#NEXUS 

Begin trees;  [Treefile saved Fri Jan 28 16:00:32 2000]
[!
>Data file = all_genomes_sfams_paup.nex
>Heuristic search settings:
>   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.
>
>Heuristic search completed
>   Total number of rearrangements tried = 2623
>   Score of best tree(s) found = 1.93678
>   Number of trees retained = 1
>   Time used = 0.21 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] (1:0.157702,2:0.073720,((((3:0.068412,6:0.067469):0.003122,4:0.083927):0.010194,5:0.063075):0.060048,(((7:0.059566,18:0.097547):0.006749,((8:0.072423,9:0.082567):0.019904,(14:0.131163,15:0.068412):0.021497):0.025099):0.018203,(((((10:0.013682,11:0.022411):0.088309,(16:0.071597,17:0.053668):0.008294):0.024606,(19:0.025478,20:0.025478):0.042273):0.020243,13:0.086205):0.026543,12:0.066272):0.017297):0.019719):0.133910);
End;