/usr/share/phast/data/exoniphy/mammals/default.hmm 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 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 | TRANSITION_MATRIX:
A B C D E F G H I J K L M N O P Q R S T U V W X Y Z Z Z Z Z Z
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EQUILIBRIUM_FREQUENCIES:
9.691982e-01
1.538931e-03
1.543332e-03
1.545984e-03
2.937175e-06
2.937175e-06
2.937175e-06
2.785615e-06
2.785615e-06
2.785615e-06
2.931195e-05
2.931195e-05
2.931195e-05
2.931195e-05
2.931195e-05
2.931195e-05
2.916039e-05
2.916039e-05
2.916039e-05
2.916039e-05
2.916039e-05
2.916039e-05
2.567703e-02
2.849173e-06
2.849173e-06
2.849173e-06
2.849173e-06
2.931195e-05
2.931195e-05
2.931195e-05
2.916039e-05
BEGIN_TRANSITIONS:
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0.000000e+00
|