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This directory contains compressed multiple alignments of 241 mammalian
species and measurements of evolutionary conservation from the Zoonomia Project

This track shows multiple alignments of 241 vertebrate species and measurements of evolutionary conservation from the Zoonomia Project.


The multiple alignments were generated using the Cactus comparative genomics
alignment system. Cactus produces reference-free, whole-genome multiple

The base-wise conservation scores are computed using phyloP from the PHAST
package, for all species.  This version was prepared by
Michael Dong (Uppsala U) with an improved neutral model incorporating better
versions of ancestral repeats. 

Please note the table of species in the description page for the track:
Files in this directory:

hg38.cactus241way.scientificNames.nh - phylogenetic tree used during the
                                     - cactus multiple alignment

hg38.cactus241way.nh - some of the species translate to UCSC database
                     - equivalents.  Tree used for display in the genome
                     - browser, identical to the scientificNames tree. - PhyloP scores in bigWig format files:
   See also:
   for bigWig format description

hg38.cactus241way.phyloP.wigFix.gz - PhyloP scores in fixed step wiggle format

md5sum.txt - md5sum checksums for the files in this directory

For a description of the fixed step wiggle data file format, see:

The maf/chr*.maf.gz files each contain all the alignments to that particular
human chromosome.  Beware, the compressed data size of these files
is about 1.2 Tb, uncompressed size is about 9.1 Tb.

The maf/md5sum.txt - md5sum checksums for the files in the maf directory

Please note the table of species in the description page for the track:
To download a large file or multiple files from this directory, we recommend
that you use rsync or ftp rather than downloading the files via our website.
There is approximately 1.2 Tb of compressed data in this directory,
uncompressed approximately 9.1 Tb.

Via rsync:
rsync -avz --progress \
        rsync:// ./

Via FTP:
    user name: anonymous
    password: <your email address>
    go to the directory goldenPath/hg38/cactus241way

To download multiple files from the UNIX command line, use the "mget" command.
    mget <filename1> <filename2> ...
    - or -
    mget -a (to download all the files in the directory)
Use the "prompt" command to toggle the interactive mode if you do not want
to be prompted for each file that you download.
All the files in this directory are freely usable for any
purpose. For data use restrictions regarding the individual
genome assemblies, see
      Name                                 Last modified      Size  Description
Parent Directory - alignments/ 2022-04-19 17:10 - cactus241way.bigMaf 2021-09-13 10:40 1.1T 2021-05-10 12:28 9.0G 2021-08-06 13:29 216M 2022-08-23 17:13 21G 2021-06-30 11:01 4.0M hg38.cactus241way.nh 2020-12-15 23:12 11K 2021-05-10 12:28 9.0G hg38.cactus241way.phyloP.wigFix.gz 2021-05-10 11:22 5.4G hg38.cactus241way.scientificNames.nh 2020-12-15 22:39 11K maf/ 2021-05-14 11:40 - md5sum.txt 2021-05-14 12:07 257 phyloP241way/ 2022-12-08 15:37 -