This file is from:
    http://hgdownload.cse.ucsc.edu/goldenPath/hg18/multiz44way/maf/README.txt

Fetch this data from:

ftp://hgdownload.cse.ucsc.edu/goldenPath/hg18/multiz44way/maf/

or via rsync:

rsync -avz --progress \
	rsync://hgdownload.cse.ucsc.edu/goldenPath/hg18/multiz44way/maf/ ./

Please note, the maf.gz files here are 31 Gb compressed data.
They uncompress to 238 Gb of data.

These files contain gap annotations and quality annotations.
There are 38 species with quality annotations.

Genomes with no quality annotations are:
Human/hg18, Mouse/mm9, Frog/xenTro2, Tetraodon/tetNig1, Fugu/fr2
    and Zebrafish/danRer5

Listing of these maf files when uncompressed:

-rw-rw-r-- 1 22558800409 Dec  4 14:56 chr2.maf
-rw-rw-r-- 1 20948913417 Dec  4 19:18 chr1.maf
-rw-rw-r-- 1 18791345654 Dec  4 14:16 chr3.maf
-rw-rw-r-- 1 16430114048 Dec  4 23:30 chr5.maf
-rw-rw-r-- 1 16311140129 Dec  4 14:04 chr4.maf
-rw-rw-r-- 1 15757411106 Dec  4 14:01 chr6.maf
-rw-rw-r-- 1 13452354808 Dec  4 13:55 chr7.maf
-rw-rw-r-- 1 12707139537 Dec  4 13:39 chr8.maf
-rw-rw-r-- 1 12166471464 Dec  4 20:05 chr10.maf
-rw-rw-r-- 1 11992322991 Dec  4 13:43 chr11.maf
-rw-rw-r-- 1 11808918482 Dec  4 13:40 chr12.maf
-rw-rw-r-- 1 10577525384 Dec  4 13:29 chr9.maf
-rw-rw-r-- 1 10048415073 Dec  4 13:47 chrX.maf
-rw-rw-r-- 1  8714651453 Dec  4 13:04 chr13.maf
-rw-rw-r-- 1  8331551709 Dec  4 17:30 chr14.maf
-rw-rw-r-- 1  7329198485 Dec  4 13:00 chr15.maf
-rw-rw-r-- 1  7306769575 Dec  4 13:02 chr17.maf
-rw-rw-r-- 1  7052284708 Dec  4 12:53 chr16.maf
-rw-rw-r-- 1  7004199978 Dec  4 12:39 chr18.maf
-rw-rw-r-- 1  5600439876 Dec  4 12:31 chr20.maf
-rw-rw-r-- 1  3475516157 Dec  4 12:50 chr19.maf
-rw-rw-r-- 1  2824712961 Dec  4 11:49 chr21.maf
-rw-rw-r-- 1  2716270988 Dec  4 12:06 chr22.maf
-rw-rw-r-- 1   304230769 Dec  4 11:20 chrY.maf
-rw-rw-r-- 1   105533048 Dec  4 10:40 chr6_cox_hap1.maf
-rw-rw-r-- 1    93123449 Dec  4 10:39 chr6_qbl_hap2.maf
-rw-rw-r-- 1    65926244 Dec  4 10:40 chr6_random.maf
-rw-rw-r-- 1    44090081 Dec  4 10:36 chr17_random.maf
-rw-rw-r-- 1    36840862 Dec  4 10:37 chr5_h2_hap1.maf
-rw-rw-r-- 1    27638870 Dec  4 10:37 chr1_random.maf
-rw-rw-r-- 1    22704103 Dec  4 10:38 chrX_random.maf
-rw-rw-r-- 1    21252240 Dec  4 10:37 chr3_random.maf
-rw-rw-r-- 1    14399909 Dec  4 10:39 chr21_random.maf
-rw-rw-r-- 1    12329431 Dec  4 10:38 chr4_random.maf
-rw-rw-r-- 1     7241098 Dec  4 10:37 chr7_random.maf
-rw-rw-r-- 1     7216970 Dec  4 10:37 chr8_random.maf
-rw-rw-r-- 1     7035942 Dec  4 10:34 chr15_random.maf
-rw-rw-r-- 1     5669947 Dec  4 10:37 chr9_random.maf
-rw-rw-r-- 1     5573175 Dec  4 10:36 chr2_random.maf
-rw-rw-r-- 1     4152732 Dec  4 10:37 chr13_random.maf
