
fastDNAml, version 1.2.1, March 9, 1998

Based on Joseph Felsenstein's

   Nucleic acid sequence Maximum Likelihood method, version 3.3

5 Species, 114 Sites

Quick add (only local branches initially optimized) in effect

Site category   Rate of change

           1        0.062
           2        0.125
           3        0.250
           4        0.500
           5        1.000
           6        2.000
           7        4.000
           8        8.000
           9       16.000
           A       32.000

Rearrangements of partial trees may cross 1 branch.
Rearrangements of full tree may cross 1 branch.

Total weight of positions in analysis = 114
There are 73 distinct data patterns (columns)

Empirical Base Frequencies:

   A       0.18570
   C       0.24823
   G       0.31783
  T(U)     0.24823

Transition/transversion ratio =   2.000000

(Transition/transversion parameter =   1.571835)

Adding species:
   Sequence1
   Sequence2
   Sequence3
   Sequence4
      Tested 3 alternative trees
      Ln Likelihood =    -381.89787
   Sequence5
      Tested 5 alternative trees
      Ln Likelihood =    -418.08178
      Doing local rearrangements
      Tested 4 alternative trees
      Ln Likelihood =    -412.77783
      Tested 4 alternative trees

Examined 17 trees

                                                         + Sequence5
   +-----------------------------------------------------3  
   !                                                     + Sequence4
---1  
   !  +----------------------------------------------------- Sequence3
   +--2  
   !  +----------------------------------------------------- Sequence2
   !  
   +----------------------------------------------------- Sequence1

Remember: this is an unrooted tree!

Ln Likelihood =    -412.77783

 Between        And             Length      Approx. Confidence Limits
 -------        ---             ------      ------- ---------- ------
   1             3              0.01052     (  0.00196,     0.01921) **
   3          Sequence5         0.00190     (     zero,     0.00530) **
   3          Sequence4         0.00816     (  0.00172,     0.01468) **
   1             2              0.00773     (  0.00062,     0.01493) **
   2          Sequence3         0.00748     (  0.00094,     0.01410) **
   2          Sequence2         0.00620     (  0.00021,     0.01225) **
   1          Sequence1         0.01103     (  0.00235,     0.01983) **

     *  = significantly positive, P < 0.05
     ** = significantly positive, P < 0.01


Tree also written to treefile.24364

