This directory contains a dump of the UCSC genome annotation database for the
    Jun. 2017 (ASM220157v1/neoSch1) assembly of the hawaiian monk seal genome
    (neoSch1, Johns Hopkins University) .

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/8042
    https://www.ncbi.nlm.nih.gov/genome/assembly/1137021
    https://www.ncbi.nlm.nih.gov/bioproject/384558

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=neoSch1
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/neoSch1/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/neoSch1/database/ .
For a single file, e.g. gc5Base.txt.gz
    rsync -avzP 
        rsync://hgdownload.soe.ucsc.edu/goldenPath/neoSch1/database/gc5Base.txt.gz .

Or with wget, all files:
    wget --timestamping 
        'ftp://hgdownload.soe.ucsc.edu/goldenPath/neoSch1/database/*'
With wget, a single file:
    wget --timestamping 
        'ftp://hgdownload.soe.ucsc.edu/goldenPath/neoSch1/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 neoSch1 < chromInfo.sql
## load data from the txt.gz file
$ zcat chromInfo.txt.gz | hgsql neoSch1 --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 2020-08-19 20:39 38M xenoRefSeqAli.sql 2020-08-19 20:39 2.1K xenoRefGene.txt.gz 2020-08-19 20:39 39M xenoRefGene.sql 2020-08-19 20:39 1.9K xenoRefFlat.txt.gz 2020-08-19 20:39 35M xenoRefFlat.sql 2020-08-19 20:39 1.7K windowmaskerSdust.txt.gz 2017-09-22 23:16 129M windowmaskerSdust.sql 2017-09-22 23:16 1.5K ucscToRefSeq.txt.gz 2017-09-23 01:44 58K ucscToRefSeq.sql 2017-09-23 01:44 1.4K ucscToINSDC.txt.gz 2017-09-23 01:44 66K ucscToINSDC.sql 2017-09-23 01:44 1.4K trackDb.txt.gz 2021-08-02 14:30 35K trackDb.sql 2021-08-02 14:30 2.1K tableList.txt.gz 2022-08-07 03:03 5.9K tableList.sql 2022-08-07 03:03 1.6K tableDescriptions.txt.gz 2021-03-13 06:37 7.6K tableDescriptions.sql 2021-03-13 06:37 1.4K simpleRepeat.txt.gz 2017-09-22 13:53 14M simpleRepeat.sql 2017-09-22 13:53 1.9K seqNcbiRefSeq.txt.gz 2020-04-01 12:00 453K seqNcbiRefSeq.sql 2020-04-01 12:00 1.5K rmsk.txt.gz 2017-09-22 17:55 120M rmsk.sql 2017-09-22 17:55 1.9K netSynRheMac10.txt.gz 2020-07-12 07:07 57M netSynRheMac10.sql 2020-07-12 07:07 2.1K netSynPanTro6.txt.gz 2020-07-12 12:02 57M netSynPanTro6.sql 2020-07-12 12:02 2.1K netSynOrnAna2.txt.gz 2020-07-16 16:06 9.4M netSynOrnAna2.sql 2020-07-16 16:06 2.1K netSynMonDom5.txt.gz 2020-07-16 19:51 20M netSynMonDom5.sql 2020-07-16 19:51 2.1K netSynMm10.txt.gz 2018-03-16 09:42 60M netSynMm10.sql 2018-03-16 09:42 2.1K netSynLoxAfr3.txt.gz 2020-07-15 18:41 59M netSynLoxAfr3.sql 2020-07-15 18:41 2.1K netSynHg38.txt.gz 2018-03-16 10:23 57M netSynHg38.sql 2018-03-16 10:23 