#NEXUS 

Begin trees;  [Treefile saved Fri Jan 28 16:01:01 2000]
[!
>Data file = all_genomes_sfams_paup.nex
>Bootstrap method with heuristic search:
>   Number of bootstrap replicates = 100
>   Starting seed = 105995762
>   Optimality criterion = distance (minimum evolution)
>      Negative branch lengths allowed, but set to zero for tree-score
>         calculation
>      Distance measure = mean character difference
>   Starting tree(s) obtained via neighbor-joining
>   Branch-swapping algorithm: tree-bisection-reconnection (TBR)
>   Steepest descent option not in effect
>   Initial 'MaxTrees' setting = 100
>   Zero-length branches not collapsed
>   'MulTrees' option in effect
>   Topological constraints not enforced
>   Trees are unrooted
>
>NOTE: Random-addition-sequence option is ignored when starting trees are
>      obtained using neighbor-joining.
>   Time used = 26.20 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] (1:100.000000,2:100.000000,(((3:100.000000,4:100.000000,6:100.000000)58.000000:58.000000,5:100.000000)100.000000:100.000000,((7:100.000000,(8:100.000000,9:100.000000)61.000000:61.000000,(14:100.000000,15:100.000000)61.000000:61.000000,18:100.000000)56.000000:56.000000,(((((10:100.000000,11:100.000000)100.000000:100.000000,(16:100.000000,17:100.000000)68.000000:68.000000)98.000000:98.000000,(19:100.000000,20:100.000000)100.000000:100.000000)93.000000:93.000000,13:100.000000)76.000000:76.000000,12:100.000000)76.000000:76.000000)65.000000:65.000000)100.000000:100.000000)0.000000;
End;