1     M         0.896   0.904   0.902   1.272   1.210   1.189   0.901   0.907   0.906
2     S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
3     F         0.896   0.904   0.902   0.780   0.829   0.827   0.901   0.907   0.906
4     L        -1.045  -1.071  -1.064  -0.759  -0.985  -1.041  -1.058  -1.085  -1.079
5     N         0.896   0.904   0.902   0.757   0.807   0.811   0.901   0.907   0.906
6     I        -1.045  -1.071  -1.064  -1.343  -1.168  -1.227  -1.058  -1.085  -1.079
7     F        -1.045  -1.071  -1.064  -1.002  -1.086  -1.097  -1.058  -1.085  -1.079
8     T        -2.694  -1.995  -2.214  -2.972  -2.002  -2.219  -2.364  -1.542  -1.741
9     F        -1.045  -1.071  -1.064  -1.400  -1.278  -1.321  -1.058  -1.085  -1.079
10    F         0.896   0.904   0.902   0.780   0.829   0.827   0.901   0.907   0.906
11    S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
12    V        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
13    L        -1.045  -1.071  -1.064  -1.242  -1.276  -1.319  -1.058  -1.085  -1.079
14    V        -1.045  -1.071  -1.064  -0.927  -0.995  -0.972  -1.058  -1.085  -1.079
15    S        -1.045  -1.071  -1.064  -0.945  -1.039  -1.025  -1.058  -1.085  -1.079
16    V        -1.045  -1.071  -1.064  -1.321  -1.183  -1.190  -1.058  -1.085  -1.079
17    A         0.896   0.904   0.902   0.836   0.792   0.869   0.901   0.907   0.906
18    T         0.896   0.904   0.902   0.482   0.592   0.608   0.901   0.907   0.906
19    A         0.896   0.904   0.902   0.836   0.792   0.869   0.901   0.907   0.906
20    V        -1.045  -1.071  -1.064  -0.927  -0.995  -0.972  -1.058  -1.085  -1.079
21    R         0.896   0.904   0.902   1.208   1.179   1.142   0.901   0.907   0.906
22    F         0.896   0.904   0.902   0.780   0.829   0.827   0.901   0.907   0.906
23    D        -1.045  -1.071  -1.064  -1.056  -1.013  -0.985  -1.058  -1.085  -1.079
24    L         0.896   0.904   0.902   0.540   0.721   0.651   0.901   0.907   0.906
25    T         0.896   0.904   0.902   0.482   0.592   0.608   0.901   0.907   0.906
26    N        -1.045  -1.071  -1.064  -0.787  -1.009  -0.983  -1.058  -1.085  -1.079
27    V        -1.045  -1.071  -1.064  -1.321  -1.183  -1.190  -1.058  -1.085  -1.079
28    T        -1.045  -1.071  -1.064  -1.063  -1.211  -1.237  -1.058  -1.085  -1.079
29    C         0.896   0.904   0.902   1.208   1.148   1.142   0.901   0.907   0.906
30    N        -1.045  -1.071  -1.064  -1.063  -1.147  -1.139  -1.058  -1.085  -1.079
31    N        -1.045  -1.071  -1.064  -0.756  -0.950  -0.965  -1.058  -1.085  -1.079
32    L         0.896   0.904   0.902   0.540   0.721   0.651   0.901   0.907   0.906
33    H        -1.045  -1.071  -1.064  -0.552  -0.616  -0.629  -1.058  -1.085  -1.079
34    G         0.896   0.904   0.902   0.969   0.955   0.967   0.901   0.907   0.906
35    P         0.896   0.904   0.902   0.969   0.987   0.967   0.901   0.907   0.906
36    H         0.896   0.904   0.902   1.409   1.289   1.290   0.901   0.907   0.906
