/usr/share/phast/data/exoniphy/mammals/hky.5'splice-6.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: 1.569333
BACKGROUND: 0.171942 0.150173 0.185553 0.492333
RATE_MAT:
-1.030645 0.096476 0.617880 0.316289
0.110461 -1.869105 0.119205 1.639440
0.572556 0.096476 -0.985321 0.316289
0.110461 0.500067 0.119205 -0.729733
TREE: (human:0.156043,(mouse:0.055930,rat:0.059175):0.156043);
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