/usr/share/phast/data/exoniphy/mammals/hky.cds5'ss-2.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 | ALPHABET: A C G T
ORDER: 0
SUBST_MOD: HKY85
BACKGROUND: 0.637304 0.111243 0.110501 0.140952
RATE_MAT:
-0.651066 0.102730 0.418171 0.130165
0.588531 -1.223984 0.102044 0.533408
2.411760 0.102730 -2.644655 0.130165
0.588531 0.420980 0.102044 -1.111556
TREE: (human:0.039845,(mouse:0.019200,rat:0.020761):0.039845);
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