distribution-file
NAME
distribution-file - letter frequency distribution file for-
mat used for gamma and p-value computation.
DESCRIPTION
The frequency distribution file format is as follows:
length
A a-prob
C c-prob
G g-prob
T t-prob
Where length is the desired length of the simulated segment;
a-prob is the probability of letter "A" occurring, c-prob is
the probability of letter "C" occurring, and so forth.
To give equal probability to all letters occurring, with
sequence lengths of 100 by 100, both files would be as fol-
lows:
100
A 0.25
C 0.25
G 0.25
T 0.25
Of course, the probabilities should sum to 1.
SEE ALSO
seqaln-intro(1), pvlocalS(1), mpvlocalS(1).