2.1K netSynCanFam4.txt.gz 2020-07-14 05:04 46M netSynCanFam4.sql 2020-07-14 05:04 2.1K netRheMac10.txt.gz 2020-07-12 06:52 61M netRheMac10.sql 2020-07-12 06:52 2.1K netRBestRheMac10.txt.gz 2020-07-12 10:45 61M netRBestRheMac10.sql 2020-07-12 10:45 2.1K netRBestPanTro6.txt.gz 2020-07-12 15:54 60M netRBestPanTro6.sql 2020-07-12 15:54 2.1K netRBestOrnAna2.txt.gz 2020-07-16 17:16 20M netRBestOrnAna2.sql 2020-07-16 17:16 2.1K netRBestMonDom5.txt.gz 2020-07-17 10:02 29M netRBestMonDom5.sql 2020-07-17 10:02 2.1K netRBestMm10.txt.gz 2018-03-16 15:29 62M netRBestMm10.sql 2018-03-16 15:29 2.1K netRBestLoxAfr3.txt.gz 2020-07-15 20:57 62M netRBestLoxAfr3.sql 2020-07-15 20:57 2.1K netRBestHg38.txt.gz 2018-03-16 18:03 60M netRBestHg38.sql 2018-03-16 18:03 2.1K netRBestCanFam4.txt.gz 2020-07-14 08:33 50M netRBestCanFam4.sql 2020-07-14 08:33 2.1K netPanTro6.txt.gz 2020-07-12 11:46 60M netPanTro6.sql 2020-07-12 11:46 2.1K netOrnAna2.txt.gz 2020-07-16 15:56 20M netOrnAna2.sql 2020-07-16 15:56 2.1K netMonDom5.txt.gz 2020-07-16 19:38 28M netMonDom5.sql 2020-07-16 19:38 2.1K netMm39.txt.gz 2020-11-25 02:03 63M netMm39.sql 2020-11-25 02:03 2.1K netMm10.txt.gz 2018-03-16 09:28 63M netMm10.sql 2018-03-16 09:28 2.1K netLoxAfr3.txt.gz 2020-07-15 18:25 62M netLoxAfr3.sql 2020-07-15 18:25 2.1K netHg38.txt.gz 2018-03-16 10:00 60M netHg38.sql 2018-03-16 10:00 2.1K netCanFam4.txt.gz 2020-07-14 04:39 51M netCanFam4.sql 2020-07-14 04:39 2.1K nestedRepeats.txt.gz 2017-09-22 17:58 14M nestedRepeats.sql 2017-09-22 17:58 1.9K ncbiRefSeqPsl.txt.gz 2020-04-01 11:42 2.6M ncbiRefSeqPsl.sql 2020-04-01 11:42 2.1K ncbiRefSeqPredicted.txt.gz 2020-04-01 11:42 2.3M ncbiRefSeqPredicted.sql 2020-04-01 11:42 2.0K ncbiRefSeqPepTable.txt.gz 2020-04-01 12:00 6.3M ncbiRefSeqPepTable.sql 2020-04-01 12:00 1.4K ncbiRefSeqOther.txt.gz 2020-04-01 12:00 75 ncbiRefSeqOther.sql 2020-04-01 12:00 1.3K ncbiRefSeqLink.txt.gz 2020-04-01 11:42 848K ncbiRefSeqLink.sql 2020-04-01 11:42 2.0K ncbiRefSeqCurated.txt.gz 2020-04-01 11:42 328 ncbiRefSeqCurated.sql 2020-04-01 11:42 2.0K ncbiRefSeqCds.txt.gz 2020-04-01 12:00 181K ncbiRefSeqCds.sql 2020-04-01 12:00 1.3K ncbiRefSeq.txt.gz 2020-04-01 11:42 2.3M ncbiRefSeq.sql 2020-04-01 11:42 1.9K microsat.txt.gz 2017-09-22 20:42 260K microsat.sql 2017-09-22 20:42 1.5K history.txt.gz 2020-09-11 16:38 1.7K history.sql 2020-09-11 16:38 1.6K hgFindSpec.txt.gz 2021-08-02 14:30 946 hgFindSpec.sql 2021-08-02 14:30 1.8K grp.txt.gz 2017-09-22 14:34 213 grp.sql 2017-09-22 14:34 1.3K gold.txt.gz 2020-09-11 13:52 821K gold.sql 2020-09-11 13:52 1.7K genscan.txt.gz 2017-10-06 09:39 3.0M genscan.sql 2017-10-06 09:39 1.7K gc5BaseBw.txt.gz 