This directory contains a dump of the UCSC genome annotation database for the
    Oct. 2020 (Dog10K_Boxer_Tasha/canFam6) assembly of the dog genome
    (canFam6, Dog Genome Sequencing Consortium) .

The annotations were generated by UCSC and collaborators worldwide.

For more information about this assembly, please note the NCBI resources:
    https://www.ncbi.nlm.nih.gov/genome/85
    https://www.ncbi.nlm.nih.gov/genome/assembly/8227741
    https://www.ncbi.nlm.nih.gov/bioproject/13179
    https://www.ncbi.nlm.nih.gov/biosample/SAMN02953603

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=canFam6
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.soe.ucsc.edu, then go to
the directory goldenPath/canFam6/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.soe.ucsc.edu/goldenPath/canFam6/database/ .
For a single file, e.g. gc5Base.txt.gz
    rsync -avzP 
        rsync://hgdownload.soe.ucsc.edu/goldenPath/canFam6/database/gc5Base.txt.gz .

Or with wget, all files:
    wget --timestamping 
        'ftp://hgdownload.soe.ucsc.edu/goldenPath/canFam6/database/*'
With wget, a single file:
    wget --timestamping 
        'ftp://hgdownload.soe.ucsc.edu/goldenPath/canFam6/database/gc5Base.txt.gz' 
        -O gc5Base.txt.gz

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 canFam6 < chromInfo.sql
## load data from the txt.gz file
$ zcat chromInfo.txt.gz | hgsql canFam6 --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.
-----------------------------------------------------------------------------
All the files and tables in this directory are freely usable for any purpose.

