The data files ("UCSC Chain Files") in this directory are property of The
Regents of the University of California, and made available free for
non-commercial use by Independent Researchers and Nonprofit Organizations. Any
other use of UCSC Chain Files requires a commercial license, for which users
should contact genomebrowser@ucsc.edu. As used herein, "Independent
Researcher" means an individual who is autonomous with respect to the
research activities for which he or she uses the UCSC Chain Files (note: such
use does not extend to any use of the UCSC Chain Files at the direction and/or
for the benefit of a for-profit organization); and "Nonprofit
Organization" means a university or other institution of higher education,
or a not-for-profit organization officially recognized or qualified under the
laws of the country in which it is organized or located, or any nonprofit
scientific or educational organization qualified under a federal, state or local
jurisdiction's nonprofit organization statute. Downloading or using UCSC Chain
Files indicates your acceptance of the End User License Agreement (EULA) posted
at "https://genome.ucsc.edu/license/EULA.pdf"; redistribution of UCSC Chain
Files by you must include this README file with these license restrictions, in
the same archive or directory with the chain files.
This directory contains the data files required as input to the
liftOver utility. This tool -- which requires a Linux platform --
allows the mass conversion of coordinates from one assembly to
another. The executable file for the utility can be downloaded from
http://hgdownload.soe.ucsc.edu/admin/exe/
The file names reflect the assembly conversion data contained within
in the format <db1>To<Db2>.over.chain.gz. For example, a file named
hg15ToHg16.over.chain.gz file contains the liftOver data needed to
convert hg15 (Human Build 33) coordinates to hg16 (Human Build 34).
If no file is available for the assembly in which you're interested,
please send a request to the genome mailing list
(genome@soe.ucsc.edu) and we will attempt to provide you with one.
To download a large file or multiple files from this directory,
we recommend that you use ftp rather than downloading the files via our
website. To do so, ftp to hgdownload.soe.ucsc.edu (user: anonymous),
then cd to goldenPath/hg38/liftOver. To download multiple files,
use the "mget" command:
mget <filename1> <filename2> ...
- or -
mget -a (to download all the files in the directory)
-------------------------------------------------------
Please refer to the credits page
(http://genome.ucsc.edu/goldenPath/credits.html) for guidelines and
restrictions regarding data use for these assemblies.
-------------------------------------------------------
Alternate methods to ftp access.
Using an rsync command to download the entire directory:
rsync -avzP rsync://hgdownload.soe.ucsc.edu/goldenPath/hg38/liftOver/ .
For a single file, e.g. hg38ToHg19.over.chain.gz
rsync -avzP
rsync://hgdownload.soe.ucsc.edu/goldenPath/hg38/liftOver/hg38ToHg19.over.chain.gz .
(Hg19 is merely an example here, not necessarily existing.)
Or with wget, all files:
wget --timestamping
'ftp://hgdownload.soe.ucsc.edu/goldenPath/hg38/liftOver/*'
