This directory contains a dump of the UCSC genome annotation database for the May 2005 assembly of the dog genome (UCSC version canFam2) from the Broad Institute at MIT and Harvard. Files included in this directory (updated nightly): - *.sql files: the MySQL commands used to create the tables. 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=canFam2 and click the "describe table schema" button. There is also a "view table schema" link on the configuration page for each track. - *.txt.gz files: the database tables in a tab-delimited format compressed with gzip. -------------------------------------------------------------- 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/canFam2/database. To download multiple files, use the "mget" command: mget <filename1> <filename2> ... - or - mget -a (to download all the files in the directory) All the tables in this directory are freely usable for any purpose. The dog genome sequence is made freely available by the Dog Genome Sequencing Project. Please cite the following publication when using these data: Lindblad-Toh K, et al. Genome sequence, comparative analysis and haplotype structure of the domestic dog. Nature. 2005 Dec 8;438:803-19.
Name Last modified Size Description
Parent Directory - all_bacends.txt.gz 2005-12-20 11:28 49M bacEndPairs.txt.gz 2005-12-20 11:28 4.3M chr10_chainSelf.txt.gz 2005-12-20 11:29 1.1M chr10_chainSelfLink.txt.gz 2005-12-20 11:29 11M chr10_gap.txt.gz 2005-12-20 11:30 14K chr10_gold.txt.gz 2005-12-20 11:30 18K chr10_rmsk.txt.gz 2005-12-20 11:30 3.3M chr11_chainSelf.txt.gz 2005-12-20 11:31 1.1M chr11_chainSelfLink.txt.gz 2005-12-20 11:31 12M chr11_gap.txt.gz 2005-12-20 11:31 12K chr11_gold.txt.gz 2005-12-20 11:31 15K chr11_rmsk.txt.gz 2005-12-20 11:31 3.5M chr12_rmsk.txt.gz 2005-12-20 11:31 3.4M chr12_chainSelf.txt.gz 2005-12-20 11:32 1.5M chr12_chainSelfLink.txt.gz 2005-12-20 11:32 16M chr12_gap.txt.gz 2005-12-20 11:32 11K chr12_gold.txt.gz 2005-12-20 11:32 13K chr13_chainSelf.txt.gz 2005-12-20 11:33 1.0M chr13_chainSelfLink.txt.gz 2005-12-20 11:33 8.8M chr13_gap.txt.gz 2005-12-20 11:33 11K chr13_gold.txt.gz 2005-12-20 11:33 14K chr13_rmsk.txt.gz 2005-12-20 11:33 3.0M chr14_chainSelf.txt.gz 2005-12-20 11:34 1.0M chr14_chainSelfLink.txt.gz 2005-12-20 11:34 10M chr14_gap.txt.gz 2005-12-20 11:34 8.1K chr14_gold.txt.gz 2005-12-20 11:34 10K chr14_rmsk.txt.gz 2005-12-20 11:34 2.7M chr15_chainSelf.txt.gz 2005-12-20 11:35 1.0M chr15_chainSelfLink.txt.gz 2005-12-20 11:36 10M chr15_gap.txt.gz 2005-12-20 11:36 13K chr15_gold.txt.gz 