      Name                        Last modified      Size  Description
Parent Directory - xenoRefSeqAli.txt.gz 2021-05-18 10:36 21M xenoRefSeqAli.sql 2021-05-18 10:36 2.1K xenoRefGene.txt.gz 2021-05-18 10:35 11M xenoRefGene.sql 2021-05-18 10:35 2.0K xenoRefFlat.txt.gz 2021-05-18 10:36 10M xenoRefFlat.sql 2021-05-18 10:36 1.7K xenoMrna.txt.gz 2021-05-18 10:08 218M xenoMrna.sql 2021-05-18 10:08 2.1K windowmaskerSdust.txt.gz 2021-05-12 18:25 123M windowmaskerSdust.sql 2021-05-12 18:25 1.5K ucscToRefSeq.txt.gz 2021-05-13 10:33 1.3K ucscToRefSeq.sql 2021-05-13 10:33 1.5K ucscToINSDC.txt.gz 2021-05-13 10:33 1.3K ucscToINSDC.sql 2021-05-13 10:33 1.4K trackDb.txt.gz 2021-11-22 14:40 31K trackDb.sql 2021-11-22 14:40 2.1K tableList.txt.gz 2022-08-14 03:03 3.2K tableList.sql 2022-08-14 03:03 1.6K tableDescriptions.txt.gz 2021-11-22 06:34 6.0K tableDescriptions.sql 2021-11-22 06:34 1.4K simpleRepeat.txt.gz 2021-05-12 15:31 22M simpleRepeat.sql 2021-05-12 15:31 1.9K seqNcbiRefSeq.txt.gz 2021-05-13 11:16 1.4M seqNcbiRefSeq.sql 2021-05-13 11:16 1.6K rmsk.txt.gz 2021-05-12 18:55 121M rmsk.sql 2021-05-12 18:55 1.9K refSeqAli.txt.gz 2021-05-18 10:36 185K refSeqAli.sql 2021-05-18 10:36 2.1K refGene.txt.gz 2021-05-18 10:35 178K refGene.sql 2021-05-18 10:35 1.9K refFlat.txt.gz 2021-05-18 10:35 165K refFlat.sql 2021-05-18 10:35 1.7K netMm39.txt.gz 2021-05-18 20:17 58M netMm39.sql 2021-05-18 20:17 2.1K netMm10.txt.gz 2021-05-18 09:20 58M netMm10.sql 2021-05-18 09:20 2.1K netHg38.txt.gz 2021-05-18 09:40 63M netHg38.sql 2021-05-18 09:40 2.1K nestedRepeats.txt.gz 2021-05-12 18:57 14M nestedRepeats.sql 2021-05-12 18:57 2.0K ncbiRefSeqPsl.txt.gz 2021-05-13 11:14 6.1M ncbiRefSeqPsl.sql 2021-05-13 11:14 2.1K ncbiRefSeqPredicted.txt.gz 2021-05-13 11:14 4.1M ncbiRefSeqPredicted.sql 2021-05-13 11:14 2.0K ncbiRefSeqPepTable.txt.gz 2021-05-13 11:16 12M ncbiRefSeqPepTable.sql 2021-05-13 11:16 1.4K ncbiRefSeqOther.txt.gz 2021-05-13 11:16 75 ncbiRefSeqOther.sql 2021-05-13 11:16 1.3K ncbiRefSeqLink.txt.gz 2021-05-13 11:14 2.4M ncbiRefSeqLink.sql 2021-05-13 11:14 2.0K ncbiRefSeqCurated.txt.gz 2021-05-13 11:14 184K ncbiRefSeqCurated.sql 2021-05-13 11:14 2.0K ncbiRefSeqCds.txt.gz 2021-05-13 11:16 433K ncbiRefSeqCds.sql 2021-05-13 11:16 1.4K ncbiRefSeq.txt.gz 2021-05-13 11:14 4.3M ncbiRefSeq.sql 2021-05-13 11:14 2.0K mrnaOrientInfo.txt.gz 2021-05-18 12:15 87K mrnaOrientInfo.sql 2021-05-18 12:15 1.8K microsat.txt.gz 2021-05-12 16:58 576K microsat.sql 2021-05-12 16:58 1.5K intronEst.txt.gz 2021-05-18 12:15 8.7M intronEst.sql 2021-05-18 12:15 2.1K history.txt.gz 2021-05-23 08:52 959 history.sql 2021-05-23 08:52 1.6K hgFindSpec.txt.gz 2021-11-22 14:40 1.0K hgFindSpec.sql 2021-11-22 14:40 1.8K grp.txt.gz 2021-05-12 11:40 213 grp.sql 2021-05-12 11:40 1.4K gold.txt.gz 2021-05-12 11:40 22K gold.sql 2021-05-12 11:40 1.7K genscan.txt.gz 2021-05-13 11:26 2.9M genscan.sql 2021-05-13 11:26 1.7K gc5BaseBw.txt.gz 2021-05-12 11:40 66 gc5BaseBw.sql 2021-05-12 11:40 1.3K gap.txt.gz 2021-05-12 11:40 13K gap.sql 2021-05-12 11:40 1.6K extNcbiRefSeq.txt.gz 2021-05-13 11:16 91 extNcbiRefSeq.sql 2021-05-13 11:16 1.5K estOrientInfo.txt.gz 2021-05-18 12:15 4.1M estOrientInfo.sql 2021-05-18 12:15 1.8K cytoBandIdeo.txt.gz 2021-05-13 01:39 1.0K cytoBandIdeo.sql 2021-05-13 01:39 1.5K crisprAllTargets.txt.gz 2021-05-23 08:52 69 crisprAllTargets.sql 2021-05-23 08:52 1.3K cpgIslandExtUnmasked.txt.gz 2021-05-12 15:00 1.1M cpgIslandExtUnmasked.sql 2021-05-12 15:00 1.7K cpgIslandExt.txt.gz 2021-05-13 10:40 1.0M cpgIslandExt.sql 2021-05-13 10:40 1.7K chromInfo.txt.gz 2021-05-12 11:40 1.1K chromInfo.sql 2021-05-12 11:40 1.4K chromAlias.txt.gz 2021-05-13 10:21 2.2K chromAlias.sql 2021-05-13 10:21 1.4K chainMm39Link.txt.gz 2021-05-18 20:14 421M chainMm39Link.sql 2021-05-18 20:14 1.6K chainMm39.txt.gz 2021-05-18 20:11 48M chainMm39.sql 2021-05-18 20:11 1.7K chainMm10Link.txt.gz 2021-05-18 09:17 455M chainMm10Link.sql 2021-05-18 09:17 1.6K chainMm10.txt.gz 2021-05-18 09:13 55M chainMm10.sql 2021-05-18 09:13 1.7K chainHg38Link.txt.gz 2021-05-18 09:37 914M chainHg38Link.sql 2021-05-18 09:37 1.6K chainHg38.txt.gz 2021-05-18 09:29 211M chainHg38.sql 2021-05-18 09:29 1.7K bigFiles.txt.gz 2022-08-14 03:03 119 bigFiles.sql 2022-08-14 03:03 1.4K augustusGene.txt.gz 2021-05-13 13:41 2.2M augustusGene.sql 2021-05-13 13:41 2.0K all_mrna.txt.gz 2021-05-18 10:07 221K all_mrna.sql 2021-05-18 10:07 2.1K all_est.txt.gz 2021-05-18 12:15 16M all_est.sql 2021-05-18 12:15 2.1K