#nexus

begin paup;
	cd *;  [allows specification of pathnames relative to this file]
	execute mammals447.nex;
	include 1-37280/only;		[first 10 genes]
	rm mammal.tre;
	lset nst=6 rmatrix=estimate rates=gamma shape=estimate basefreq=estimate;
	showmodel; 
	beginbysubset charpartition=loci;	["loci" was defined in the sequence-data file]
		raxml;
		savetrees file=mammal.tre format=phylip append;
	endbysubset;
end;