4.1 years ago by
RAxML should produce an output file like RAxML_bestTree[your run id assigned using -n]. You could use this file and open it in a Phylogenetic tree viewer like FigTree.
Best-scoring ML tree with support values written to: RAxML_bipartitions.[run id]
Best-scoring ML tree with support values as branch labels written to: RAxML_bipartitionsBranchLabels[run id]
What you use depends on what you need for your analysis. If you need branch support values and not only branch lengths, then you need to use one of the latter two trees. Further, this depends on the software you are using to analyse the tree, as e.g. FigTree does not understand the bipartitionsBranchLabels Newick format, but RAxML_bipartitions works.
It would be better if the output was also available in Nexus or PhyML format.