#NEXUS 

Begin trees;  [Treefile saved Mon Jan  7 20:33:14 2002]
[!
>Data file = /home/bjorn/bartonella/Glycolysis/Analysis15/Enolase/rednt.nex
>Bootstrap method with heuristic search:
>  Number of bootstrap replicates = 500
>  Starting seed = 438551663
>  Optimality criterion = distance (minimum evolution)
>    Negative branch lengths allowed, but set to zero for tree-score calculation
>    Distance measure = HKY85
>    Proportion of sites assumed to be invariable = 0.2113; identical sites removed proportionally to
>      base frequencies estimated from all sites (distances represent mean number of substitutions
>      over all sites)
>    Rates (for variable sites) assumed to follow gamma distribution with shape parameter = 0.8617
>    237 characters are excluded
>  Starting tree(s) obtained via stepwise addition
>  Addition sequence: random
>    Number of replicates = 10
>    Starting seed = 1114111556
>  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
>  Zero-length branches not collapsed
>  'MulTrees' option in effect
>  Topological constraints not enforced
>  Trees are unrooted
>
>   500 bootstrap replicates completed
>   Time used = 01:47:42 (CPU time = 01:47:40.9)
]
	Translate
		1 Synechocystis_s,
		2 Deinococcus_rad,
		3 Mycobacterium_t,
		4 Chlamydophila_p,
		5 Chlamydia_murid,
		6 Bartonella_hens,
		7 Rhizobium,
		8 Caulobacter,
		9 Zymomonas_mobil,
		10 Bacillus_subtil,
		11 Staphylococcus,
		12 Nitrosomonas_eu,
		13 Neisseria_menin,
		14 Escherichia_col,
		15 Haemophilus_inf,
		16 Borrelia_burgdo,
		17 Treponema_palli,
		18 Helicobacter_py,
		19 Campylobacter_j,
		20 Streptococcus_t,
		21 Mycoplasma_geni,
		22 Ureaplasma_parv,
		23 Aquifex_aeolicu,
		24 Thermotoga_mari,
		25 Methanococcus_j,
		26 Pyrococcus_hori,
		27 Aeropyrum_perni,
		28 Aspergillus_ory,
		29 Saccharomyces_c,
		30 1Arabidopsis_th,
		31 Lupinus_luteus,
		32 Caenorhabditis,
		33 Drosophila_mela,
		34 Schistosoma_jap,
		35 Schistosoma_man,
		36 Homo_sapiens,
		37 Gallus_gallus,
		38 Loligo_pealeii,
		39 Plasmodium_falc,
		40 Toxoplasma_gond,
		41 Entamoeba_histo,
		42 Mastigamoeba_ba,
		43 2Arabidopsis_th,
		44 Archaeoglobus_f,
		45 Haloarcula_mari
		;
tree PAUP_1 = [&U] (1,2,3,(4,5)100,(6,7)76,8,9,10,11,12,13,(14,15)100,16,17,(18,19)100,20,(21,22)53,(23,24)64,(25,26,27)50,((28,29)50,(30,31)78,32,33,(34,35)100,(36,37)99,38,39,40,41,42,43)98,(44,45)99)0;
End;