This directory contains the Apis mellifera Amel_2.0 assembly
(apiMel2, Jan. 2005) from the Baylor College of Medicine HGSC Honey
Bee Genome Project. For more information, see the Baylor website:
http://www.hgsc.bcm.tmc.edu/projects/honeybee/.
Files included in this directory:
md5sum.txt - Checksums of the files in this directory.
apiMel2.2bit - contains the complete A. mellifera/apiMel2 genome sequence
in the 2bit file format. Repeats from RepeatMasker and Tandem Repeats
Finder (with period of 12 or less) are shown in lower case; non-repeating
sequence is shown in upper case. The utility program, twoBitToFa (available
from the kent src tree), can be used to extract .fa file(s) from
this file. A pre-compiled version of the command line tool can be
found at:
http://hgdownload.cse.ucsc.edu/admin/exe/linux.x86_64/
See also:
http://genome.ucsc.edu/admin/git.html
http://genome.ucsc.edu/admin/jk-install.html
GroupAgp.zip - Description of how the working draft was generated from
fragments at a linkage group layout level.
GroupFa.zip - The working draft sequence in one file per linkage group.
Repeats from RepeatMasker and Tandem Repeats Finder (with period
of 12 or less) are in lower case while non-repeating sequence is
in upper case.
GroupFaMasked.zip - The working draft sequence in one file per
linkage group. Repeats are masked by capital Ns and non-repeating
sequence is shown in upper case.
GroupOut.zip - RepeatMasker .out file for linkage groups. These were
created with RepeatMasker at the -s sensitive setting.
GroupTrf.zip - Tandem Repeats Finder locations, filtered to keep repeats
with period less than or equal to 12, translated into one .bed file.
apiMel2.chrom.sizes - Two-column tab-separated text file containing assembly
sequence names and sizes.
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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/apiMel2/bigZips. To download multiple files, use
the "mget" command:
mget <filename1> <filename2> ...
- or -
mget -a (to download all the files in the directory)
For conditions of use regarding these data, see
http://www.hgsc.bcm.tmc.edu/projects/conditions_for_use.html.
Name Last modified Size Description
Parent Directory -
apiMel2.chrom.sizes 2005-02-05 03:35 273
apiMel2.2bit 2005-02-08 02:25 123M
GroupFa.zip 2005-02-28 15:43 69M
GroupFaMasked.zip 2005-02-28 15:43 62M
GroupOut.zip 2005-02-28 15:43 10M
GroupTrf.zip 2005-02-28 16:04 1.1M
GroupAgp.zip 2005-02-28 16:31 399K
md5sum.txt 2014-02-03 11:05 239
mrna.fa.gz 2019-10-14 20:33 51M
mrna.fa.gz.md5 2019-10-14 20:33 45
xenoMrna.fa.gz 2019-10-14 20:43 6.7G
xenoMrna.fa.gz.md5 2019-10-14 20:43 49
est.fa.gz 2019-10-14 20:48 13M
est.fa.gz.md5 2019-10-14 20:48 44
xenoRefMrna.fa.gz 2019-10-14 20:48 330M
xenoRefMrna.fa.gz.md5 2019-10-14 20:48 52
apiMel2.fa.gz 2020-01-23 02:17 69M