txt.gz 2015-08-23 16:25 1.1M microsat.sql 2015-08-23 16:25 1.5K intronEst.txt.gz 2012-11-21 14:18 20K intronEst.sql 2012-11-21 14:18 2.1K history.txt.gz 2012-11-21 14:16 514 history.sql 2012-11-21 14:16 1.6K hgFindSpec.txt.gz 2021-12-27 12:20 875 hgFindSpec.sql 2021-12-27 12:20 1.8K grp.txt.gz 2014-03-02 03:40 208 grp.sql 2014-03-02 03:40 1.3K gold.txt.gz 2012-11-21 14:16 104K gold.sql 2012-11-21 14:16 1.7K genscan.txt.gz 2012-11-21 14:16 3.1M genscan.sql 2012-11-21 14:16 1.7K geneid.txt.gz 2015-11-22 15:58 2.2M geneid.sql 2015-11-22 15:58 1.9K gc5BaseBw.txt.gz 2012-11-21 14:13 63 gc5BaseBw.sql 2012-11-21 14:13 1.3K gbLoaded.txt.gz 2020-08-21 17:58 88K gbLoaded.sql 2020-08-21 17:58 1.6K gap.txt.gz 2012-11-21 14:17 2.4M gap.sql 2012-11-21 14:17 1.6K estOrientInfo.txt.gz 2012-11-21 14:12 14K estOrientInfo.sql 2012-11-21 14:12 1.8K ensemblToGeneName.txt.gz 2018-02-04 07:02 122K ensemblToGeneName.sql 2018-02-04 07:02 1.4K ensemblSource.txt.gz 2018-02-04 07:00 68K ensemblSource.sql 2018-02-04 07:00 1.4K ensPep.txt.gz 2018-02-04 07:00 6.1M ensPep.sql 2018-02-04 07:00 1.3K ensGtp.txt.gz 2018-02-04 07:02 237K ensGtp.sql 2018-02-04 07:02 1.4K ensGene.txt.gz 2018-02-04 07:02 2.1M ensGene.sql 2018-02-04 07:02 1.9K cytoBandIdeo.txt.gz 2013-04-28 15:03 28K cytoBandIdeo.sql 2013-04-28 15:03 1.5K cpgIslandExtUnmasked.txt.gz 2014-06-01 13:03 1.4M cpgIslandExtUnmasked.sql 2014-06-01 13:03 1.7K cpgIslandExt.txt.gz 2012-11-21 14:11 1.2M cpgIslandExt.sql 2012-11-21 14:11 1.7K chromInfo.txt.gz 2012-11-21 14:16 29K chromInfo.sql 2012-11-21 14:16 1.4K chromAlias.txt.gz 2018-02-04 07:02 50K chromAlias.sql 2018-02-04 07:02 1.4K chainMm10Link.txt.gz 2012-11-21 14:18 428M chainMm10Link.sql 2012-11-21 14:18 1.5K chainMm10.txt.gz 2012-11-21 14:10 50M chainMm10.sql 2012-11-21 14:10 1.7K chainHg19Link.txt.gz 2014-04-06 17:58 798M chainHg19Link.sql 2014-04-06 17:57 1.5K chainHg19.txt.gz 2014-04-06 17:57 181M chainHg19.sql 2014-04-06 17:56 1.7K bigFiles.txt.gz 2022-08-07 03:10 68 bigFiles.sql 2022-08-07 03:10 1.4K augustusGene.txt.gz 2015-07-26 13:30 2.2M augustusGene.sql 2015-07-26 13:30 1.9K all_mrna.txt.gz 2020-08-21 17:33 221K all_mrna.sql 2020-08-21 17:33 2.1K all_est.txt.gz 2012-11-21 14:11 40K all_est.sql 2012-11-21 14:11 2.1K