]> Finds DNA inverted repeats (EMBOSS) nucleic:repeats nucleic:2d structure http://bioweb.pasteur.fr/docs/EMBOSS/einverted.html einverted &emboss_init; input Input section sequence sequence -- dna [single sequence] (-sequence) perl " -sequence=$value -sformat=fasta" 1 dna 8 seqfile perl 1 required Required section gap Gap penalty (-gap) 12 perl " -gap=$value" 2 threshold Minimum score threshold (-threshold) 50 perl " -threshold=$value" 3 match Match score (-match) 3 perl " -match=$value" 4 mismatch Mismatch score (-mismatch) -4 perl " -mismatch=$value" 5 advanced Advanced section maxrepeat Maximum extent of repeats (-maxrepeat) 4000 perl (defined $value && $value != $vdef)? " -maxrepeat=$value" : "" 6 Maximum separation between the start of repeat and the end of the inverted repeat (the default is 4000 bases). output Output section outfile outfile (-outfile) outfile.out perl " -outfile=$value" 7 auto perl " -auto -stdout" 8