2017-09-22 14:34 66 gc5BaseBw.sql 2017-09-22 14:34 1.3K gbLoaded.txt.gz 2020-08-19 20:54 3.9K gbLoaded.sql 2020-08-19 20:54 1.6K gap.txt.gz 2020-09-11 13:52 499K gap.sql 2020-09-11 13:52 1.6K extNcbiRefSeq.txt.gz 2020-04-01 12:00 90 extNcbiRefSeq.sql 2020-04-01 12:00 1.4K cytoBandIdeo.txt.gz 2017-09-22 14:34 41K cytoBandIdeo.sql 2017-09-22 14:34 1.5K cpgIslandExtUnmasked.txt.gz 2017-09-22 13:49 1.1M cpgIslandExtUnmasked.sql 2017-09-22 13:49 1.7K cpgIslandExt.txt.gz 2017-09-25 10:22 1.0M cpgIslandExt.sql 2017-09-25 10:22 1.7K chromInfo.txt.gz 2017-09-22 14:34 41K chromInfo.sql 2017-09-22 14:34 1.4K chromAlias.txt.gz 2017-09-22 20:53 83K chromAlias.sql 2017-09-22 20:53 1.4K chainSynRheMac10Link.txt.gz 2020-07-12 07:06 318M chainSynRheMac10Link.sql 2020-07-12 07:06 1.6K chainSynRheMac10.txt.gz 2020-07-12 07:03 437K chainSynRheMac10.sql 2020-07-12 07:03 1.7K chainSynPanTro6Link.txt.gz 2020-07-12 12:01 316M chainSynPanTro6Link.sql 2020-07-12 12:01 1.6K chainSynPanTro6.txt.gz 2020-07-12 11:58 442K chainSynPanTro6.sql 2020-07-12 11:58 1.7K chainSynOrnAna2Link.txt.gz 2020-07-16 16:06 32M chainSynOrnAna2Link.sql 2020-07-16 16:06 1.6K chainSynOrnAna2.txt.gz 2020-07-16 16:06 170K chainSynOrnAna2.sql 2020-07-16 16:06 1.7K chainSynMonDom5Link.txt.gz 2020-07-16 19:51 81M chainSynMonDom5Link.sql 2020-07-16 19:51 1.6K chainSynMonDom5.txt.gz 2020-07-16 19:51 235K chainSynMonDom5.sql 2020-07-16 19:51 1.7K chainSynMm10Link.txt.gz 2018-03-16 09:41 238M chainSynMm10Link.sql 2018-03-16 09:41 1.5K chainSynMm10.txt.gz 2018-03-16 09:37 224K chainSynMm10.sql 2018-03-16 09:37 1.7K chainSynLoxAfr3Link.txt.gz 2020-07-15 18:40 287M chainSynLoxAfr3Link.sql 2020-07-15 18:40 1.6K chainSynLoxAfr3.txt.gz 2020-07-15 18:38 436K chainSynLoxAfr3.sql 2020-07-15 18:38 1.7K chainSynHg38Link.txt.gz 2018-03-16 10:22 316M chainSynHg38Link.sql 2018-03-16 10:22 1.5K chainSynHg38.txt.gz 2018-03-16 10:17 446K chainSynHg38.sql 2018-03-16 10:17 1.7K chainSynCanFam4Link.txt.gz 2020-07-14 05:04 252M chainSynCanFam4Link.sql 2020-07-14 05:04 1.6K chainSynCanFam4.txt.gz 2020-07-14 05:01 761K chainSynCanFam4.sql 2020-07-14 05:01 1.7K chainRheMac10Link.txt.gz 2020-07-12 06:49 840M chainRheMac10Link.sql 2020-07-12 06:49 1.6K chainRheMac10.txt.gz 2020-07-12 06:42 204M chainRheMac10.sql 2020-07-12 06:42 1.7K chainRBestRheMac10Link.txt.gz 2020-07-12 10:41 322M chainRBestRheMac10Link.sql 2020-07-12 10:41 1.6K chainRBestRheMac10.txt.gz 2020-07-12 10:39 1.4M chainRBestRheMac10.sql 2020-07-12 10:39 1.7K chainRBestPanTro6Link.txt.gz 2020-07-12 15:50 319M chainRBestPanTro6Link.sql 2020-07-12 15:50 1.6K chainRBestPanTro6.txt.gz 2020-07-12 15:48 