This directory contains the Sept. 2005 assembly of the T. castaneum genome (triCas2, Baylor), as well as repeat annotations and GenBank sequences. This assembly was produced by the Baylor College of Medicine Human Genome Sequencing Center. For more information on the T. castaneum genome, see the project website: http://www.hgsc.bcm.tmc.edu/projects/tribolium/ Files included in this directory: triCas2.agp.gz - Description of how the assembly was generated from fragments. triCas2.fa.gz - "Soft-masked" assembly sequence in one file. 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. triCas2.ga.masked.gz - "Hard-masked" assembly sequence in one file. Repeats are masked by capital Ns; non-repeating sequence is shown in upper case. triCas2.fa.out.gz - RepeatMasker .out file. The May 3 2005 (open-3-1-0) version of RepeatMasker was used with the RepBase Update 9.11 library, RM database version 20050112. triCas2.trf.bed.gz - Tandem Repeats Finder locations, filtered to keep repeats with period less than or equal to 12, and translated into UCSC's BED format. md5sum.txt - checksums of files in this directory triCas2.chrom.sizes - Two-column tab-separated text file containing assembly sequence names and sizes. ------------------------------------------------------------------ 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/triCas2/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 the T. castaneum genome sequence data, see http://www.hgsc.bcm.tmc.edu/projects/conditions_for_use.html .
Name Last modified Size Description
Parent Directory - md5sum.txt 2006-10-26 16:01 257 triCas2.agp.gz 2006-10-26 15:59 218K triCas2.chrom.sizes 2005-10-22 21:58 97K triCas2.fa.gz 2006-10-26 16:00 45M triCas2.fa.masked.gz 2006-10-26 16:01 44M triCas2.fa.out.gz 2006-10-26 15:59 2.2M triCas2.trf.bed.gz 2006-10-26 15:59 136K