]> Strips out DNA between a pair of vector sequences (EMBOSS) edit http://bioweb.pasteur.fr/docs/EMBOSS/vectorstrip.html vectorstrip &emboss_init; input Input section sequence sequence -- dna [sequences] (-sequence) perl " -sequence=$value -sformat=fasta" 1 dna 8 seqsfile perl 1 vectorfilesection Vector input options vectorfile Are your vector sequences in a file? (-vectorfile) 1 perl ($value)? "" : " -novectorfile" 2 vectorsfile Name of vectorfile (-vectorsfile) perl $vectorfile acd $vectorfile perl ($value)? " -vectorsfile=$value" : "" 3 required Required section mismatch Max allowed % mismatch (-mismatch) 10 perl " -mismatch=$value" 4 besthits Show only the best hits (minimise mismatches)? (-besthits) 1 perl ($value)? "" : " -nobesthits" 5 advanced Advanced section linkera 5' sequence (-linkera) acd @(!$(vectorfile)) perl ($value)? " -linkera=$value" : "" 6 linkerb 3' sequence (-linkerb) acd @(!$(vectorfile)) perl ($value)? " -linkerb=$value" : "" 7 output Output section outfile outfile (-outfile) outfile.out perl " -outfile=$value" 8 outseq outseq (-outseq) outseq.out perl " -outseq=$value" 9 seqsfile perl 1 outseq_sformat Output format for: outseq fasta fasta gcg gcg phylip phylip embl embl swiss swiss ncbi ncbi nbrf nbrf genbank genbank ig ig codata codata strider strider acedb acedb staden staden text text fitch fitch msf msf clustal clustal phylip phylip phylip3 phylip3 asn1 asn1 fasta perl " -osformat=$value" 10 auto perl " -auto -stdout" 11