37    C         0.896   0.904   0.902   1.208   1.148   1.142   0.901   0.907   0.906
38    G         0.896   0.904   0.902   0.969   0.955   0.967   0.901   0.907   0.906
39    T         0.896   0.904   0.902   0.482   0.592   0.608   0.901   0.907   0.906
40    Y         0.896   0.904   0.902   1.229   1.148   1.158   0.901   0.907   0.906
41    V        -1.045  -1.071  -1.064  -1.321  -1.183  -1.190  -1.058  -1.085  -1.079
42    M        -1.045  -1.071  -1.064  -1.231  -0.993  -1.045  -1.058  -1.085  -1.079
43    E        -1.045  -1.071  -1.064  -0.626  -0.769  -0.816  -1.058  -1.085  -1.079
44    V         0.896   0.904   0.902   1.013   0.956   0.999   0.901   0.907   0.906
45    V         0.896   0.904   0.902   1.013   0.956   0.999   0.901   0.907   0.906
46    G         0.896   0.904   0.902   0.969   0.955   0.967   0.901   0.907   0.906
47    Q        -1.045  -1.071  -1.064  -1.328  -1.168  -1.141  -1.058  -1.085  -1.079
48    N         0.896   0.904   0.902   0.757   0.807   0.811   0.901   0.907   0.906
49    G        -1.045  -1.071  -1.064  -1.048  -1.131  -1.055  -1.058  -1.085  -1.079
50    T         0.896   0.904   0.902   0.482   0.592   0.608   0.901   0.907   0.906
51    F        -1.045  -1.071  -1.064  -0.728  -0.958  -0.942  -1.058  -1.085  -1.079
52    L        -1.045  -1.071  -1.064  -1.012  -1.179  -1.187  -1.058  -1.085  -1.079
53    G         0.896   0.904   0.902   0.969   0.955   0.967   0.901   0.907   0.906
54    Q        -1.045  -1.071  -1.064  -0.850  -0.850  -0.880  -1.058  -1.085  -1.079
55    S        -1.045  -1.071  -1.064  -0.653  -0.851  -0.861  -1.058  -1.085  -1.079
56    T        -1.045  -1.071  -1.064  -1.150  -1.303  -1.287  -1.058  -1.085  -1.079
57    F         0.896   0.904   0.902   0.780   0.829   0.827   0.901   0.907   0.906
58    A        -1.045  -1.071  -1.064  -0.984  -1.113  -1.067  -1.058  -1.085  -1.079
59    G         0.896   0.904   0.902   0.969   0.955   0.967   0.901   0.907   0.906
60    A        -1.045  -1.071  -1.064  -1.381  -1.306  -1.289  -1.058  -1.085  -1.079
61    D         0.896   0.904   0.902   1.176   1.101   1.119   0.901   0.907   0.906
62    V        -1.045  -1.071  -1.064  -1.034  -1.131  -1.032  -1.058  -1.085  -1.079
63    L         0.896   0.904   0.902   0.540   0.721   0.651   0.901   0.907   0.906
64    T         0.896   0.904   0.902   0.482   0.592   0.608   0.901   0.907   0.906
65    E         0.896   0.904   0.902   0.980   1.035   0.975   0.901   0.907   0.906
66    S         0.896   0.904   0.902   0.892   0.917   0.910   0.901   0.907   0.906
67    A        -1.045  -1.071  -1.064  -0.670  -0.937  -0.890  -1.058  -1.085  -1.079
68    G         0.896   0.904   0.902   0.969   0.955   0.967   0.901   0.907   0.906
69    D        -1.045  -1.071  -1.064  -0.843  -0.850  -0.869  -1.058  -1.085  -1.079
70    A        -1.045  -1.071  -1.064  -1.146  -1.224  -1.158  -1.058  -1.085  -1.079
71    W        -1.045  -1.071  -1.064  -0.966  -0.871  -0.864  -1.058  -1.085  -1.079
72    A        -1.045  -1.071  -1.064  -0.783  -1.019  -0.954  -1.058  -1.085  -1.079
