1     M         1.259   1.285   1.335   1.436   1.470   1.548   1.350   1.387   1.462
2     S        -0.598  -0.558  -0.575  -0.708  -0.650  -0.632  -0.760  -0.714  -0.702
3     S        -1.606  -1.559  -1.520  -1.508  -1.429  -1.404  -1.336  -1.278  -1.191
4     Q        -0.677  -0.675  -0.594  -0.674  -0.655  -0.534  -0.860  -0.839  -0.723
5     S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
6     N        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
7     T        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
8     G        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
9     N        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
10    S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
11    I        -0.650  -0.597  -0.604  -0.655  -0.559  -0.611  -0.808  -0.731  -0.734
12    E         0.227   0.235   0.158   0.333   0.345   0.202   0.055   0.065  -0.095
13    A        -0.650  -0.648  -0.592  -0.756  -0.744  -0.654  -0.808  -0.799  -0.718
14    P         1.259   1.285   1.335   1.312   1.336   1.429   1.350   1.387   1.462
15    Q        -1.186  -1.169  -1.119  -1.088  -1.054  -0.976  -1.136  -1.108  -1.018
16    L         0.341   0.207   0.194   0.273   0.058   0.027   0.245   0.016  -0.030
17    P         0.024   0.088   0.127  -0.215  -0.102  -0.056  -0.307  -0.197  -0.153
18    I         0.341   0.207   0.194   0.439   0.214   0.153   0.245   0.016  -0.030
19    P         0.341   0.207   0.194   0.404   0.177   0.143   0.245   0.016  -0.030
20    G         0.432   0.288   0.218   0.283   0.091  -0.008   0.391   0.153   0.014
21    Q        -1.022  -0.908  -1.037  -0.788  -0.621  -0.824  -0.952  -0.810  -0.933
22    T        -1.695  -1.658  -1.531  -1.375  -1.304  -1.145  -1.413  -1.357  -1.199
23    N         0.341   0.351   0.194   0.464   0.482   0.228   0.245   0.259  -0.030
24    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
25    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
26    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
27    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
28    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
29    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
30    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
31    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
32    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
33    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
34    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
35    G        -0.650  -0.657  -0.604  -0.909  -0.919  -0.803  -0.808  -0.815  -0.734
36    S        -0.677  -0.696  -0.593  -0.710  -0.750  -0.583  -0.860  -0.865  -0.722
37    A        -1.695  -1.626  -1.531  -1.702  -1.614  -1.458  -1.413  -1.333  -1.199
38    N        -1.606  -1.581  -1.519  -1.274  -1.236  -1.153  -1.336  -1.296  -1.190
39    V        -1.606  -1.559  -1.520  -1.353  -1.281  -1.214  -1.336  -1.278  -1.191
40    T        -1.606  -1.581  -1.519  -1.629  -1.566  -1.444  -1.336  -1.296  -1.190
41    V        -1.606  -1.559  -1.520  -1.317  -1.263  -1.173  -1.336  -1.278  -1.191
42    D        -1.606  -1.559  -1.520  -1.471  -1.397  -1.349  -1.336  -1.278  -1.191
43    G        -1.182  -1.124  -1.101  -1.458  -1.371  -1.294  -1.144  -1.068  -1.002
44    A        -0.598  -0.665  -0.594  -0.766  -0.843  -0.719  -0.760  -0.826  -0.722
45    G        -1.022  -1.071  -1.098  -1.180  -1.276  -1.271  -0.952  -1.002  -0.997
46    V        -1.606  -1.592  -1.518  -1.433  -1.433  -1.333  -1.336  -1.306  -1.189
47    N        -1.182  -1.175  -1.118  -1.027  -1.026  -0.941  -1.144  -1.120  -1.019
48    V        -1.606  -1.559  -1.520  -1.406  -1.332  -1.303  -1.336  -1.278  -1.191
49    G         0.341   0.228   0.201   0.144  -0.020  -0.055   0.245   0.051  -0.018
