This directory contains a dump of the UCSC genome annotation database for the
    Sep. 2013 (Tarsius_syrichta-2.0.1/tarSyr2) assembly of the tarsier genome
    (tarSyr2, Washington University) .

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/766
    http://www.ncbi.nlm.nih.gov/assembly/784738
    http://www.ncbi.nlm.nih.gov/bioproject/20339

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=tarSyr2
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/tarSyr2/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/tarSyr2/database/ .
For a single file, e.g. gc5BaseBw.txt.gz
    rsync -avzP 
        rsync://hgdownload.cse.ucsc.edu/goldenPath/tarSyr2/database/gc5BaseBw.txt.gz .

Or with wget, all files:
    wget --timestamping 
        'ftp://hgdownload.cse.ucsc.edu/goldenPath/tarSyr2/database/*'
With wget, a single file:
    wget --timestamping 
        'ftp://hgdownload.cse.ucsc.edu/goldenPath/tarSyr2/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 tarSyr2 < chromInfo.sql
## load data from the txt.gz file
$ zcat chromInfo.txt.gz | hgsql tarSyr2 --local-infile=1 
        -e 'LOAD DATA LOCAL INFILE "/dev/stdin" INTO TABLE chromInfo;'

The Tarsier sequence is made freely available to the community by the
Genome Sequencing Center, Washington University School of Medicine, with
the following understanding:

1. The data may be freely downloaded, used in analyses, and repackaged in
   databases.

2. Users are free to use the data in scientific papers analyzing these data
   if the providers of these data are properly acknowledged.  See
   http://genome.ucsc.edu/goldenPath/credits.html for credit information.

3. The centers producing the data reserve the right to publish the initial
   large-scale analyses of the data set, including large-scale identification
   of regions of evolutionary conservation and large-scale genomic assembly.
   Large-scale refers to regions with size on the order of a chromosome (that
   is, 30 Mb or more).