73    R         0.896   0.904   0.902   1.208   1.179   1.142   0.901   0.907   0.906
74    Y        -1.045  -1.071  -1.064  -0.549  -0.691  -0.689  -1.058  -1.085  -1.079
75    L         0.896   0.904   0.902   0.540   0.721   0.651   0.901   0.907   0.906
76    G        -1.045  -1.071  -1.064  -0.909  -0.953  -0.978  -1.058  -1.085  -1.079
77    Q         0.896   0.904   0.902   1.154   1.100   1.103   0.901   0.907   0.906
78    E         0.896   0.904   0.902   0.980   1.035   0.975   0.901   0.907   0.906
79    T        -1.045  -1.071  -1.064  -1.074  -1.248  -1.243  -1.058  -1.085  -1.079
80    R         0.896   0.904   0.902   1.208   1.179   1.142   0.901   0.907   0.906
81    F        -1.045  -1.071  -1.064  -1.400  -1.278  -1.321  -1.058  -1.085  -1.079
82    L        -1.045  -1.071  -1.064  -1.077  -1.164  -1.224  -1.058  -1.085  -1.079
83    P         0.896   0.904   0.902   0.969   0.987   0.967   0.901   0.907   0.906
84    K        -1.045  -1.071  -1.064  -0.596  -0.670  -0.700  -1.058  -1.085  -1.079
85    L         0.896   0.904   0.902   0.540   0.721   0.651   0.901   0.907   0.906
86    T        -1.045  -1.071  -1.064  -1.261  -1.372  -1.351  -1.058  -1.085  -1.079
87    T         0.896   0.904   0.902   0.482   0.592   0.608   0.901   0.907   0.906
88    I         0.896   0.904   0.902   0.947   0.976   0.950   0.901   0.907   0.906
89    A         0.896   0.904   0.902   0.836   0.792   0.869   0.901   0.907   0.906
90    S        -1.045  -1.071  -1.064  -0.934  -0.980  -1.019  -1.058  -1.085  -1.079
91    N         0.896   0.904   0.902   0.757   0.807   0.811   0.901   0.907   0.906
92    D         0.896   0.904   0.902   1.176   1.101   1.119   0.901   0.907   0.906
93    T         0.896   0.904   0.902   0.482   0.592   0.608   0.901   0.907   0.906
94    K        -1.045  -1.071  -1.064  -0.948  -0.943  -0.892  -1.058  -1.085  -1.079
95    N         0.896   0.904   0.902   0.757   0.807   0.811   0.901   0.907   0.906
96    F         0.896   0.904   0.902   0.780   0.829   0.827   0.901   0.907   0.906
97    S        -1.045  -1.071  -1.064  -1.419  -1.308  -1.289  -1.058  -1.085  -1.079
98    P         0.896   0.904   0.902   0.969   0.987   0.967   0.901   0.907   0.906
99    L         0.896   0.904   0.902   0.540   0.721   0.651   0.901   0.907   0.906
100   I        -1.045  -1.071  -1.064  -1.400  -1.263  -1.258  -1.058  -1.085  -1.079
101   F         0.896   0.904   0.902   0.780   0.829   0.827   0.901   0.907   0.906
102   T         0.896   0.904   0.902   0.482   0.592   0.608   0.901   0.907   0.906
103   T         0.896   0.904   0.902   0.482   0.592   0.608   0.901   0.907   0.906
104   N        -1.045  -1.071  -1.064  -0.735  -0.973  -0.953  -1.058  -1.085  -1.079
105   I        -1.045  -1.071  -1.064  -1.343  -1.168  -1.227  -1.058  -1.085  -1.079
106   Y        -1.045  -1.071  -1.064  -0.549  -0.691  -0.689  -1.058  -1.085  -1.079
107   T         0.896   0.904   0.902   0.482   0.592   0.608   0.901   0.907   0.906
108   C         0.896   0.904   0.902   1.208   1.148   1.142   0.901   0.907   0.906
