This file is from: http://hgdownload.soe.ucsc.edu/goldenPath/wuhCor1/phastCons44way/README.txt This directory contains compressed phastCons scores for multiple alignments of 44 coronavirus sequences Files in this directory: md5sum.txt - md5 sums to verify copied files wuhCor1.44way.nameList.txt - relating the accession name to sequence name, and sample collection date wuhCor1.phastCons44way.mod - phastCons tree model for the 44 sequences wuhCor1.phastCons44way.wigFix.gz - scores in fixed step wiggle format wuhCor1.phastCons44way.bw - scores in bigWig format files See also: http://genome.ucsc.edu/FAQ/FAQformat.html#format6.1 for bigWig format description For a description of the phastCons fixed step wiggle data file format, see: http://genome.ucsc.edu/goldenPath/help/phastCons.html The phyloP data can be found at: http://hgdownload.soe.ucsc.edu/goldenPath/wuhCor1/phyloP44way/ The multiple alignments and methods description are at: http://hgdownload.soe.ucsc.edu/goldenPath/wuhCor1/multiz44way/ For more information about this data, see the track description for the Conservation track: http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=wuhCor1&g=cons44way --------------------------------------------------------------- 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. Via rsync: rsync -avz --progress \ rsync://hgdownload.soe.ucsc.edu/goldenPath/wuhCor1/phastCons44way/ ./ Via FTP: ftp hgdownload.soe.ucsc.edu user name: anonymous password: go to the directory goldenPath/wuhCor1/phastCons44way To download multiple files from the UNIX command line, use the "mget" command. mget ... - 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 available for public use. For data use restrictions regarding the genome assemblies used in this annotation, see http://genome.ucsc.edu/goldenPath/credits.html. --------------------------------------------------------------- References for phastCons and phyloP: Pollard KS, Hubisz MJ, Siepel A. Detection of non-neutral substitution rates on mammalian phylogenies. Genome Res. 2010 Jan;20(1):110-21. (http://genome.cshlp.org/content/20/1/110.long) Siepel A, Bejerano G, Pedersen JS, Hinrichs AS, Hou M, Rosenbloom K, Clawson H, Spieth J, Hillier LW, Richards S, et al. Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes. Genome Res. 2005 Aug;15(8):1034-50. (http://genome.cshlp.org/content/15/8/1034) ---------------------------------------------------------------