Predicts potentially antigenic regions of a protein sequence, using the method of Kolaskar and Tongaonkar. emboss antigenic -sequence $input1 -outfile $out_file1 -minlen $minlen -rformat2 $out_format1 -auto On query Minimum Length of region Output format GFF PIR SwissProt DbMotif diffseq Excel (TAB Delimited) FeatTable Motif NameTable Regions SeqTable SRS simple SRS Table Tagseq Antigenic Output File

You can view the original documentation here_. .. _here: http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/antigenic.html