How to transfer the oligo database from MacVec tor to a web-based blast database

Tue, 06 Mar 2007 00:00:00 +0000

Save all sequences in one flatfile format (NOT MacVector format), e.g. genbank format.2. Copy all sequences to a Linux/UNIX computer and convert them from Mac format to UNIX format: mac2unix *.gb3. Write all sequence fiule names into one file: ls *.gb > oligo.lst4. Convert all sequences into one file of concatenated fasta entries using EMBOSS: seqret -sequence @oligo.lst -osformat fasta. Call the output file “mcbl_oligo_db"5. Put this fasta file into the blast web servers database directory (…/blast/db)6. Format the database: formatdb -i mcbl_oligo_db -p F -o T7. Edit …/blast/blast.html by adding the new database name8. Edit …/blast/blast.rc by adding the new database name

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