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Table 1 PTM vs stepwise maximum parsimony

From: Phylogenetic search through partial tree mixing

Dataset RDPII ZILLA U ARB
Taxa 218 500 6722 8780
PTM     
Score 33534 16234 92195 162440
Time 00:00:52 00:01:23 09:30:48 21:35:32
PAUP*     
Score 33934 16414 95217 165289
Difference +400 +180 +3022 +2849
Time <00:00:01 <00:00:0l 00:01:21 00:03:36
PAUP* (multiple trees)     
Score 33855 16386 94922 165149
Difference +321 +152 +2727 +2709
Time 00:00:58 00:01:40 06:30:44 12:18:10
  1. A comparison of search results between PTM and stepwise maximum parsimony on several datasets. Note that in every case PTM found more parsimonious trees, but in much more time. When stepwise maximum parsimony was used to find multiple starting trees (300), PTM still found more parsimonious trees.