-rw-rw-r-- 1     3989700 Dec  4 10:37 chr22_random.maf
-rw-rw-r-- 1     2550081 Dec  4 10:36 chr5_random.maf
-rw-rw-r-- 1     2527814 Dec  4 10:36 chr11_random.maf
-rw-rw-r-- 1     2161466 Dec  4 10:34 chr19_random.maf
-rw-rw-r-- 1     1934303 Dec  4 10:34 chr16_random.maf
-rw-rw-r-- 1     1599856 Dec  4 10:36 chr22_h2_hap1.maf
-rw-rw-r-- 1     1510665 Dec  4 10:35 chrM.maf
-rw-rw-r-- 1      791355 Dec  4 10:36 chr10_random.maf
-rw-rw-r-- 1      288891 Dec  4 10:33 chr18_random.maf
      Name                          Last modified      Size  Description
Parent Directory - chr1.maf.gz 2008-12-04 19:18 2.5G chr1_random.maf.gz 2008-12-04 10:37 3.9M chr2.maf.gz 2008-12-04 14:56 2.7G chr2_random.maf.gz 2008-12-04 10:36 751K chr3.maf.gz 2008-12-04 14:16 2.3G chr3_random.maf.gz 2008-12-04 10:37 3.1M chr4.maf.gz 2008-12-04 14:04 2.0G chr4_random.maf.gz 2008-12-04 10:38 1.8M chr5.maf.gz 2008-12-04 23:30 2.0G chr5_h2_hap1.maf.gz 2008-12-04 10:37 5.0M chr5_random.maf.gz 2008-12-04 10:36 374K chr6.maf.gz 2008-12-04 14:01 1.9G chr6_cox_hap1.maf.gz 2008-12-04 10:40 15M chr6_qbl_hap2.maf.gz 2008-12-04 10:39 13M chr6_random.maf.gz 2008-12-04 10:40 9.2M chr7.maf.gz 2008-12-04 13:55 1.6G chr7_random.maf.gz 2008-12-04 10:37 1.1M chr8.maf.gz 2008-12-04 13:39 1.5G chr8_random.maf.gz 2008-12-04 10:37 1.1M chr9.maf.gz 2008-12-04 13:29 1.3G chr9_random.maf.gz 2008-12-04 10:37 853K chr10.maf.gz 2008-12-04 20:05 1.5G chr10_random.maf.gz 2008-12-04 10:36 127K chr11.maf.gz 2008-12-04 13:43 1.4G chr11_random.maf.gz 2008-12-04 10:36 385K chr12.maf.gz 2008-12-04 13:40 1.4G chr13.maf.gz 2008-12-04 13:04 1.0G chr13_random.maf.gz 2008-12-04 10:37 642K chr14.maf.gz 2008-12-04 17:30 1.0G chr15.maf.gz 2008-12-04 13:00 892M chr15_random.maf.gz 2008-12-04 10:34 1.1M chr16.maf.gz 2008-12-04 12:53 861M chr16_random.maf.gz 2008-12-04 10:34 273K chr17.maf.gz 2008-12-04 13:02 883M chr17_random.maf.gz 2008-12-04 10:36 6.2M chr18.maf.gz 2008-12-04 12:39 862M chr18_random.maf.gz 2008-12-04 10:33 48K chr19.maf.gz 2008-12-04 12:50 421M chr19_random.maf.gz 2008-12-04 10:34 308K chr20.maf.gz 2008-12-04 12:31 688M chr21.maf.gz 2008-12-04 11:49 354M chr21_random.maf.gz 2008-12-04 10:39 2.3M chr22.maf.gz 2008-12-04 12:06 335M chr22_h2_hap1.maf.gz 2008-12-04 10:36 229K chr22_random.maf.gz 2008-12-04 10:37 617K chrM.maf.gz 2008-12-04 10:35 257K chrX.maf.gz 2008-12-04 13:47 1.2G chrX_random.maf.gz 2008-12-04 10:38 3.2M chrY.maf.gz 2008-12-04 11:20 43M md5sum.txt 2009-01-27 13:09 2.4K upstream1000.maf.gz 2020-02-28 06:26 399M upstream1000.maf.gz.md5 2020-02-28 06:26 54 upstream2000.maf.gz 2020-02-28 06:59 713M upstream2000.maf.gz.md5 2020-02-28 06:59 54 upstream5000.maf.gz 2020-02-28 07:53 1.5G upstream5000.maf.gz.md5 2020-02-28 07:53 54