4. Any redistribution of the data should carry this notice.

-----------------------------------------------------------------------------
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 - all_mrna.txt.gz 2016-09-18 11:23 33 mrnaOrientInfo.txt.gz 2016-09-18 11:23 39 gc5BaseBw.txt.gz 2015-04-02 12:53 66 ncbiRefSeqOther.txt.gz 2020-05-10 03:29 75 extFile.txt.gz 2015-05-25 12:58 81 extNcbiRefSeq.txt.gz 2020-05-10 03:29 90 bigFiles.txt.gz 2024-04-14 03:22 95 grp.txt.gz 2015-04-02 12:52 213 ncbiRefSeqCurated.txt.gz 2020-05-10 03:29 325 hgFindSpec.txt.gz 2024-01-31 15:13 1.2K hgFindSpec_pushedout.txt.gz 2023-12-05 13:52 1.2K gc5BaseBw.sql 2015-04-02 12:53 1.3K ncbiRefSeqOther.sql 2020-05-10 03:29 1.3K ncbiRefSeqCds.sql 2020-05-10 03:29 1.3K ensPep.sql 2021-05-25 14:54 1.3K grp.sql 2015-04-02 12:52 1.3K ncbiRefSeqPepTable.sql 2020-05-10 03:29 1.4K ensemblSource.sql 2021-05-25 14:54 1.4K bigFiles.sql 2024-04-14 03:22 1.4K chromInfo.sql 2015-04-02 12:52 1.4K ensemblToGeneName.sql 2021-05-25 14:50 1.4K extFile.sql 2015-05-25 12:58 1.4K chromAlias.sql 2018-02-04 09:36 1.4K ucscToINSDC.sql 2015-04-02 12:53 1.4K tableDescriptions.sql 2024-04-13 02:04 1.4K ucscToRefSeq.sql 2018-02-18 08:51 1.4K extNcbiRefSeq.sql 2020-05-10 03:29 1.4K ensGtp.sql 2021-05-25 14:50 1.4K microsat.sql 2015-08-24 02:25 1.5K windowmaskerSdust.sql 2015-04-02 12:53 1.5K cytoBandIdeo.sql 2015-04-02 12:52 1.5K multiz20way.sql 2015-05-25 12:58 1.5K chainRn6Link.sql 2017-03-28 07:51 1.5K chainHg38Link.sql 2015-05-25 10:49 1.5K chainMm10Link.sql 2015-05-25 11:15 1.5K seqNcbiRefSeq.sql 2020-05-10 03:29 1.5K chainCalJac3Link.sql 2015-05-25 10:39 1.5K chainCanFam3Link.sql 2015-05-25 10:58 1.5K chainChlSab2Link.sql 2016-10-30 10:13 1.5K chainGorGor3Link.sql 2015-05-25 11:09 1.5K chainMacFas5Link.sql 2016-04-10 03:35 1.5K chainMicMur2Link.sql 2016-02-15 01:41 1.5K chainNasLar1Link.sql 2017-03-13 14:09 1.5K chainNomLeu3Link.sql 2015-05-25 11:19 1.5K chainOtoGar3Link.sql 2015-05-25 11:36 1.5K chainPanPan1Link.sql 2015-07-06 11:22 1.5K chainPanTro4Link.sql 2015-05-25 12:18 1.5K chainPapAnu2Link.sql 2015-05-25 12:25 1.5K chainPonAbe2Link.sql 2015-05-25 12:30 1.5K chainRheMac3Link.sql 2015-05-25 12:38 1.5K chainRhiRox1Link.sql 2019-02-17 03:28 1.5K chainSaiBol1Link.sql 2015-05-25 12:45 1.5K chainTupBel1Link.sql 2015-05-25 12:51 1.5K chainMm39Link.sql 2020-11-24 02:18 1.6K phastConsElements20way.sql 2015-05-25 13:06 1.6K tableList.sql 2024-04-14 03:22 1.6K genscanSubopt.sql 2015-04-02 12:53 1.6K history.sql 2015-04-02 12:52 1.6K multiz20waySummary.sql 2015-05-25 13:00 1.6K gap.sql 2015-04-02 12:52 1.6K gbLoaded.sql 2020-08-20 13:48 1.6K gold.sql 2015-04-02 12:53 1.7K genscan.sql 2015-04-02 12:52 1.7K cpgIslandExt.sql 2015-04-02 12:52 1.7K chainRn6.sql 2017-03-28 07:28 1.7K chainHg38.sql 2015-05-25 10:45 1.7K chainMm10.sql 2015-05-25 11:15 1.7K chainCalJac3.sql 2015-05-25 10:38 1.7K chainCanFam3.sql 2015-05-25 10:48 1.7K chainChlSab2.sql 2016-10-30 10:11 1.7K chainGorGor3.sql 2015-05-25 11:04 1.7K chainMacFas5.sql 2016-04-10 03:34 1.7K chainMicMur2.sql 2016-02-15 01:46 1.7K chainNasLar1.sql 2017-03-13 13:59 1.7K chainNomLeu3.sql 2015-05-25 11:18 1.7K chainOtoGar3.sql 2015-05-25 11:25 1.7K chainPanPan1.sql 2015-07-06 