With wget, a single file:
wget --timestamping
'ftp://hgdownload.soe.ucsc.edu/goldenPath/hg38/liftOver/hg38ToHg19.over.chain.gz'
-O hg38ToHg19.over.chain.gz
To uncompress the *.chain.gz files:
gunzip <file>.chain.gz
The liftOver utility can read the files in their .gz format,
it is not necessary to uncompress them to use with the liftOver command.
Name Last modified Size Description
Parent Directory -
md5sum.txt 2024-03-30 06:56 20K
hg38ToZonAlb1.over.chain.gz 2015-02-18 17:32 11M
hg38ToXipMac1.over.chain.gz 2015-02-06 17:56 4.9M
hg38ToXenTro10.over.chain.gz 2021-02-23 10:11 13M
hg38ToXenTro9.over.chain.gz 2017-03-30 06:52 10M
hg38ToXenTro7.over.chain.gz 2015-02-19 22:44 10M
hg38ToXenLae2.over.chain.gz 2017-03-30 07:56 7.6M
hg38ToVicPac2.over.chain.gz 2015-04-29 11:55 82M
hg38ToTurTru2.over.chain.gz 2017-02-21 19:26 84M
hg38ToTupChi1.over.chain.gz 2015-02-19 10:39 82M
hg38ToTupBel1.over.chain.gz 2015-03-27 14:12 70M
hg38ToTriMan1.over.chain.gz 2015-04-29 14:54 79M
hg38ToThaSir1.over.chain.gz 2018-03-13 12:20 8.5M
hg38ToTetNig2.over.chain.gz 2015-02-17 23:57 4.3M
hg38ToTarSyr2.over.chain.gz 2014-12-12 15:32 84M
hg38ToTakFla1.over.chain.gz 2015-02-18 10:59 4.0M
hg38ToTaeGut2.over.chain.gz 2015-02-19 21:26 15M
hg38ToSusScr11.over.chain.gz 2017-07-31 17:43 86M
hg38ToSusScr3.over.chain.gz 2015-04-29 11:32 81M
hg38ToSpeTri2.over.chain.gz 2015-04-29 13:05 89M
hg38ToSorAra2.over.chain.gz 2015-02-20 00:38 60M
hg38ToSarHar1.over.chain.gz 2015-02-14 01:13 31M
hg38ToSaiBol1.over.chain.gz 2014-12-13 19:23 55M
hg38ToRn7.over.chain.gz 2021-02-04 17:50 70M
hg38ToRn6.over.chain.gz 2015-02-14 22:30 69M
hg38ToRn5.over.chain.gz 2014-03-01 11:14 68M
hg38ToRn4.over.chain.gz 2014-03-01 11:14 66M
hg38ToRhiRox1.over.chain.gz 2015-02-23 11:26 41M
hg38ToRhiBie1.over.chain.gz 2017-03-23 15:20 41M
hg38ToRheMac10.over.chain.gz 2019-07-03 14:15 37M
hg38ToRheMac8.over.chain.gz 2016-02-08 12:40 38M
hg38ToRheMac3.over.chain.gz 2015-04-09 15:10 37M
hg38ToRheMac2.over.chain.gz 2014-07-11 19:23 35M
hg38ToPunNye1.over.chain.gz 2015-02-06 18:11 4.4M
hg38ToPteVam1.over.chain.gz 2015-04-29 10:47 76M
hg38ToPteAle1.over.chain.gz 2015-04-29 12:41 81M
hg38ToPseHum1.over.chain.gz 2015-02-19 13:39 12M
hg38ToProCoq1.over.chain.gz 2017-09-28 18:30 39M
hg38ToPonAbe3.over.chain.gz 2018-03-26 13:55 23M
hg38ToPonAbe2.over.chain.gz 2014-09-02 13:55 27M
hg38ToPetMar3.over.chain.gz 2018-01-25 11:07 4.9M
hg38ToPetMar2.over.chain.gz 2015-02-06 18:05 3.6M
hg38ToPelSin1.over.chain.gz 2015-02-14 00:13 14M
hg38ToPapAnu4.over.chain.gz 2018-01-09 09:20 42M
hg38ToPapAnu3.over.chain.gz 2017-06-22 13:46 42M
hg38ToPapAnu2.over.chain.gz 2014-12-13 13:53 39M
hg38ToPanTro6.over.chain.gz 2018-03-24 23:05 12M
hg38ToPanTro5.over.chain.gz 2016-08-04 01:08 14M
hg38ToPanTro4.over.chain.gz 2014-05-27 10:06 14M
hg38ToPanTro3.over.chain.gz 2018-01-03 23:41 14M
hg38ToPanPan3.over.chain.gz 2020-06-15 10:51 13M
hg38ToPanPan2.over.chain.gz 2016-05-24 13:33 15M
hg38ToPanPan1.over.chain.gz 2014-12-11 16:48 16M
hg38ToPanHod1.over.chain.gz 2015-04-28 07:08 84M
hg38ToOviAri4.over.chain.gz 2018-04-26 08:56 83M
hg38ToOviAri3.over.chain.gz 2015-04-27 19:49 83M
hg38ToOtoGar3.over.chain.gz 2015-02-23 00:51 87M
hg38ToOryLat2.over.chain.gz 2015-02-06 09:41 5.0M
