/usr/share/phast/data/exoniphy/mammals/hky.5'splice-4.mod is in phast 1.4+dfsg-1.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
1 2 3 4 5 6 7 8 9 10 11 12 | ALPHABET: A C G T
ORDER: 0
SUBST_MOD: HKY85
NRATECATS: 4
ALPHA: 0.388370
BACKGROUND: 0.710973 0.071977 0.107289 0.109761
RATE_MAT:
-0.631366 0.054429 0.493935 0.083002
0.537642 -1.124091 0.081132 0.505317
3.273171 0.054429 -3.410602 0.083002
0.537642 0.331365 0.081132 -0.950139
TREE: (human:0.150523,(mouse:0.039510,rat:0.047428):0.150523);
|