11:22 1.7K chainPanTro4.sql 2015-05-25 12:17 1.7K chainPapAnu2.sql 2015-05-25 12:24 1.7K chainPonAbe2.sql 2015-05-25 12:29 1.7K chainRheMac3.sql 2015-05-25 12:37 1.7K chainRhiRox1.sql 2019-02-17 03:27 1.7K chainSaiBol1.sql 2015-05-25 12:44 1.7K chainTupBel1.sql 2015-05-25 12:50 1.7K cpgIslandExtUnmasked.sql 2015-04-02 12:52 1.7K chainMm39.sql 2020-11-24 02:14 1.7K multiz20wayFrames.sql 2015-05-25 13:00 1.7K xenoRefFlat.sql 2020-08-20 13:42 1.7K hgFindSpec.sql 2024-01-31 15:13 1.8K phyloP20way.sql 2015-05-25 13:06 1.8K mrnaOrientInfo.sql 2016-09-18 11:23 1.8K phastCons20way.sql 2015-05-25 13:05 1.8K hgFindSpec_pushedout.sql 2023-12-05 13:52 1.8K rmsk.sql 2015-04-02 12:52 1.9K simpleRepeat.sql 2015-04-02 12:53 1.9K ncbiRefSeq.sql 2020-05-10 03:29 1.9K nestedRepeats.sql 2015-04-02 12:52 1.9K augustusGene.sql 2015-07-26 17:28 1.9K ensGene.sql 2021-05-25 14:50 1.9K ncbiRefSeqCurated.sql 2020-05-10 03:29 2.0K xenoRefGene.sql 2020-08-20 13:36 2.0K ncbiRefSeqPredicted.sql 2020-05-10 03:29 2.0K history.txt.gz 2015-04-02 12:52 2.0K ncbiRefSeqLink.sql 2020-05-10 03:29 2.0K trackDb.sql 2024-01-31 15:13 2.1K netRn6.sql 2017-03-28 07:44 2.1K trackDb_pushedout.sql 2023-12-05 13:52 2.1K netHg38.sql 2015-05-25 13:03 2.1K netMm10.sql 2015-05-25 13:04 2.1K netCalJac3.sql 2015-05-25 13:00 2.1K netCanFam3.sql 2015-05-25 13:01 2.1K netChlSab2.sql 2016-10-30 10:18 2.1K netGorGor3.sql 2015-05-25 13:02 2.1K netMacFas5.sql 2016-04-10 03:41 2.1K netMicMur2.sql 2016-02-15 01:47 2.1K netNasLar1.sql 2017-03-13 13:55 2.1K netNomLeu3.sql 2015-05-25 13:05 2.1K netOtoGar3.sql 2015-05-25 13:00 2.1K netPanPan1.sql 2015-07-06 11:27 2.1K netPanTro4.sql 2015-05-25 13:01 2.1K netPapAnu2.sql 2015-05-25 13:02 2.1K netPonAbe2.sql 2015-05-25 13:03 2.1K netRheMac3.sql 2015-05-25 13:05 2.1K netRhiRox1.sql 2019-02-17 03:34 2.1K netSaiBol1.sql 2015-05-25 13:02 2.1K netTupBel1.sql 2015-05-25 13:04 2.1K all_mrna.sql 2016-09-18 11:23 2.1K netMm39.sql 2020-11-24 02:23 2.1K ncbiRefSeqPsl.sql 2020-05-10 03:29 2.1K xenoRefSeqAli.sql 2020-08-20 13:42 2.1K tableList.txt.gz 2024-04-14 03:22 6.2K tableDescriptions.txt.gz 2024-04-13 02:04 9.1K gbLoaded.txt.gz 2020-08-20 13:48 19K trackDb_pushedout.txt.gz 2023-12-05 13:52 54K trackDb.txt.gz 2024-01-31 15:13 70K ensemblSource.txt.gz 2021-05-25 14:54 110K ensemblToGeneName.txt.gz 2021-05-25 14:50 202K ncbiRefSeqCds.txt.gz 2020-05-10 03:29 217K ensGtp.txt.gz 2021-05-25 14:50 379K seqNcbiRefSeq.txt.gz 2020-05-10 03:29 546K microsat.txt.gz 2015-08-24 02:25 755K cpgIslandExt.txt.gz 2015-04-02 12:52 872K ncbiRefSeqLink.txt.gz 2020-05-10 03:29 1.0M cpgIslandExtUnmasked.txt.gz 2015-04-02 12:52 1.5M chromInfo.txt.gz 2015-04-02 12:52 1.6M cytoBandIdeo.txt.gz 2015-04-02 12:52 1.6M gap.txt.gz 2015-04-02 12:52 1.8M augustusGene.txt.gz 2015-07-26 17:28 2.2M ncbiRefSeqPredicted.txt.gz 2020-05-10 03:29 2.3M ncbiRefSeq.txt.gz 2020-05-10 03:29 2.3M ensGene.txt.gz 2021-05-25 14:50 2.3M ucscToRefSeq.txt.gz 2018-02-18 08:51 2.4M ucscToINSDC.txt.gz 2015-04-02 12:53 2.4M ncbiRefSeqPsl.txt.gz 2020-05-10 03:29 2.7M chromAlias.txt.gz 2018-02-04 09:36 3.3M genscan.txt.gz 2015-04-02 12:52 3.5M gold.txt.gz 2015-04-02 12:53 5.6M phastConsElements20way.txt.gz 2015-05-25 13:06 6.7M ncbiRefSeqPepTable.txt.gz 