Phylogenetics Homework 7

Consider the DNA sequence evolution of the 6-phosphogluconate dehydrogenase, decarboxylating (gnd) gene in the following organisms:

Encephalitozoon cuniculi (Fungus)
Dictyostelium discoideum (Slime mold)
Synechococcus elongatus (Cyanobacteria)
Cronobacter dublinensis (Proteobacteria)
Candidatus Solibacter usitatus (Acidobacteria)
Leptotrichia goodfellowii (Fusobacteria)
Borrelia garinii (Spirochaetes)
Phycisphaera mikurensis (Planctomycetes)
Mycobacterium tuberculosis (Actinobacteria)
Anaerolinea thermophila (Chloroflexi)
Chlamydia trachomatis (Chlamydiae)
Lactococcus lactis (Firmicutes)

Determine the maximum likelihood tree and give its bootstrap support for the best model for DNA evolution that you can use in the software package you have chosen. Give all model parameters. Tell which software you used to used to do this analysis.