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98 32
120 0 905
36 23 0 0
89 246 103 134 0
198 1 148 1153 0 716
240 9 139 125 11 28 81
23 240 535 86 28 606 43 10
65 64 77 24 44 18 61 0 7
41 15 34 0 0 73 11 7 44 257
26 464 318 71 0 153 83 27 26 46 18
72 90 1 0 0 114 30 17 0 336 527 243
18 14 14 0 0 0 0 15 48 196 157 0 92
250 103 42 13 19 153 51 34 94 12 32 33 17 11
409 154 495 95 161 56 79 234 35 24 17 96 62 46 245
371 26 229 66 16 53 34 30 22 192 33 136 104 13 78 550
0 201 23 0 0 0 0 0 27 0 46 0 0 76 0 75 0
24 8 95 0 96 0 22 0 127 37 28 13 0 698 0 34 42 61
208 24 15 18 49 35 37 54 44 889 175 10 258 12 48 30 157 0 28
0.087127 0.040904 0.040432 0.046872 0.033474 0.038255 0.049530
0.088612 0.033618 0.036886 0.085357 0.080482 0.014753 0.039772
0.050680 0.069577 0.058542 0.010494 0.029916 0.064718
Ala Arg Asn Asp Cys Gln Glu Gly His Ile Leu Lys Met Phe Pro Ser Thr Trp Tyr Val
S_ij = S_ji and PI_i for the Dayhoff model, with the rate Q_ij=S_ij*PI_j
The rest of the file is not used.
Prepared by Z. Yang, March 1995.
See the following reference for notation used here:
Yang, Z., R. Nielsen and M. Hasegawa. 1998. Models of amino acid substitution and
applications to mitochondrial protein evolution. Mol. Biol. Evol. 15:1600-1611.
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30
109 17
154 0 532
33 10 0 0
93 120 50 76 0
266 0 94 831 0 422
579 10 156 162 10 30 112
21 103 226 43 10 243 23 10
66 30 36 13 17 8 35 0 3
95 17 37 0 0 75 15 17 40 253
57 477 322 85 0 147 104 60 23 43 39
29 17 0 0 0 20 7 7 0 57 207 90
20 7 7 0 0 0 0 17 20 90 167 0 17
345 67 27 10 10 93 40 49 50 7 43 43 4 7
772 137 432 98 117 47 86 450 26 20 32 168 20 40 269
590 20 169 57 10 37 31 50 14 129 52 200 28 10 73 696
0 27 3 0 0 0 0 0 3 0 13 0 0 10 0 17 0
20 3 36 0 30 0 10 0 40 13 23 10 0 260 0 22 23 6
365 20 13 17 33 27 37 97 30 661 303 17 77 10 50 43 186 0 17
A R N D C Q E G H I L K M F P S T W Y V
Ala Arg Asn Asp Cys Gln Glu Gly His Ile Leu Lys Met Phe Pro Ser Thr Trp Tyr Val
Accepted point mutations (x10) Figure 80 (Dayhoff 1978)
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A 100 /* Ala */ A 0.087 /* Ala */
R 65 /* Arg */ R 0.041 /* Arg */
N 134 /* Asn */ N 0.040 /* Asn */
D 106 /* Asp */ D 0.047 /* Asp */
C 20 /* Cys */ C 0.033 /* Cys */
Q 93 /* Gln */ Q 0.038 /* Gln */
E 102 /* Glu */ E 0.050 /* Glu */
G 49 /* Gly */ G 0.089 /* Gly */
H 66 /* His */ H 0.034 /* His */
I 96 /* Ile */ I 0.037 /* Ile */
L 40 /* Leu */ L 0.085 /* Leu */
K 56 /* Lys */ K 0.081 /* Lys */
M 94 /* Met */ M 0.015 /* Met */
F 41 /* Phe */ F 0.040 /* Phe */
P 56 /* Pro */ P 0.051 /* Pro */
S 120 /* Ser */ S 0.070 /* Ser */
T 97 /* Thr */ T 0.058 /* Thr */
W 18 /* Trp */ W 0.010 /* Trp */
Y 41 /* Tyr */ Y 0.030 /* Tyr */
V 74 /* Val */ V 0.065 /* Val */
scale factor = SUM_OF_PRODUCT = 75.246
Relative Mutability The equilibrium freqs.
(Table 21) Table 22
(Dayhoff 1978) Dayhoff (1978)
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