-----------------------------------------------------------------------
  Kalign version 2.03, Copyright (C) 2006 Timo Lassmann

  http://msa.cgb.ki.se/
  timolassmann@gmail.com

	This program is free software; you can redistribute it and/or modify
	it under the terms of the GNU General Public License as published by
	the Free Software Foundation; either version 2 of the License, or
	any later version.

	This program is distributed in the hope that it will be useful,
	but WITHOUT ANY WARRANTY; without even the implied warranty of
	MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
	GNU General Public License for more details.

	You should have received a copy of the GNU General Public License
	along with this program; if not, write to the Free Software
	Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA  02111-1307  USA
  
	A copy of this license is in the COPYING file.
-----------------------------------------------------------------------
Installation:

% ./configure 
% make

and as root:

% make install


Usage:

        kalign [Options]  infile.fasta outfile.fasta
        
        or:
        
        kalign [Options] -i infile.fasta -o outfile.fasta
        
        or:
        
        kalign [Options] < infile.fasta > outfile.fasta

        Options:
        
	type: kalign -h 
	