hg38ToOryCun2.over.chain.gz 2015-04-28 04:52 80M
hg38ToOryAfe1.over.chain.gz 2015-04-23 21:56 77M
hg38ToOrnAna2.over.chain.gz 2017-02-21 18:13 22M
hg38ToOrnAna1.over.chain.gz 2015-02-13 23:37 19M
hg38ToOreNil3.over.chain.gz 2017-07-31 14:04 4.8M
hg38ToOreNil2.over.chain.gz 2015-02-18 13:56 4.6M
hg38ToOrcOrc1.over.chain.gz 2016-06-03 22:03 82M
hg38ToOdoRosDiv1.over.chain.gz 2015-04-29 11:12 88M
hg38ToOctDeg1.over.chain.gz 2015-04-24 20:40 82M
hg38ToOchPri3.over.chain.gz 2015-04-28 02:31 69M
hg38ToNomLeu3.over.chain.gz 2014-12-12 19:44 29M
hg38ToNeoSch1.over.chain.gz 2017-09-25 20:52 87M
hg38ToNeoBri1.over.chain.gz 2015-02-18 12:58 4.4M
hg38ToNasLar1.over.chain.gz 2014-12-15 17:05 45M
hg38ToMyoLuc2.over.chain.gz 2015-04-28 04:57 70M
hg38ToMyoDav1.over.chain.gz 2015-04-28 07:01 73M
hg38ToMusFur1.over.chain.gz 2015-04-29 19:01 88M
hg38ToMonDom5.over.chain.gz 2014-05-29 11:09 34M
hg38ToMm39.over.chain.gz 2020-08-17 15:54 70M
hg38ToMm10.over.chain.gz 2015-04-09 17:32 70M
hg38ToMicOch1.over.chain.gz 2015-02-14 21:46 69M
hg38ToMicMur3.over.chain.gz 2017-03-04 09:21 37M
hg38ToMicMur2.over.chain.gz 2015-05-06 11:30 76M
hg38ToMicMur1.over.chain.gz 2015-03-17 12:00 67M
hg38ToMesAur1.over.chain.gz 2015-02-19 22:02 68M
hg38ToMelUnd1.over.chain.gz 2015-02-19 01:14 10M
hg38ToMelGal5.over.chain.gz 2017-01-19 16:25 11M
hg38ToMelGal1.over.chain.gz 2015-02-13 23:11 10M
hg38ToMayZeb1.over.chain.gz 2015-02-07 09:24 4.4M
hg38ToManPen1.over.chain.gz 2017-03-16 02:59 80M
hg38ToManLeu1.over.chain.gz 2017-09-25 08:44 37M
hg38ToMacNem1.over.chain.gz 2017-02-27 13:00 38M
hg38ToMacFas5.over.chain.gz 2014-12-14 01:05 39M
hg38ToMacEug2.over.chain.gz 2015-02-19 22:55 17M
hg38ToLoxAfr3.over.chain.gz 2015-04-29 13:44 81M
hg38ToLepWed1.over.chain.gz 2015-04-29 11:05 87M
hg38ToLepOcu1.over.chain.gz 2015-02-19 05:23 6.1M
hg38ToLatCha1.over.chain.gz 2015-02-19 23:56 7.2M
hg38ToJacJac1.over.chain.gz 2015-02-19 21:29 73M
hg38ToHg19.over.chain.gz 2013-12-31 17:24 1.2M
hg38ToHetGla2.over.chain.gz 2015-04-29 12:55 86M
hg38ToHapBur1.over.chain.gz 2015-02-18 12:37 4.4M
hg38ToGorGor5.over.chain.gz 2016-06-25 02:40 19M
hg38ToGorGor4.over.chain.gz 2016-01-06 18:59 16M
hg38ToGorGor3.over.chain.gz 2014-12-15 13:00 18M
hg38ToGeoFor1.over.chain.gz 2015-02-19 01:33 10M
hg38ToGasAcu1.over.chain.gz 2015-02-18 08:29 5.2M
hg38ToGalVar1.over.chain.gz 2016-04-26 03:10 85M
hg38ToGalGal6.over.chain.gz 2018-10-12 10:57 12M
hg38ToGalGal5.over.chain.gz 2016-04-19 16:46 12M
hg38ToGalGal4.over.chain.gz 2015-02-13 21:49 11M
hg38ToGadMor1.over.chain.gz 2015-02-18 17:19 4.8M
hg38ToGCF_019923935.1.over.chain.gz 2023-12-30 23:34 86M
hg38ToGCF_018350175.1.over.chain.gz 2023-02-08 05:00 91M
hg38ToGCF_016699485.2.over.chain.gz 2023-02-06 14:26 13M
hg38ToGCF_012559485.2.over.chain.gz 2022-05-26 14:57 37M
hg38ToGCF_009762305.2.over.chain.gz 2024-03-07 02:34 90M
hg38ToGCF_008728515.1.over.chain.gz 2023-08-31 18:31 38M
hg38ToGCF_004115215.2.over.chain.gz 2023-02-07 23:42 26M
hg38ToGCF_003121395.1.over.chain.gz 2021-01-05 17:03 84M
hg38ToGCF_002742125.1.over.chain.gz 2021-04-05 15:51 84M
hg38ToGCF_001704415.1.over.chain.gz 2021-11-23 19:51 85M
hg38ToGCF_000349665.1.over.chain.gz 2021-10-20 00:31 67M
hg38ToGCA_023856395.1.over.chain.gz 2024-03-30 06:22 68M
