test5r.bst

来自「fastDNAml is an attempt to solve the sam」· BST 代码 · 共 81 行

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

Restart option in effect.  Sequence addition will start from appended tree.

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 41 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)

Restarting from tree with the following sequences:
   Sequence1
   Sequence2
   Sequence4
   Sequence5

Adding species:
      Ln Likelihood =    -339.03054
      Doing local rearrangements
      Tested 2 alternative trees
      Ln Likelihood =    -323.61247
      Tested 2 alternative trees
   Sequence3
      Tested 5 alternative trees
      Ln Likelihood =    -365.80850
      Doing local rearrangements
      Tested 4 alternative trees

Examined 14 trees

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

Remember: this is an unrooted tree!

Ln Likelihood =    -365.80850

 Between        And             Length      Approx. Confidence Limits
 -------        ---             ------      ------- ---------- ------
   2             3              0.06940     (  0.01393,     0.13070) **
   3          Sequence3         0.06177     (  0.01061,     0.11786) **
   3          Sequence2         0.05346     (  0.00521,     0.10607) **
   2             1              0.08775     (  0.02504,     0.15802) **
   1          Sequence5         0.01873     (     zero,     0.05038) *
   1          Sequence4         0.06742     (  0.01738,     0.12217) **
   2          Sequence1         0.08289     (  0.02281,     0.14988) **

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


Tree also written to treefile.24379