2005-12-20 11:36 17K chr15_rmsk.txt.gz 2005-12-20 11:36 3.1M chr16_chainSelf.txt.gz 2005-12-20 11:37 1.1M chr16_chainSelfLink.txt.gz 2005-12-20 11:37 13M chr16_gap.txt.gz 2005-12-20 11:37 9.7K chr16_gold.txt.gz 2005-12-20 11:37 12K chr16_rmsk.txt.gz 2005-12-20 11:37 2.6M chr17_chainSelf.txt.gz 2005-12-20 11:38 901K chr17_chainSelfLink.txt.gz 2005-12-20 11:38 7.7M chr17_gap.txt.gz 2005-12-20 11:38 11K chr17_gold.txt.gz 2005-12-20 11:38 14K chr17_rmsk.txt.gz 2005-12-20 11:38 3.0M chr18_chainSelf.txt.gz 2005-12-20 11:41 1.3M chr18_chainSelfLink.txt.gz 2005-12-20 11:41 17M chr18_gap.txt.gz 2005-12-20 11:41 12K chr18_gold.txt.gz 2005-12-20 11:41 15K chr18_rmsk.txt.gz 2005-12-20 11:41 2.6M chr19_chainSelf.txt.gz 2005-12-20 11:42 936K chr19_chainSelfLink.txt.gz 2005-12-20 11:42 9.9M chr19_gap.txt.gz 2005-12-20 11:42 6.9K chr19_gold.txt.gz 2005-12-20 11:42 8.7K chr19_rmsk.txt.gz 2005-12-20 11:42 2.5M chr1_chainSelf.txt.gz 2005-12-20 11:44 2.0M chr1_chainSelfLink.txt.gz 2005-12-20 11:45 23M chr1_gap.txt.gz 2005-12-20 11:45 24K chr1_gold.txt.gz 2005-12-20 11:45 31K chr1_rmsk.txt.gz 2005-12-20 11:45 5.6M chr20_chainSelf.txt.gz 2005-12-20 11:46 1.1M chr20_chainSelfLink.txt.gz 2005-12-20 11:47 13M chr20_gap.txt.gz 2005-12-20 11:47 14K chr20_gold.txt.gz 2005-12-20 11:47 18K chr20_rmsk.txt.gz 2005-12-20 11:47 2.9M chr21_rmsk.txt.gz 2005-12-20 11:47 2.5M chr21_chainSelf.txt.gz 2005-12-20 11:48 1.0M chr21_chainSelfLink.txt.gz 2005-12-20 11:48 11M chr21_gap.txt.gz 2005-12-20 11:48 8.2K chr21_gold.txt.gz 2005-12-20 11:48 10K chr22_chainSelf.txt.gz 2005-12-20 11:49 1.0M chr22_chainSelfLink.txt.gz 2005-12-20 11:49 9.3M chr22_gap.txt.gz 2005-12-20 11:49 8.3K chr22_gold.txt.gz 2005-12-20 11:49 11K chr22_rmsk.txt.gz 2005-12-20 11:49 2.7M chr23_chainSelf.txt.gz 2005-12-20 11:50 959K chr23_chainSelfLink.txt.gz 2005-12-20 11:50 10M chr23_gap.txt.gz 2005-12-20 11:50 6.9K chr23_gold.txt.gz 2005-12-20 11:50 8.9K chr23_rmsk.txt.gz 2005-12-20 11:50 2.5M chr24_chainSelf.txt.gz 2005-12-20 11:51 509K chr24_chainSelfLink.txt.gz 2005-12-20 11:51 4.0M chr24_gap.txt.gz 2005-12-20 11:51 9.1K chr24_gold.txt.gz 2005-12-20 11:51 12K chr24_rmsk.txt.gz 2005-12-20 11:51 2.4M chr25_chainSelf.txt.gz 2005-12-20 11:52 1.0M chr25_chainSelfLink.txt.gz 2005-12-20 11:52 10M chr25_gap.txt.gz 2005-12-20 11:52 8.6K chr25_gold.txt.gz 2005-12-20 11:52 11K chr25_rmsk.txt.gz 2005-12-20 11:52 2.3M chr26_chainSelf.txt.gz 2005-12-20 11:52 777K chr26_chainSelfLink.txt.gz 2005-12-20 11:52 7.3M chr26_gap.txt.gz 2005-12-20 11:52 8.6K chr26_gold.txt.gz 2005-12-20 