jaligner(1) Smith-Waterman algorithm with Gotohs improvement Section 1 jaligner bookworm source Description JALIGNER NAME jaligner - Smith-Waterman algorithm with Gotoh's improvement SYNOPSIS jaligner <s1> <s2> <matrix> <open> <extend> Or just type jaligner to see the GUI. EXAMPLES jaligner p53_{human,mouse}.fasta BLOSUM62 10 0.5 HOMEPAGE <http://jaligner.sourceforge.net/>