1.4M chainRBestPanTro6.sql 2020-07-12 15:48 1.7K chainRBestOrnAna2Link.txt.gz 2020-07-16 17:14 49M chainRBestOrnAna2Link.sql 2020-07-16 17:14 1.6K chainRBestOrnAna2.txt.gz 2020-07-16 17:14 2.9M chainRBestOrnAna2.sql 2020-07-16 17:14 1.7K chainRBestMonDom5Link.txt.gz 2020-07-17 10:00 96M chainRBestMonDom5Link.sql 2020-07-17 10:00 1.6K chainRBestMonDom5.txt.gz 2020-07-17 09:59 2.5M chainRBestMonDom5.sql 2020-07-17 09:59 1.7K chainRBestMm10Link.txt.gz 2018-03-16 15:22 242M chainRBestMm10Link.sql 2018-03-16 15:22 1.6K chainRBestMm10.txt.gz 2018-03-16 15:18 916K chainRBestMm10.sql 2018-03-16 15:18 1.7K chainRBestLoxAfr3Link.txt.gz 2020-07-15 20:54 291M chainRBestLoxAfr3Link.sql 2020-07-15 20:54 1.6K chainRBestLoxAfr3.txt.gz 2020-07-15 20:52 1.5M chainRBestLoxAfr3.sql 2020-07-15 20:52 1.7K chainRBestHg38Link.txt.gz 2018-03-16 17:58 320M chainRBestHg38Link.sql 2018-03-16 17:58 1.6K chainRBestHg38.txt.gz 2018-03-16 17:54 1.4M chainRBestHg38.sql 2018-03-16 17:54 1.7K chainRBestCanFam4Link.txt.gz 2020-07-14 08:30 256M chainRBestCanFam4Link.sql 2020-07-14 08:30 1.6K chainRBestCanFam4.txt.gz 2020-07-14 08:28 2.0M chainRBestCanFam4.sql 2020-07-14 08:28 1.7K chainPanTro6Link.txt.gz 2020-07-12 11:43 873M chainPanTro6Link.sql 2020-07-12 11:43 1.5K chainPanTro6.txt.gz 2020-07-12 11:36 225M chainPanTro6.sql 2020-07-12 11:36 1.7K chainOrnAna2Link.txt.gz 2020-07-16 15:55 314M chainOrnAna2Link.sql 2020-07-16 15:55 1.5K chainOrnAna2.txt.gz 2020-07-16 15:53 54M chainOrnAna2.sql 2020-07-16 15:53 1.7K chainMonDom5Link.txt.gz 2020-07-16 19:36 1.1G chainMonDom5Link.sql 2020-07-16 19:36 1.5K chainMonDom5.txt.gz 2020-07-16 19:26 306M chainMonDom5.sql 2020-07-16 19:26 1.7K chainMm39Link.txt.gz 2020-11-25 02:00 404M chainMm39Link.sql 2020-11-25 02:00 1.6K chainMm39.txt.gz 2020-11-25 01:56 44M chainMm39.sql 2020-11-25 01:56 1.7K chainMm10Link.txt.gz 2018-03-16 09:23 413M chainMm10Link.sql 2018-03-16 09:23 1.5K chainMm10.txt.gz 2018-03-16 09:18 46M chainMm10.sql 2018-03-16 09:18 1.7K chainLoxAfr3Link.txt.gz 2020-07-15 18:23 881M chainLoxAfr3Link.sql 2020-07-15 18:23 1.5K chainLoxAfr3.txt.gz 2020-07-15 18:16 199M chainLoxAfr3.sql 2020-07-15 18:16 1.7K chainHg38Link.txt.gz 2018-03-16 09:56 906M chainHg38Link.sql 2018-03-16 09:56 1.5K chainHg38.txt.gz 2018-03-16 09:44 231M chainHg38.sql 2018-03-16 09:44 1.7K chainCanFam4Link.txt.gz 2020-07-14 04:36 1.9G chainCanFam4Link.sql 2020-07-14 04:36 1.5K chainCanFam4.txt.gz 2020-07-14 04:16 400M chainCanFam4.sql 2020-07-14 04:16 1.7K bigFiles.txt.gz 2022-08-07 03:03 95 bigFiles.sql 2022-08-07 03:03 1.4K augustusGene.txt.gz 2017-09-25 13:46 2.2M augustusGene.sql 2017-09-25 13:46 1.9K