This directory contains the Drosophila virilis 1 August 2005 assembly
from Agencourt. The annotations are from UCSC and collaborators worldwide.
If you plan to download a large file or multiple files from
this directory, we recommend that 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/droVir2/bigZips. To download multiple files, use
the "mget" command:
mget <filename1> <filename2> ...
- or -
mget -a (to download all the files in the directory)
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droVir2.2bit - contains the complete D. virilis/droVir2 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
est.fa.gz - D. virilis ESTs in GenBank. This sequence data is updated once a
week via automatic GenBank updates.
md5sum.txt - MD5 checksum of these files to verify correct transmission.
mrna.fa.gz - D. virilis mRNA from GenBank. This sequence data is updated
once a week via automatic GenBank updates.
refMrna.fa.gz - RefSeq mRNA from the same species as the genome.
This sequence data is updated once a week via automatic GenBank
updates.
scaffoldFa.gz - The working draft sequence in one FASTA record per scaffold.
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.
scaffoldFaMasked.gz - The working draft sequence in one FASTA record per
scaffold. Repeats are masked by capital N's and non-repeating
sequence is shown in upper case.
scaffoldOut.gz - RepeatMasker .out file for scaffolds. These were
created with RepeatMasker at the -s sensitive setting.
scaffoldTrf.gz - Tandem Repeats Finder locations, filtered to keep repeats
with period less than or equal to 12, translated into one .bed file.
xenoMrna.fa.gz - GenBank mRNAs from species other than that of
the genome. This sequence data is updated once a week via automatic
GenBank updates.
Name Last modified Size Description
Parent Directory -
droVir2.2bit 2005-08-11 22:42 52M
droVir2.chrom.sizes 2005-08-11 22:42 253K
scaffoldOut.gz 2005-08-11 22:51 5.9M
scaffoldFa.gz 2005-08-11 22:51 55M
scaffoldFaMasked.gz 2005-08-11 22:52 47M
scaffoldTrf.gz 2005-08-11 22:52 1.2M
md5sum.txt 2014-02-03 11:48 247
xenoMrna.fa.gz 2016-03-19 06:33 5.0G
xenoMrna.fa.gz.md5 2016-03-19 06:33 49
mrna.fa.gz 2019-10-15 17:53 54K
mrna.fa.gz.md5 2019-10-15 17:53 45
est.fa.gz 2019-10-15 17:57 6.0M
est.fa.gz.md5 2019-10-15 17:57 44
xenoRefMrna.fa.gz 2019-10-15 17:58 331M
xenoRefMrna.fa.gz.md5 2019-10-15 17:58 52
refMrna.fa.gz 2019-10-15 17:58 20
refMrna.fa.gz.md5 2019-10-15 17:58 48
droVir2.fa.gz 2020-01-23 02:21 55M