50    I        -1.186  -1.068  -1.098  -1.187  -1.014  -1.034  -1.136  -0.991  -0.997
51    Q        -1.186  -1.175  -1.122  -1.234  -1.214  -1.119  -1.136  -1.112  -1.022
52    N         0.341   0.430   0.233   0.400   0.533   0.228   0.245   0.386   0.039
53    G        -1.286  -1.228  -1.133  -1.399  -1.275  -1.167  -1.240  -1.164  -1.033
54    S        -1.606  -1.559  -1.520  -1.666  -1.583  -1.497  -1.336  -1.278  -1.191
55    Q        -1.182  -1.186  -1.103  -1.220  -1.217  -1.114  -1.144  -1.130  -1.004
56    G        -0.598  -0.526  -0.566  -0.983  -0.868  -0.903  -0.760  -0.661  -0.686
57    Q        -1.606  -1.592  -1.518  -1.471  -1.450  -1.345  -1.336  -1.306  -1.189
58    K         0.091   0.136   0.142  -0.195  -0.115  -0.106  -0.185  -0.109  -0.124
59    T        -1.606  -1.559  -1.520  -1.743  -1.705  -1.573  -1.336  -1.278  -1.191
60    G         0.091   0.136   0.142  -0.216  -0.139  -0.122  -0.185  -0.109  -0.124
61    M        -0.598  -0.601  -0.584  -0.539  -0.553  -0.556  -0.760  -0.761  -0.711
62    D         0.091   0.136   0.142   0.121   0.195   0.178  -0.185  -0.109  -0.124
63    L        -0.485  -0.485  -0.581  -0.408  -0.400  -0.490  -0.584  -0.578  -0.703
64    Y         1.259   1.285   1.335   1.466   1.500   1.576   1.350   1.387   1.462
65    F         1.259   1.285   1.335   1.397   1.433   1.510   1.350   1.387   1.462
66    D         0.432   0.288   0.218   0.656   0.447   0.319   0.391   0.153   0.014
67    Q        -0.333  -0.272  -0.491  -0.258  -0.166  -0.540  -0.377  -0.288  -0.582
68    A        -1.022  -1.071  -1.098  -1.084  -1.153  -1.203  -0.952  -1.002  -0.997
69    L        -1.022  -1.071  -1.098  -0.867  -0.926  -0.913  -0.952  -1.002  -0.997
70    N        -1.182  -1.120  -1.093  -1.046  -0.936  -0.914  -1.144  -1.062  -0.995
71    Y        -0.333  -0.270  -0.517   0.045   0.140  -0.221  -0.377  -0.285  -0.618
72    M         0.432   0.288   0.218   0.683   0.476   0.350   0.391   0.153   0.014
73    G         0.432   0.288   0.218   0.232   0.013  -0.118   0.391   0.153   0.014
74    E        -0.598  -0.549  -0.570  -0.523  -0.441  -0.477  -0.760  -0.680  -0.693
75    H         1.259   1.285   1.335   1.504   1.538   1.613   1.350   1.387   1.462
76    P         1.259   1.285   1.335   1.335   1.359   1.451   1.350   1.387   1.462
77    V         0.432   0.447   0.245   0.686   0.707   0.440   0.391   0.413   0.062
78    I        -1.182  -1.211  -1.109  -1.164  -1.197  -1.028  -1.144  -1.151  -1.010
79    T         0.091   0.065   0.112  -0.004  -0.078  -0.036  -0.185  -0.239  -0.179
80    G         0.432   0.288   0.218   0.283   0.092  -0.008   0.391   0.153   0.014
81    F        -1.606  -1.581  -1.519  -1.359  -1.364  -1.250  -1.336  -1.296  -1.190
82    G         0.432   0.288   0.218   0.232   0.013  -0.118   0.391   0.153   0.014
83    A        -1.182  -1.211  -1.109  -1.418  -1.412  -1.244  -1.144  -1.151  -1.010
84    F         0.091   0.049   0.104   0.021  -0.088  -0.033  -0.185  -0.269  -0.195
85    L        -1.606  -1.595  -1.517  -1.694  -1.653  -1.563  -1.336  -1.308  -1.189
86    T        -1.182  -1.175  -1.118  -1.285  -1.312  -1.201  -1.144  -1.120  -1.019
87    L         0.091   0.136   0.142  -0.203  -0.125  -0.142  -0.185  -0.109  -0.124
88    Y         1.259   1.285   1.335   1.473   1.510   1.583   1.350   1.387   1.462
89    F        -0.333  -0.407  -0.525  -0.132  -0.274  -0.473  -0.377  -0.482  -0.629
90    T        -1.022  -1.014  -1.073  -1.154  -1.166  -1.267  -0.952  -0.942  -0.971
91    A        -0.333  -0.457  -0.536  -0.413  -0.632  -0.758  -0.377  -0.545  -0.644
92    G         0.432   0.288   0.218   0.232   0.013  -0.118   0.391   0.153   0.014
93    A        -0.758  -0.715  -0.616  -0.882  -0.794  -0.657  -0.952  -0.887  -0.749