11:52 11K chr26_rmsk.txt.gz 2005-12-20 11:52 1.9M chr27_chainSelf.txt.gz 2005-12-20 11:53 1.0M chr27_chainSelfLink.txt.gz 2005-12-20 11:53 12M chr27_gap.txt.gz 2005-12-20 11:54 8.4K chr27_gold.txt.gz 2005-12-20 11:54 11K chr27_rmsk.txt.gz 2005-12-20 11:54 2.2M chr28_chainSelf.txt.gz 2005-12-20 11:54 518K chr28_chainSelfLink.txt.gz 2005-12-20 11:54 4.6M chr28_gap.txt.gz 2005-12-20 11:54 8.2K chr28_gold.txt.gz 2005-12-20 11:54 10K chr28_rmsk.txt.gz 2005-12-20 11:54 1.9M chr29_chainSelf.txt.gz 2005-12-20 11:55 728K chr29_chainSelfLink.txt.gz 2005-12-20 11:55 7.8M chr29_gap.txt.gz 2005-12-20 11:55 5.4K chr29_gold.txt.gz 2005-12-20 11:55 6.9K chr29_rmsk.txt.gz 2005-12-20 11:55 1.9M chr2_chainSelf.txt.gz 2005-12-20 11:56 1.2M chr2_chainSelfLink.txt.gz 2005-12-20 11:56 14M chr2_gap.txt.gz 2005-12-20 11:56 17K chr2_gold.txt.gz 2005-12-20 11:56 22K chr2_rmsk.txt.gz 2005-12-20 11:56 4.1M chr30_rmsk.txt.gz 2005-12-20 11:56 2.0M chr30_chainSelf.txt.gz 2005-12-20 11:57 738K chr30_chainSelfLink.txt.gz 2005-12-20 11:57 7.7M chr30_gap.txt.gz 2005-12-20 11:57 7.1K chr30_gold.txt.gz 2005-12-20 11:57 9.0K chr31_chainSelf.txt.gz 2005-12-20 11:58 616K chr31_chainSelfLink.txt.gz 2005-12-20 11:58 5.8M chr31_gap.txt.gz 2005-12-20 11:58 6.7K chr31_gold.txt.gz 2005-12-20 11:58 8.5K chr31_rmsk.txt.gz 2005-12-20 11:58 1.7M chr32_chainSelf.txt.gz 2005-12-20 11:58 800K chr32_chainSelfLink.txt.gz 2005-12-20 11:58 7.5M chr32_gap.txt.gz 2005-12-20 11:58 4.1K chr32_gold.txt.gz 2005-12-20 11:58 5.3K chr32_rmsk.txt.gz 2005-12-20 11:58 1.8M chr33_chainSelf.txt.gz 2005-12-20 11:59 643K chr33_chainSelfLink.txt.gz 2005-12-20 11:59 6.8M chr33_gap.txt.gz 2005-12-20 11:59 5.5K chr33_gold.txt.gz 2005-12-20 11:59 7.0K chr33_rmsk.txt.gz 2005-12-20 11:59 1.4M chr34_chainSelf.txt.gz 2005-12-20 11:59 612K chr34_chainSelfLink.txt.gz 2005-12-20 12:00 6.7M chr34_gap.txt.gz 2005-12-20 12:00 6.0K chr34_gold.txt.gz 2005-12-20 12:00 7.6K chr34_rmsk.txt.gz 2005-12-20 12:00 1.8M chr35_chainSelf.txt.gz 2005-12-20 12:00 526K chr35_chainSelfLink.txt.gz 2005-12-20 12:00 5.5M chr35_gap.txt.gz 2005-12-20 12:00 4.3K seq.txt.gz 2005-12-20 12:00 4.2M chr35_gold.txt.gz 2005-12-20 12:00 5.4K chr35_rmsk.txt.gz 2005-12-20 12:00 1.2M chr36_chainSelf.txt.gz 2005-12-20 12:01 463K chr36_chainSelfLink.txt.gz 2005-12-20 12:01 4.9M chr36_gap.txt.gz 2005-12-20 12:01 5.0K chr36_gold.txt.gz 2005-12-20 12:01 6.4K chr36_rmsk.txt.gz 2005-12-20 12:01 1.4M chr37_chainSelf.txt.gz 2005-12-20 12:01 476K chr37_chainSelfLink.txt.gz 2005-12-20 12:01 4.8M chr37_gap.txt.gz 2005-12-20 