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Supplemental results for CODEML (seqf: algn treef: tree)
dN/dS (w) for site classes (K=4)
site class 0 1 2a 2b
proportion 0.93813 0.06187 0.00000 0.00000
background w 0.06076 1.00000 0.06076 1.00000
foreground w 0.06076 1.00000 1.00000 1.00000
Naive Empirical Bayes (NEB) probabilities for 4 classes
(amino acids refer to 1st sequence: Gorilla_gorilla)
1 M 0.96921 0.03079 0.00000 0.00000 ( 1)
2 A 0.94915 0.05085 0.00000 0.00000 ( 1)
3 R 0.97797 0.02203 0.00000 0.00000 ( 1)
4 Y 0.97934 0.02066 0.00000 0.00000 ( 1)
5 R 0.97239 0.02761 0.00000 0.00000 ( 1)
6 C 0.98905 0.01095 0.00000 0.00000 ( 1)
7 C 0.98333 0.01667 0.00000 0.00000 ( 1)
8 R 0.98115 0.01885 0.00000 0.00000 ( 1)
9 S 0.98512 0.01488 0.00000 0.00000 ( 1)
10 Q 0.98131 0.01869 0.00000 0.00000 ( 1)
11 S 0.98512 0.01488 0.00000 0.00000 ( 1)
12 R 0.96886 0.03114 0.00000 0.00000 ( 1)
13 S 0.98512 0.01488 0.00000 0.00000 ( 1)
14 R 0.97239 0.02761 0.00000 0.00000 ( 1)
15 C 0.97638 0.02362 0.00000 0.00000 ( 1)
16 Y 0.97524 0.02476 0.00000 0.00000 ( 1)
17 R 0.97723 0.02277 0.00000 0.00000 ( 1)
18 Q 0.98131 0.01869 0.00000 0.00000 ( 1)
19 S 0.76818 0.23182 0.00000 0.00000 ( 1)
20 R 0.96995 0.03005 0.00000 0.00000 ( 1)
21 S 0.98512 0.01488 0.00000 0.00000 ( 1)
22 R 0.97474 0.02526 0.00000 0.00000 ( 1)
23 C 0.97078 0.02922 0.00000 0.00000 ( 1)
24 Y 0.74653 0.25347 0.00000 0.00000 ( 1)
25 R 0.97723 0.02277 0.00000 0.00000 ( 1)
26 Q 0.98071 0.01929 0.00000 0.00000 ( 1)
27 R 0.97549 0.02451 0.00000 0.00000 ( 1)
28 Q 0.97521 0.02479 0.00000 0.00000 ( 1)
29 S 0.98512 0.01488 0.00000 0.00000 ( 1)
30 Q 0.97802 0.02198 0.00000 0.00000 ( 1)
31 S 0.97876 0.02124 0.00000 0.00000 ( 1)
32 R 0.96995 0.03005 0.00000 0.00000 ( 1)
33 S 0.78537 0.21463 0.00000 0.00000 ( 1)
34 R 0.72010 0.27990 0.00000 0.00000 ( 1)
35 C 0.97867 0.02133 0.00000 0.00000 ( 1)
36 Y 0.97524 0.02476 0.00000 0.00000 ( 1)
37 R 0.97723 0.02277 0.00000 0.00000 ( 1)
38 Q 0.98131 0.01869 0.00000 0.00000 ( 1)
39 S 0.98512 0.01488 0.00000 0.00000 ( 1)
40 Q 0.97812 0.02188 0.00000 0.00000 ( 1)
41 S 0.76818 0.23182 0.00000 0.00000 ( 1)
42 R 0.96995 0.03005 0.00000 0.00000 ( 1)
43 S 0.98512 0.01488 0.00000 0.00000 ( 1)
44 R 0.97474 0.02526 0.00000 0.00000 ( 1)
45 C 0.97078 0.02922 0.00000 0.00000 ( 1)
46 Y 0.97934 0.02066 0.00000 0.00000 ( 1)
47 R 0.97723 0.02277 0.00000 0.00000 ( 1)
48 Q 0.98071 0.01929 0.00000 0.00000 ( 1)
49 R 0.97239 0.02761 0.00000 0.00000 ( 1)
50 Q 0.97521 0.02479 0.00000 0.00000 ( 1)
51 R 0.97239 0.02761 0.00000 0.00000 ( 1)
52 S 0.97540 0.02460 0.00000 0.00000 ( 1)
53 R 0.97551 0.02449 0.00000 0.00000 ( 1)
54 R 0.97239 0.02761 0.00000 0.00000 ( 1)
55 R 0.95266 0.04734 0.00000 0.00000 ( 1)
56 R 0.97797 0.02203 0.00000 0.00000 ( 1)
57 R 0.97187 0.02813 0.00000 0.00000 ( 1)
58 R 0.96616 0.03384 0.00000 0.00000 ( 1)
59 S 0.77337 0.22663 0.00000 0.00000 ( 1)
60 C 0.98905 0.01095 0.00000 0.00000 ( 1)
61 Q 0.98131 0.01869 0.00000 0.00000 ( 1)
62 T 0.95838 0.04162 0.00000 0.00000 ( 1)
63 R 0.96995 0.03005 0.00000 0.00000 ( 1)
64 R 0.97797 0.02203 0.00000 0.00000 ( 1)
65 R 0.97239 0.02761 0.00000 0.00000 ( 1)
66 A 0.94915 0.05085 0.00000 0.00000 ( 1)
67 M 0.96921 0.03079 0.00000 0.00000 ( 1)
68 R 0.97797 0.02203 0.00000 0.00000 ( 1)
69 C 0.98569 0.01431 0.00000 0.00000 ( 1)
70 R 0.98115 0.01885 0.00000 0.00000 ( 1)
71 R 0.98115 0.01885 0.00000 0.00000 ( 1)
72 R 0.97797 0.02203 0.00000 0.00000 ( 1)
73 Y 0.97934 0.02066 0.00000 0.00000 ( 1)
74 R 0.97524 0.02476 0.00000 0.00000 ( 1)
75 L 0.96072 0.03928 0.00000 0.00000 ( 1)
76 R 0.97328 0.02672 0.00000 0.00000 ( 1)
77 R 0.96189 0.03811 0.00000 0.00000 ( 1)
78 R 0.63028 0.36972 0.00000 0.00000 ( 1)
79 R 0.48815 0.51185 0.00000 0.00000 ( 2)
80 P 0.00047 0.99953 0.00000 0.00000 ( 2)
81 Y 0.97211 0.02789 0.00000 0.00000 ( 1)
82 H 0.98099 0.01901 0.00000 0.00000 ( 1)
83 I 0.95719 0.04281 0.00000 0.00000 ( 1)
84 V 0.94612 0.05388 0.00000 0.00000 ( 1)
85 S 0.94623 0.05377 0.00000 0.00000 ( 1)
lnL = -511.919210
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