109   N         0.896   0.904   0.902   0.757   0.807   0.811   0.901   0.907   0.906
110   P         0.896   0.904   0.902   0.969   0.987   0.967   0.901   0.907   0.906
111   Q         0.896   0.904   0.902   1.154   1.100   1.103   0.901   0.907   0.906
112   S         0.896   0.904   0.902   0.892   0.917   0.910   0.901   0.907   0.906
113   I         0.896   0.904   0.902   0.947   0.976   0.950   0.901   0.907   0.906
114   G        -1.045  -1.071  -1.064  -0.909  -0.953  -0.978  -1.058  -1.085  -1.079
115   D        -1.045  -1.071  -1.064  -1.056  -1.013  -0.985  -1.058  -1.085  -1.079
116   A         0.896   0.904   0.902   0.836   0.792   0.869   0.901   0.907   0.906
117   M         0.896   0.904   0.902   1.272   1.210   1.189   0.901   0.907   0.906
118   V        -1.045  -1.071  -1.064  -0.927  -0.995  -0.972  -1.058  -1.085  -1.079
119   P         0.896   0.904   0.902   0.969   0.987   0.967   0.901   0.907   0.906
120   F         0.896   0.904   0.902   0.780   0.829   0.827   0.901   0.907   0.906
121   A        -1.045  -1.071  -1.064  -0.920  -1.128  -1.031  -1.058  -1.085  -1.079
122   N         0.896   0.904   0.902   0.757   0.807   0.811   0.901   0.907   0.906
123   T         0.896   0.904   0.902   0.482   0.592   0.608   0.901   0.907   0.906
124   V         0.896   0.904   0.902   1.013   0.956   0.999   0.901   0.907   0.906
125   T         0.896   0.904   0.902   0.482   0.592   0.608   0.901   0.907   0.906
126   G        -1.045  -1.071  -1.064  -0.994  -1.039  -1.025  -1.058  -1.085  -1.079
127   E         0.896   0.904   0.902   0.980   1.035   0.975   0.901   0.907   0.906
128   I         0.896   0.904   0.902   0.947   0.976   0.950   0.901   0.907   0.906
129   E        -1.045  -1.071  -1.064  -0.991  -0.982  -1.020  -1.058  -1.085  -1.079
130   Y        -1.045  -1.071  -1.064  -1.016  -0.962  -0.944  -1.058  -1.085  -1.079
131   N        -1.045  -1.071  -1.064  -0.787  -1.009  -0.983  -1.058  -1.085  -1.079
132   S        -1.045  -1.071  -1.064  -1.074  -1.160  -1.097  -1.058  -1.085  -1.079
133   W         0.896   0.904   0.902   1.378   1.273   1.267   0.901   0.907   0.906
134   A         0.896   0.904   0.902   0.836   0.792   0.869   0.901   0.907   0.906
135   D        -1.045  -1.071  -1.064  -0.606  -0.768  -0.738  -1.058  -1.085  -1.079
136   T         0.896   0.904   0.902   0.482   0.592   0.608   0.901   0.907   0.906
137   A         0.896   0.904   0.902   0.836   0.792   0.869   0.901   0.907   0.906
138   D        -1.045  -1.071  -1.064  -0.677  -0.803  -0.778  -1.058  -1.085  -1.079
139   N         0.896   0.904   0.902   0.757   0.807   0.811   0.901   0.907   0.906
140   A        -1.045  -1.071  -1.064  -1.038  -1.158  -1.097  -1.058  -1.085  -1.079
141   S         0.896   0.904   0.902   0.892   0.917   0.910   0.901   0.907   0.906
142   F        -1.045  -1.071  -1.064  -0.749  -0.935  -0.954  -1.058  -1.085  -1.079
143   I         0.896   0.904   0.902   0.947   0.976   0.950   0.901   0.907   0.906