12:01 5.3K chr37_gold.txt.gz 2005-12-20 12:01 6.8K chr37_rmsk.txt.gz 2005-12-20 12:01 1.4M chr38_chainSelf.txt.gz 2005-12-20 12:02 444K chr38_chainSelfLink.txt.gz 2005-12-20 12:02 4.5M chr38_gap.txt.gz 2005-12-20 12:02 4.8K chr38_gold.txt.gz 2005-12-20 12:02 6.1K chr38_rmsk.txt.gz 2005-12-20 12:02 1.1M chr3_chainSelf.txt.gz 2005-12-20 12:03 1.3M chr3_chainSelfLink.txt.gz 2005-12-20 12:03 13M chr3_gap.txt.gz 2005-12-20 12:03 15K chr3_gold.txt.gz 2005-12-20 12:03 19K chr3_rmsk.txt.gz 2005-12-20 12:03 4.2M chr4_rmsk.txt.gz 2005-12-20 12:03 4.2M chr4_chainSelf.txt.gz 2005-12-20 12:04 1.2M chr4_chainSelfLink.txt.gz 2005-12-20 12:04 12M chr4_gap.txt.gz 2005-12-20 12:05 13K chr4_gold.txt.gz 2005-12-20 12:05 17K chr5_chainSelf.txt.gz 2005-12-20 12:06 1.1M chr5_chainSelfLink.txt.gz 2005-12-20 12:06 13M chr5_gap.txt.gz 2005-12-20 12:06 18K chr5_gold.txt.gz 2005-12-20 12:06 23K chr5_rmsk.txt.gz 2005-12-20 12:06 4.2M chr6_chainSelf.txt.gz 2005-12-20 12:07 1.1M chr6_chainSelfLink.txt.gz 2005-12-20 12:07 12M chr6_gap.txt.gz 2005-12-20 12:08 16K chr6_gold.txt.gz 2005-12-20 12:08 20K chr6_rmsk.txt.gz 2005-12-20 12:08 3.8M chr7_chainSelf.txt.gz 2005-12-20 12:08 1.3M chr7_chainSelfLink.txt.gz 2005-12-20 12:09 14M chr7_gap.txt.gz 2005-12-20 12:09 13K chr7_gold.txt.gz 2005-12-20 12:09 16K chr7_rmsk.txt.gz 2005-12-20 12:09 3.7M chr8_chainSelf.txt.gz 2005-12-20 12:10 1.4M chr8_chainSelfLink.txt.gz 2005-12-20 12:10 13M chr8_gap.txt.gz 2005-12-20 12:10 13K chr8_gold.txt.gz 2005-12-20 12:10 16K chr8_rmsk.txt.gz 2005-12-20 12:10 3.5M chr9_chainSelf.txt.gz 2005-12-20 12:11 723K chr9_chainSelfLink.txt.gz 2005-12-20 12:11 6.7M chr9_gap.txt.gz 2005-12-20 12:11 15K chr9_gold.txt.gz 2005-12-20 12:11 19K chr9_rmsk.txt.gz 2005-12-20 12:11 3.0M chrM_chainSelf.txt.gz 2005-12-20 12:11 2.0K chrM_chainSelfLink.txt.gz 2005-12-20 12:11 18K chrM_gap.txt.gz 2005-12-20 12:11 33 chrM_rmsk.txt.gz 2005-12-20 12:11 263 chrUn_gap.txt.gz 2005-12-20 12:13 97K chrUn_gold.txt.gz 2005-12-20 12:13 131K chrUn_rmsk.txt.gz 2005-12-20 12:13 2.6M chrX_chainSelf.txt.gz 2005-12-20 12:14 2.8M chrX_chainSelfLink.txt.gz 2005-12-20 12:15 30M chrX_gap.txt.gz 2005-12-20 12:15 24K chrX_gold.txt.gz 2005-12-20 12:15 32K chrX_rmsk.txt.gz 2005-12-20 12:15 6.1M chromInfo.txt.gz 2005-12-20 12:15 366 cpgIslandExt.txt.gz 2005-12-20 12:15 1.0M extFile.txt.gz 2005-12-20 12:15 761 gc5Base.txt.gz 2005-12-20 12:16 9.4M genscan.txt.gz 2005-12-20 12:16 3.0M genscanPep.txt.gz 2005-12-20 12:16 11M multiz4way.txt.gz 2005-12-20 12:18 72M phastCons4way.txt.gz 2005-12-20 12:26 