In article <jamei-1012981358300001 at marigold.ri.mgh.mcgill.ca> jamei at med.mcgill.ca (Jamie Engert) writes:
> We are currently using Staden to build seq. contigs and are able to
>identify Alu sequences and have them highlighted in our contig. I would
>like to also highlight MERS and other repetitive seqs. I have downloaded
>repbase and can extract the seqs., but where should they go? In the Alu
>folder in the tables directory? Will i be able to idetify the type of
>repeat in the contig. Any pointers appreciated.
Please see the latest Pregap4 distribution (URL below) as this
includes an interface to RepeatMasker, which is certainly a lot more
configurable than rep (or repe, which is the version you should be
using).
http://www.mrc-lmb.cam.ac.uk/pubseq/pregap4.html
James
--
James Bonfield (jkb at mrc-lmb.cam.ac.uk) Tel: 01223 402499 Fax: 01223 213556
Medical Research Council - Laboratory of Molecular Biology,
Hills Road, Cambridge, CB2 2QH, England.
Also see Staden Package WWW site at http://www.mrc-lmb.cam.ac.uk/pubseq/
