#NEXUS 

Begin trees;  [Treefile saved Fri Jan 28 16:00:31 2000]
[!
>Data file = all_genomes_sfams_paup.nex
>Bootstrap method with heuristic search:
>   Number of bootstrap replicates = 100
>   Starting seed = 2014643012
>   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 = 1790449400
>   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
>   Time used = 00:05:50.2
]
	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] (1:100.000000,2:100.000000,(((((3:100.000000,4:100.000000)57.349998:57.349998,6:100.000000)71.750000:71.750000,5:100.000000)99.000000:99.000000,7:100.000000,(((((10:100.000000,11:100.000000)100.000000:100.000000,16:100.000000,17:100.000000)69.466667:69.466667,(19:100.000000,20:100.000000)100.000000:100.000000)98.000000:98.000000,13:100.000000)98.000000:98.000000,12:100.000000)73.750000:73.750000)51.250000:51.250000,(8:100.000000,(9:100.000000,(14:100.000000,15:100.000000)81.500000:81.500000)69.435715:69.435715)60.111904:60.111904,18:100.000000)100.000000:100.000000)0.000000;
End;