Search for best tree? Use lengths from user trees?
Global rearrangements? Transition/transversion ratio
Use empirical freq.? or type acg(t/u) freq.?
Number of substitution category?
Rate for each category?
Probability for each category?
Rates at adjacent sites correlated? if yes, mean block length:
Randomize input order of sequences?
If yes, choose a odd random seed and a number of times to jumble
Number of data sets? Input sequence type?
Use previous data set? if no, type data set below.
Formatted Input Sequences as: an example