144   T         0.896   0.904   0.902   0.482   0.592   0.608   0.901   0.907   0.906
145   G         0.896   0.904   0.902   0.969   0.955   0.967   0.901   0.907   0.906
146   L         0.896   0.904   0.902   0.540   0.721   0.651   0.901   0.907   0.906
147   A        -1.045  -1.071  -1.064  -1.038  -1.158  -1.097  -1.058  -1.085  -1.079
148   N         0.896   0.904   0.902   0.757   0.807   0.811   0.901   0.907   0.906
149   Q         0.896   0.904   0.902   1.154   1.100   1.103   0.901   0.907   0.906
150   L         0.896   0.904   0.902   0.540   0.721   0.651   0.901   0.907   0.906
151   F        -1.045  -1.071  -1.064  -0.687  -0.911  -0.919  -1.058  -1.085  -1.079
152   N         0.896   0.904   0.902   0.757   0.807   0.811   0.901   0.907   0.906
153   S         0.896   0.904   0.902   0.892   0.917   0.910   0.901   0.907   0.906
154   T         0.896   0.904   0.902   0.482   0.592   0.608   0.901   0.907   0.906
155   Q        -1.045  -1.071  -1.064  -1.272  -1.075  -1.111  -1.058  -1.085  -1.079
156   Y         0.896   0.904   0.902   1.229   1.148   1.158   0.901   0.907   0.906
157   G        -1.045  -1.071  -1.064  -1.124  -1.120  -1.098  -1.058  -1.085  -1.079
158   V         0.896   0.904   0.902   1.013   0.956   0.999   0.901   0.907   0.906
159   Q         0.896   0.904   0.902   1.154   1.100   1.103   0.901   0.907   0.906
160   V         0.896   0.904   0.902   1.013   0.956   0.999   0.901   0.907   0.906
161   A         0.896   0.904   0.902   0.836   0.792   0.869   0.901   0.907   0.906
162   S        -1.045  -1.071  -1.064  -1.419  -1.308  -1.289  -1.058  -1.085  -1.079
163   C         0.896   0.904   0.902   1.208   1.148   1.142   0.901   0.907   0.906
164   Y        -1.045  -1.071  -1.064  -1.302  -1.131  -1.099  -1.058  -1.085  -1.079
165   P         0.896   0.904   0.902   0.969   0.987   0.967   0.901   0.907   0.906
166   N        -1.045  -1.071  -1.064  -0.987  -1.118  -1.096  -1.058  -1.085  -1.079
167   F         0.896   0.904   0.902   0.780   0.829   0.827   0.901   0.907   0.906
168   A        -1.045  -1.071  -1.064  -1.038  -1.158  -1.097  -1.058  -1.085  -1.079
169   S        -1.045  -1.071  -1.064  -1.074  -1.160  -1.097  -1.058  -1.085  -1.079
170   V        -1.045  -1.071  -1.064  -1.321  -1.183  -1.190  -1.058  -1.085  -1.079
171   I        -1.045  -1.071  -1.064  -1.343  -1.168  -1.227  -1.058  -1.085  -1.079
172   L         0.896   0.904   0.902   0.540   0.721   0.651   0.901   0.907   0.906
173   S        -1.045  -1.071  -1.064  -0.745  -0.931  -0.913  -1.058  -1.085  -1.079
174   T        -1.045  -1.071  -1.064  -1.150  -1.303  -1.287  -1.058  -1.085  -1.079
175   P         0.896   0.904   0.902   0.969   0.987   0.967   0.901   0.907   0.906
176   T         0.896   0.904   0.902   0.482   0.592   0.608   0.901   0.907   0.906
177   V        -1.045  -1.071  -1.064  -0.927  -0.995  -0.972  -1.058  -1.085  -1.079
178   N         0.896   0.904   0.902   0.757   0.807   0.811   0.901   0.907   0.906
179   I        -1.045  -1.071  -1.064  -0.885  -0.996  -0.972  -1.058  -1.085  -1.079