94    Y        -1.022  -1.071  -1.098  -0.669  -0.749  -0.811  -0.952  -1.002  -0.997
95    K         1.259   1.285   1.335   1.069   1.117   1.197   1.350   1.387   1.462
96    S        -0.333  -0.407  -0.525  -0.141  -0.239  -0.480  -0.377  -0.482  -0.629
97    I        -1.606  -1.581  -1.519  -1.439  -1.415  -1.343  -1.336  -1.296  -1.190
98    S        -0.598  -0.646  -0.574  -0.655  -0.742  -0.638  -0.760  -0.798  -0.697
99    K        -1.182  -1.186  -1.117  -1.347  -1.362  -1.237  -1.144  -1.130  -1.018
100   G         0.091   0.162   0.159  -0.158  -0.051  -0.035  -0.185  -0.063  -0.093
101   L        -0.598  -0.665  -0.594  -0.758  -0.867  -0.760  -0.760  -0.826  -0.722
102   N        -0.333  -0.412  -0.517  -0.167  -0.263  -0.488  -0.377  -0.488  -0.618
103   G         1.259   1.285   1.335   1.035   1.077   1.164   1.350   1.387   1.462
104   G        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
105   K        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
106   S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
107   T        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
108   T        -0.677  -0.634  -0.607  -0.862  -0.800  -0.721  -0.860  -0.798  -0.739
109   A        -0.598  -0.566  -0.578  -0.862  -0.812  -0.839  -0.760  -0.724  -0.704
110   F         0.432   0.503   0.261   0.661   0.759   0.418   0.391   0.499   0.090
111   L        -0.598  -0.665  -0.594  -0.678  -0.755  -0.636  -0.760  -0.826  -0.722
112   K         1.259   1.285   1.335   1.069   1.117   1.197   1.350   1.387   1.462
113   G         1.259   1.285   1.335   1.035   1.077   1.164   1.350   1.387   1.462
114   G         0.432   0.447   0.245   0.272   0.299   0.011   0.391   0.413   0.062
115   F         1.259   1.285   1.335   1.399   1.436   1.513   1.350   1.387   1.462
116   D        -0.598  -0.665  -0.594  -0.688  -0.781  -0.693  -0.760  -0.826  -0.722
117   P        -1.022  -1.071  -1.098  -0.907  -0.991  -1.072  -0.952  -1.002  -0.997
118   K         1.259   1.285   1.335   1.069   1.117   1.197   1.350   1.387   1.462
119   M         1.259   1.285   1.335   1.436   1.470   1.548   1.350   1.387   1.462
120   N        -0.598  -0.665  -0.594  -0.630  -0.751  -0.675  -0.760  -0.826  -0.722
121   S        -0.598  -0.549  -0.576  -0.747  -0.689  -0.674  -0.760  -0.709  -0.703
122   K         0.432   0.288   0.218   0.318   0.130   0.023   0.391   0.153   0.014
123   E         1.259   1.285   1.335   1.367   1.395   1.482   1.350   1.387   1.462
124   A         1.259   1.285   1.335   1.143   1.177   1.267   1.350   1.387   1.462
125   L         1.259   1.285   1.335   1.176   1.211   1.299   1.350   1.387   1.462
126   Q         0.432   0.503   0.261   0.495   0.594   0.204   0.391   0.499   0.090
127   I         1.259   1.285   1.335   1.389   1.427   1.503   1.350   1.387   1.462
128   L         1.259   1.285   1.335   1.176   1.211   1.299   1.350   1.387   1.462
129   N         0.432   0.288   0.218   0.608   0.412   0.281   0.391   0.153   0.014
130   L         1.259   1.285   1.335   1.176   1.211   1.299   1.350   1.387   1.462
131   T        -1.022  -1.019  -1.070  -1.009  -0.977  -1.024  -0.952  -0.947  -0.969
132   E         0.432   0.288   0.218   0.618   0.409   0.297   0.391   0.153   0.014
133   N        -0.598  -0.644  -0.576  -0.594  -0.668  -0.589  -0.760  -0.796  -0.700
134   T        -0.333  -0.384  -0.523  -0.196  -0.305  -0.549  -0.377  -0.453  -0.627
135   L         1.259   1.285   1.335   1.176   1.211   1.299   1.350   1.387   1.462
136   T        -0.013   0.019   0.101  -0.088  -0.034   0.090  -0.377  -0.325  -0.200
137   K        -1.022  -1.073  -1.082  -1.053  -1.100  -1.095  -0.952  -1.003  -0.981
138   K        -1.022  -1.071  -1.098  -1.201  -1.251  -1.326  -0.952  -1.002  -0.997
