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