180   F         0.896   0.904   0.902   0.780   0.829   0.827   0.901   0.907   0.906
181   A        -1.045  -1.071  -1.064  -1.168  -1.241  -1.170  -1.058  -1.085  -1.079
182   A        -1.045  -1.071  -1.064  -1.168  -1.241  -1.170  -1.058  -1.085  -1.079
183   N        -1.045  -1.071  -1.064  -0.977  -1.058  -1.090  -1.058  -1.085  -1.079
184   E         0.896   0.904   0.902   0.980   1.035   0.975   0.901   0.907   0.906
185   T        -1.045  -1.071  -1.064  -1.074  -1.273  -1.243  -1.058  -1.085  -1.079
186   L        -1.045  -1.071  -1.064  -0.759  -0.985  -1.041  -1.058  -1.085  -1.079
187   P         0.896   0.904   0.902   0.969   0.987   0.967   0.901   0.907   0.906
188   D        -1.045  -1.071  -1.064  -0.927  -0.934  -0.915  -1.058  -1.085  -1.079
189   Y        -1.045  -1.071  -1.064  -0.449  -0.646  -0.634  -1.058  -1.085  -1.079
190   C         0.896   0.904   0.902   1.208   1.148   1.142   0.901   0.907   0.906
191   T        -1.045  -1.071  -1.064  -0.892  -1.160  -1.138  -1.058  -1.085  -1.079
192   A        -1.045  -1.071  -1.064  -0.962  -1.105  -1.055  -1.058  -1.085  -1.079
193   I         0.896   0.904   0.902   0.947   0.976   0.950   0.901   0.907   0.906
194   Q        -1.045  -1.071  -1.064  -0.850  -0.850  -0.880  -1.058  -1.085  -1.079
195   L         0.896   0.904   0.902   0.540   0.721   0.651   0.901   0.907   0.906
196   K        -2.694  -1.995  -2.214  -2.851  -1.581  -1.956  -2.364  -1.542  -1.741
197   A        -1.045  -1.071  -1.064  -0.962  -1.105  -1.055  -1.058  -1.085  -1.079
198   V         0.896   0.904   0.902   1.013   0.956   0.999   0.901   0.907   0.906
199   C         0.896   0.904   0.902   1.208   1.148   1.142   0.901   0.907   0.906
200   P         0.896   0.904   0.902   0.969   0.987   0.967   0.901   0.907   0.906
201   P        -1.045  -1.071  -1.064  -1.336  -1.159  -1.214  -1.058  -1.085  -1.079
202   D         0.896   0.904   0.902   1.176   1.101   1.119   0.901   0.907   0.906
203   A        -1.045  -1.071  -1.064  -0.952  -1.069  -1.049  -1.058  -1.085  -1.079
204   G         0.896   0.904   0.902   0.969   0.955   0.967   0.901   0.907   0.906
205   F         0.896   0.904   0.902   0.780   0.829   0.827   0.901   0.907   0.906
206   A        -1.045  -1.071  -1.064  -1.168  -1.241  -1.170  -1.058  -1.085  -1.079
* gap fraction no less than  0.50; conservation set to M-S
  M: mean;  S: standard deviation

al2co - The parameters are:

Input alignment file - ../mafft-mac/clustal/Q08910
Output conservation file - output/Q08910
All 9 methods are used - true 
   1. unweighted entropy measure; 2. Henikoff entropy measure;
   3. independent count entropy measure;
   4. unweighted variance measure; 5. Henikoff variance measure;
   6. independent count variance measure;
   7. unweighted matrix-based sum-of-pairs measure;
   8. Henikoff matrix-based sum-of-pairs measure;
   9. independent count matrix-based sum-of-pairs measure;
Window size - 1
Conservation normalized to zero mean and unity variance
Gap fraction to suppress calculation -  0.50