hg38ToGCA_013030995.1.over.chain.gz 2022-03-21 20:20 6.5M
hg38ToGCA_011100615.1.over.chain.gz 2023-03-15 13:45 38M
hg38ToGCA_009914755.4.over.chain.gz 2022-03-29 00:16 2.6M
hg38ToFukDam1.over.chain.gz 2018-01-01 19:56 86M
hg38ToFr3.over.chain.gz 2015-02-18 06:17 4.4M
hg38ToFicAlb2.over.chain.gz 2015-02-18 23:23 11M
hg38ToFicAlb1.over.chain.gz 2018-01-09 07:52 11M
hg38ToFelCat9.over.chain.gz 2018-03-15 04:47 89M
hg38ToFelCat8.over.chain.gz 2015-04-29 22:16 89M
hg38ToFalPer1.over.chain.gz 2015-02-13 21:29 11M
hg38ToFalChe1.over.chain.gz 2015-02-13 21:19 11M
hg38ToEulMac1.over.chain.gz 2017-10-04 21:47 41M
hg38ToEulFla1.over.chain.gz 2017-10-03 16:01 40M
hg38ToEriEur2.over.chain.gz 2015-02-19 13:03 55M
hg38ToEquCab3.over.chain.gz 2018-05-25 16:55 85M
hg38ToEquCab2.over.chain.gz 2015-02-23 11:14 84M
hg38ToEptFus1.over.chain.gz 2015-04-24 13:37 71M
hg38ToEnhLutNer1.over.chain.gz 2019-12-20 21:36 89M
hg38ToEleEdw1.over.chain.gz 2015-02-19 12:11 57M
hg38ToEchTel2.over.chain.gz 2015-04-29 14:12 62M
hg38ToDipOrd2.over.chain.gz 2018-01-01 19:07 70M
hg38ToDasNov3.over.chain.gz 2015-04-29 13:59 85M
hg38ToDanRer11.over.chain.gz 2017-06-13 14:42 4.4M
hg38ToDanRer10.over.chain.gz 2015-02-08 14:08 9.2M
hg38ToCriGriChoV2.over.chain.gz 2018-01-05 17:48 72M
hg38ToCriGriChoV1.over.chain.gz 2017-04-13 20:21 70M
hg38ToCriGri1.over.chain.gz 2015-02-20 19:28 73M
hg38ToConCri1.over.chain.gz 2015-04-29 09:18 74M
hg38ToColLiv1.over.chain.gz 2015-02-13 21:43 11M
hg38ToColAng1.over.chain.gz 2017-02-27 12:31 37M
hg38ToChrPic2.over.chain.gz 2015-02-06 14:31 16M
hg38ToChrAsi1.over.chain.gz 2015-02-20 05:23 68M
hg38ToChlSab2.over.chain.gz 2014-07-11 19:29 37M
hg38ToChiLan1.over.chain.gz 2015-04-28 03:54 87M
hg38ToCheMyd1.over.chain.gz 2015-02-06 14:24 15M
hg38ToCerSim1.over.chain.gz 2015-02-23 15:38 84M
hg38ToCerAty1.over.chain.gz 2017-09-27 11:04 38M
hg38ToCebCap1.over.chain.gz 2017-09-28 19:11 50M
hg38ToCe11.over.chain.gz 2023-03-17 14:55 462K
hg38ToCavPor3.over.chain.gz 2015-04-28 09:18 85M
hg38ToCavApe1.over.chain.gz 2018-01-08 21:39 56M
hg38ToCasCan1.over.chain.gz 2018-03-20 01:38 89M
hg38ToCapHir1.over.chain.gz 2015-04-28 11:44 83M
hg38ToCanFam6.over.chain.gz 2021-05-17 21:19 89M
hg38ToCanFam5.over.chain.gz 2020-07-30 05:35 90M
hg38ToCanFam4.over.chain.gz 2020-04-03 00:23 90M
hg38ToCanFam3.over.chain.gz 2015-04-10 01:22 89M
hg38ToCamFer1.over.chain.gz 2015-04-24 13:40 81M
hg38ToCalJac4.over.chain.gz 2020-09-03 23:02 63M
hg38ToCalJac3.over.chain.gz 2014-12-13 15:52 57M
hg38ToBosTau9.over.chain.gz 2018-11-08 15:58 83M
hg38ToBosTau8.over.chain.gz 2014-10-16 18:24 84M
hg38ToBisBis1.over.chain.gz 2017-03-17 21:14 84M
hg38ToBalAcu1.over.chain.gz 2018-06-11 17:53 82M
hg38ToAstMex1.over.chain.gz 2015-02-18 17:16 5.8M
hg38ToAraMac1.over.chain.gz 2015-02-17 18:08 10M
hg38ToAquChr2.over.chain.gz 2017-03-16 19:06 13M
hg38ToAptMan1.over.chain.gz 2017-02-21 17:07 12M
hg38ToApaSpi1.over.chain.gz 2015-02-14 00:01 14M
hg38ToAotNan1.over.chain.gz 2017-09-25 15:51 50M
hg38ToAnoCar2.over.chain.gz 2015-02-06 14:20 8.4M
hg38ToAnaPla1.over.chain.gz 2015-02-13 21:21 9.8M
hg38ToAmaVit1.over.chain.gz 2015-02-13 23:20 11M
hg38ToAllMis1.over.chain.gz 2015-02-14 00:31 19M
hg38ToAilMel1.over.chain.gz 2015-02-12 04:09 77M