#NEXUS 

Begin trees;  [Treefile saved Fri Jan 28 15:54:36 2000]
[!
>Data file = all_genomes_sfams_paup.nex
>Heuristic search settings:
>   Optimality criterion = maximum parsimony
>      Character-status summary:
>        Of 471 total characters:
>          All characters are of type 'unord'
>          All characters have equal weight
>          38 characters are constant
>          87 variable characters are parsimony-uninformative
>          Number of parsimony-informative characters = 346
>   Starting tree(s) obtained via stepwise addition
>   Addition sequence: random
>      Number of replicates = 100
>      Starting seed = 1942597998
>   Number of trees held at each step during stepwise addition = 1
>   Branch-swapping algorithm: tree-bisection-reconnection (TBR)
>   Steepest descent option not in effect
>   Initial 'MaxTrees' setting = 100
>   Branches collapsed (creating polytomies) if maximum branch length is zero
>   'MulTrees' option in effect
>   Topological constraints not enforced
>   Trees are unrooted
>
>Heuristic search completed
>   Total number of rearrangements tried = 524560
>   Score of best tree(s) found = 1041
>   Number of trees retained = 2
>   Time used = 1.95 sec
]
	Translate
		1 Cele,
		2 Scer,
		3 Mjan,
		4 Phor,
		5 Mthe,
		6 Aful,
		7 Aaeo,
		8 Mtub,
		9 Bsub,
		10 Mpne,
		11 Mgen,
		12 Hpyl,
		13 Rpro,
		14 Ecol,
		15 Hinf,
		16 Bbur,
		17 Tpal,
		18 Syne,
		19 Ctra,
		20 Cpne
		;
tree PAUP_1 = [&U] (1:82,2:27,(((((((3:30,4:41):12,6:22):26,5:19):51,((((((10:6,11:11):47,16:26):15,17:18):29,(19:12,20:12):18):30,13:25):30,12:18):16):21,7:15):29,18:30):14,(8:29,(9:17,(14:46,15:48):32):27):17):93);
tree PAUP_2 = [&U] (1:82,2:27,(((((((3:30,4:41):12,6:22):26,5:19):51,(((((10:8,11:9):31,(16:28,17:31):16):30,(19:13,20:11):13):34,13:27):28,12:18):16):21,7:15):29,18:30):14,(8:29,(9:17,(14:46,15:48):32):27):17):93);
End;