67M phastConsElements4way.txt.gz 2005-12-20 12:26 11M quality.txt.gz 2005-12-20 12:27 38M simpleRepeat.txt.gz 2005-12-20 12:28 14M uncertified.txt.gz 2005-12-20 12:28 11K contigAcc.txt.gz 2006-01-08 07:16 178K multiz4waySummary.txt.gz 2006-05-24 05:57 15M nscanGene.sql 2006-06-10 06:46 2.0K nscanGene.txt.gz 2006-06-10 06:46 2.2M chr10_chainRn4.sql 2006-06-21 06:48 1.6K chr10_chainRn4.txt.gz 2006-06-21 06:48 1.0M chr10_chainRn4Link.sql 2006-06-21 06:48 1.4K chr10_chainRn4Link.txt.gz 2006-06-21 06:48 12M chr11_chainRn4.sql 2006-06-21 06:49 1.6K chr11_chainRn4.txt.gz 2006-06-21 06:49 1.1M netRn4.sql 2006-06-21 06:49 2.2K netRn4.txt.gz 2006-06-21 06:50 66M chr11_chainRn4Link.sql 2006-06-21 06:51 1.4K chr11_chainRn4Link.txt.gz 2006-06-21 06:51 15M chr12_chainRn4.sql 2006-06-21 06:52 1.6K chr12_chainRn4.txt.gz 2006-06-21 06:52 594K chr12_chainRn4Link.sql 2006-06-21 06:52 1.4K chr12_chainRn4Link.txt.gz 2006-06-21 06:52 9.8M chr13_chainRn4.sql 2006-06-21 06:52 1.6K chr13_chainRn4.txt.gz 2006-06-21 06:52 478K chr13_chainRn4Link.sql 2006-06-21 06:52 1.4K chr13_chainRn4Link.txt.gz 2006-06-21 06:52 8.7M chr14_chainRn4.sql 2006-06-21 06:52 1.6K chr14_chainRn4.txt.gz 2006-06-21 06:52 1.4M chr14_chainRn4Link.sql 2006-06-21 06:52 1.4K chr14_chainRn4Link.txt.gz 2006-06-21 06:52 16M chr15_chainRn4.sql 2006-06-21 06:52 1.6K chr15_chainRn4.txt.gz 2006-06-21 06:52 1.0M chr15_chainRn4Link.sql 2006-06-21 06:52 1.4K chr15_chainRn4Link.txt.gz 2006-06-21 06:53 13M chr16_chainRn4.sql 2006-06-21 06:53 1.6K chr16_chainRn4.txt.gz 2006-06-21 06:53 1.0M chr16_chainRn4Link.sql 2006-06-21 06:53 1.4K chr16_chainRn4Link.txt.gz 2006-06-21 06:53 11M chr17_chainRn4.sql 2006-06-21 06:53 1.6K chr17_chainRn4.txt.gz 2006-06-21 06:53 886K chr17_chainRn4Link.sql 2006-06-21 06:53 1.4K chr17_chainRn4Link.txt.gz 2006-06-21 06:53 11M chr18_chainRn4.sql 2006-06-21 06:53 1.6K chr18_chainRn4.txt.gz 2006-06-21 06:53 6.3M chr18_chainRn4Link.sql 2006-06-21 06:53 1.4K chr18_chainRn4Link.txt.gz 2006-06-21 06:54 37M chr19_chainRn4.sql 2006-06-21 06:54 1.6K chr19_chainRn4.txt.gz 2006-06-21 06:54 366K chr19_chainRn4Link.sql 2006-06-21 06:54 1.4K chr19_chainRn4Link.txt.gz 2006-06-21 06:54 6.4M chr1_chainRn4.sql 2006-06-21 06:54 1.6K chr1_chainRn4.txt.gz 2006-06-21 06:55 1.7M chr1_chainRn4Link.sql 2006-06-21 06:55 1.4K chr1_chainRn4Link.txt.gz 2006-06-21 06:55 18M chr20_chainRn4.sql 2006-06-21 06:55 1.6K chr20_chainRn4.txt.gz 2006-06-21 06:55 2.3M chr20_chainRn4Link.sql 2006-06-21 06:55 1.4K chr20_chainRn4Link.txt.gz 2006-06-21 06:55 20M chr21_chainRn4.sql 