Started Thu Oct 30 22:25:51 2008
muscle -in infile.fasta -seqtype auto -maxiters 16 -maxhours 1 -maxmb 30000000 -log logfile.txt -weight1 clustalw -cluster1 upgmb -sueff 0.1 -root1 pseudo -maxtrees 1 -weight2 clustalw -cluster2 upgmb -sueff 0.1 -root2 pseudo -objscore sp -noanchors -clwout output.aln 
Finished Thu Oct 30 22:25:53 2008