139   K         1.259   1.285   1.335   1.069   1.117   1.197   1.350   1.387   1.462
140   L         1.259   1.285   1.335   1.176   1.211   1.299   1.350   1.387   1.462
141   K         1.259   1.285   1.335   1.069   1.117   1.197   1.350   1.387   1.462
142   E         0.432   0.288   0.218   0.545   0.299   0.141   0.391   0.153   0.014
143   V        -0.013   0.027   0.109  -0.145  -0.089   0.042  -0.377  -0.309  -0.186
144   H         1.259   1.285   1.335   1.504   1.538   1.613   1.350   1.387   1.462
145   R         1.259   1.285   1.335   1.504   1.530   1.613   1.350   1.387   1.462
146   K         0.432   0.503   0.261   0.343   0.447   0.136   0.391   0.499   0.090
147   I         0.091   0.136   0.142   0.011   0.094   0.057  -0.185  -0.109  -0.124
148   M         1.259   1.285   1.335   1.436   1.470   1.548   1.350   1.387   1.462
149   L         0.091   0.136   0.142  -0.064   0.007   0.020  -0.185  -0.109  -0.124
150   A         0.432   0.288   0.218   0.347   0.123  -0.004   0.391   0.153   0.014
151   N         1.259   1.285   1.335   1.362   1.407   1.477   1.350   1.387   1.462
152   H         1.259   1.285   1.335   1.504   1.538   1.613   1.350   1.387   1.462
153   P         1.259   1.285   1.335   1.335   1.359   1.451   1.350   1.387   1.462
154   D         1.259   1.285   1.335   1.415   1.452   1.528   1.350   1.387   1.462
155   K         0.432   0.288   0.218   0.343   0.165   0.075   0.391   0.153   0.014
156   G         1.259   1.285   1.335   1.035   1.077   1.164   1.350   1.387   1.462
157   G         1.259   1.285   1.335   1.035   1.077   1.164   1.350   1.387   1.462
158   S         1.259   1.285   1.335   1.389   1.424   1.503   1.350   1.387   1.462
159   P         0.091   0.136   0.142   0.058   0.122   0.124  -0.185  -0.109  -0.124
160   F         0.432   0.539   0.257   0.719   0.863   0.450   0.391   0.553   0.083
161   L        -0.333  -0.405  -0.519  -0.289  -0.394  -0.543  -0.377  -0.479  -0.620
162   A         1.259   1.285   1.335   1.143   1.177   1.267   1.350   1.387   1.462
163   T         1.259   1.285   1.335   1.389   1.425   1.503   1.350   1.387   1.462
164   K         1.259   1.285   1.335   1.069   1.117   1.197   1.350   1.387   1.462
165   I         0.432   0.447   0.245   0.636   0.663   0.354   0.391   0.413   0.062
166   N         1.259   1.285   1.335   1.362   1.407   1.477   1.350   1.387   1.462
167   E         1.259   1.285   1.335   1.367   1.395   1.482   1.350   1.387   1.462
168   A         1.259   1.285   1.335   1.143   1.177   1.267   1.350   1.387   1.462
169   K         1.259   1.285   1.335   1.069   1.117   1.197   1.350   1.387   1.462
170   D         0.432   0.288   0.218   0.660   0.456   0.327   0.391   0.153   0.014
171   F        -0.333  -0.457  -0.536  -0.075  -0.257  -0.394  -0.377  -0.545  -0.644
172   L         1.259   1.285   1.335   1.176   1.211   1.299   1.350   1.387   1.462
173   E         0.432   0.513   0.261   0.618   0.720   0.367   0.391   0.513   0.089
174   K         1.259   1.285   1.335   1.069   1.117   1.197   1.350   1.387   1.462
175   R         0.091   0.162   0.159   0.073   0.206   0.144  -0.185  -0.063  -0.093
176   G         1.259   1.285   1.335   1.026   1.065   1.155   1.350   1.387   1.462
177   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
178   -        -1.186  -1.068  -1.085  -1.147  -0.982  -0.983  -1.136  -0.991  -0.984
179   I        -0.677  -0.626  -0.609  -0.857  -0.783  -0.725  -0.860  -0.789  -0.740
180   S        -1.186  -1.153  -1.120  -1.035  -0.994  -0.997  -1.136  -1.085  -1.020
181   K         1.259   1.285   1.335   1.069   1.117   1.197   1.350   1.387   1.462
* 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/Q07914
Output conservation file - output/Q07914
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