2006-06-21 06:55 1.6K chr21_chainRn4.txt.gz 2006-06-21 06:56 2.9M chr21_chainRn4Link.sql 2006-06-21 06:56 1.4K chr21_chainRn4Link.txt.gz 2006-06-21 06:56 17M chr22_chainRn4.sql 2006-06-21 06:56 1.6K chr22_chainRn4.txt.gz 2006-06-21 06:56 425K chr22_chainRn4Link.sql 2006-06-21 06:56 1.4K chr22_chainRn4Link.txt.gz 2006-06-21 06:56 7.9M chr23_chainRn4.sql 2006-06-21 06:56 1.6K chr23_chainRn4.txt.gz 2006-06-21 06:56 377K chr23_chainRn4Link.sql 2006-06-21 06:56 1.4K chr23_chainRn4Link.txt.gz 2006-06-21 06:56 6.9M chr24_chainRn4.sql 2006-06-21 06:56 1.6K chr24_chainRn4.txt.gz 2006-06-21 06:56 325K chr24_chainRn4Link.sql 2006-06-21 06:56 1.4K chr24_chainRn4Link.txt.gz 2006-06-21 06:56 6.6M chr25_chainRn4.sql 2006-06-21 06:57 1.6K chr25_chainRn4.txt.gz 2006-06-21 06:57 681K chr25_chainRn4Link.sql 2006-06-21 06:57 1.4K chr25_chainRn4Link.txt.gz 2006-06-21 06:57 8.8M chr26_chainRn4.sql 2006-06-21 06:57 1.6K chr26_chainRn4.txt.gz 2006-06-21 06:57 430K chr26_chainRn4Link.sql 2006-06-21 06:57 1.4K chr26_chainRn4Link.txt.gz 2006-06-21 06:57 4.5M chr27_chainRn4.sql 2006-06-21 06:57 1.6K chr27_chainRn4.txt.gz 2006-06-21 06:57 1.5M chr27_chainRn4Link.sql 2006-06-21 06:57 1.4K chr27_chainRn4Link.txt.gz 2006-06-21 06:57 13M chr28_chainRn4.sql 2006-06-21 06:57 1.6K chr28_chainRn4.txt.gz 2006-06-21 06:57 495K chr28_chainRn4Link.sql 2006-06-21 06:57 1.4K chr28_chainRn4Link.txt.gz 2006-06-21 06:57 7.2M chr29_chainRn4.sql 2006-06-21 06:57 1.6K chr29_chainRn4.txt.gz 2006-06-21 06:57 431K chr29_chainRn4Link.sql 2006-06-21 06:57 1.4K chr29_chainRn4Link.txt.gz 2006-06-21 06:58 6.0M chr2_chainRn4.sql 2006-06-21 06:58 1.6K chr2_chainRn4.txt.gz 2006-06-21 06:58 939K chr2_chainRn4Link.sql 2006-06-21 06:58 1.4K chr2_chainRn4Link.txt.gz 2006-06-21 06:58 13M chr30_chainRn4.sql 2006-06-21 06:58 1.6K chr30_chainRn4.txt.gz 2006-06-21 06:58 761K chr30_chainRn4Link.sql 2006-06-21 06:58 1.4K chr30_chainRn4Link.txt.gz 2006-06-21 06:58 8.8M chr31_chainRn4.sql 2006-06-21 06:58 1.6K chr31_chainRn4.txt.gz 2006-06-21 06:58 500K chr31_chainRn4Link.sql 2006-06-21 06:58 1.4K chr31_chainRn4Link.txt.gz 2006-06-21 06:58 5.2M chr32_chainRn4.sql 2006-06-21 06:58 1.6K chr32_chainRn4.txt.gz 2006-06-21 06:58 305K chr32_chainRn4Link.sql 2006-06-21 06:58 1.4K chr32_chainRn4Link.txt.gz 2006-06-21 06:58 5.3M chr33_chainRn4.sql 2006-06-21 06:58 1.6K chr33_chainRn4.txt.gz 2006-06-21 06:58 458K chr33_chainRn4Link.sql 2006-06-21 06:58 1.4K chr33_chainRn4Link.txt.gz 2006-06-21 06:59 6.7M chr34_chainRn4.sql 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