2020-05-10 03:29 7.3M multiz20waySummary.txt.gz 2015-05-25 13:00 7.4M genscanSubopt.txt.gz 2015-04-02 12:53 7.7M ensPep.txt.gz 2021-05-25 14:54 9.2M nestedRepeats.txt.gz 2015-04-02 12:52 18M multiz20wayFrames.txt.gz 2015-05-25 13:00 20M simpleRepeat.txt.gz 2015-04-02 12:53 28M xenoRefFlat.txt.gz 2020-08-20 13:42 30M xenoRefGene.txt.gz 2020-08-20 13:36 33M xenoRefSeqAli.txt.gz 2020-08-20 13:42 35M chainMm39.txt.gz 2020-11-24 02:14 59M netGorGor3.txt.gz 2015-05-25 13:02 64M netPanTro4.txt.gz 2015-05-25 13:01 64M netHg38.txt.gz 2015-05-25 13:03 64M netPanPan1.txt.gz 2015-07-06 11:27 65M netNomLeu3.txt.gz 2015-05-25 13:05 66M netSaiBol1.txt.gz 2015-05-25 13:02 66M netChlSab2.txt.gz 2016-10-30 10:19 66M netMacFas5.txt.gz 2016-04-10 03:42 66M netPonAbe2.txt.gz 2015-05-25 13:03 66M netRheMac3.txt.gz 2015-05-25 13:05 67M netPapAnu2.txt.gz 2015-05-25 13:02 67M netMicMur2.txt.gz 2016-02-15 01:47 68M netRhiRox1.txt.gz 2019-02-17 03:34 68M netNasLar1.txt.gz 2017-03-13 13:57 68M netCalJac3.txt.gz 2015-05-25 13:01 69M netTupBel1.txt.gz 2015-05-25 13:04 70M netMm10.txt.gz 2015-05-25 13:04 71M netMm39.txt.gz 2020-11-24 02:23 71M netOtoGar3.txt.gz 2015-05-25 13:00 81M netCanFam3.txt.gz 2015-05-25 13:01 82M phastCons20way.txt.gz 2015-05-25 13:05 82M netRn6.txt.gz 2017-03-28 07:46 82M chainMm10.txt.gz 2015-05-25 11:15 86M phyloP20way.txt.gz 2015-05-25 13:06 96M chainPanPan1.txt.gz 2015-07-06 11:22 121M chainPapAnu2.txt.gz 2015-05-25 12:24 123M rmsk.txt.gz 2015-04-02 12:52 161M windowmaskerSdust.txt.gz 2015-04-02 12:53 171M chainSaiBol1.txt.gz 2015-05-25 12:44 198M chainMicMur2.txt.gz 2016-02-15 01:47 217M chainNasLar1.txt.gz 2017-03-13 14:02 223M chainGorGor3.txt.gz 2015-05-25 11:05 240M chainCalJac3.txt.gz 2015-05-25 10:38 252M chainRheMac3.txt.gz 2015-05-25 12:38 253M chainNomLeu3.txt.gz 2015-05-25 11:18 265M chainChlSab2.txt.gz 2016-10-30 10:12 270M chainMacFas5.txt.gz 2016-04-10 03:34 276M chainCanFam3.txt.gz 2015-05-25 10:48 276M chainPanTro4.txt.gz 2015-05-25 12:17 289M chainRhiRox1.txt.gz 2019-02-17 03:27 305M chainPonAbe2.txt.gz 2015-05-25 12:29 325M chainRn6.txt.gz 2017-03-28 07:31 348M multiz20way.txt.gz 2015-05-25 12:59 392M chainTupBel1.txt.gz 2015-05-25 12:50 461M chainMm39Link.txt.gz 2020-11-24 02:18 484M chainMm10Link.txt.gz 2015-05-25 11:16 581M chainHg38.txt.gz 2015-05-25 10:46 619M chainPanPan1Link.txt.gz 2015-07-06 11:23 795M chainPapAnu2Link.txt.gz 2015-05-25 12:26 834M chainSaiBol1Link.txt.gz 2015-05-25 12:46 933M chainNasLar1Link.txt.gz 2017-03-13 14:20 953M chainMicMur2Link.txt.gz 2016-02-15 01:42 1.0G chainGorGor3Link.txt.gz 2015-05-25 11:11 1.0G chainCanFam3Link.txt.gz 2015-05-25 10:59 1.1G chainRheMac3Link.txt.gz 2015-05-25 12:40 1.1G chainCalJac3Link.txt.gz 2015-05-25 10:41 1.1G chainNomLeu3Link.txt.gz 2015-05-25 11:21 1.1G chainChlSab2Link.txt.gz 2016-10-30 10:14 1.2G chainRhiRox1Link.txt.gz 2019-02-17 03:29 1.2G chainMacFas5Link.txt.gz 2016-04-10 03:36 1.2G chainPanTro4Link.txt.gz 2015-05-25 12:20 1.2G chainTupBel1Link.txt.gz 2015-05-25 12:53 1.3G chainPonAbe2Link.txt.gz 2015-05-25 12:32 1.4G chainRn6Link.txt.gz 2017-03-28 08:14 1.7G chainHg38Link.txt.gz 2015-05-25 10:51 1.8G chainOtoGar3.txt.gz 2015-05-25 11:28 2.8G chainOtoGar3Link.txt.gz 2015-05-25 11:46 7.5G