1     M         0.809   0.820   0.861   1.086   1.096   1.132   0.843   0.858   0.914
2     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
3     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
4     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
5     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
6     A         0.809   0.820   0.861   0.712   0.723   0.804   0.843   0.858   0.914
7     T         0.105   0.139  -0.223   0.233   0.274  -0.276   0.086   0.135  -0.459
8     N         0.809   0.820   0.861   0.910   0.929   0.978   0.843   0.858   0.914
9     I         0.809   0.820   0.861   0.719   0.739   0.810   0.843   0.858   0.914
10    T         0.809   0.820   0.861   0.843   0.856   0.919   0.843   0.858   0.914
11    W         0.105  -0.041  -0.233   0.482   0.292  -0.049   0.086  -0.133  -0.477
12    H         0.809   0.820   0.861   1.014   1.024   1.070   0.843   0.858   0.914
13    P        -1.459  -1.328  -1.444  -1.310  -1.122  -1.341  -1.429  -1.270  -1.348
14    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
15    N        -0.874  -0.982  -0.977  -0.765  -0.965  -0.982  -0.996  -1.149  -1.106
16    L         0.105  -0.041  -0.233   0.038  -0.139  -0.423   0.086  -0.133  -0.477
17    T        -0.242  -0.223  -0.290  -0.266  -0.243  -0.406  -0.455  -0.427  -0.578
18    Y        -1.539  -1.628  -1.481  -1.317  -1.448  -1.295  -1.537  -1.597  -1.384
19    D        -1.783  -1.859  -1.845  -1.452  -1.601  -1.573  -1.537  -1.610  -1.528
20    E         0.809   0.820   0.861   0.669   0.684   0.766   0.843   0.858   0.914
21    R         0.809   0.820   0.861   0.778   0.799   0.862   0.843   0.858   0.914
22    K        -1.985  -2.058  -1.866  -1.977  -2.091  -1.814  -1.753  -1.800  -1.545
23    A        -1.661  -1.668  -1.481  -1.843  -1.835  -1.528  -1.645  -1.636  -1.384
24    L         0.105  -0.041  -0.233   0.049  -0.121  -0.390   0.086  -0.133  -0.477
25    R        -0.242  -0.333  -0.300  -0.299  -0.458  -0.423  -0.455  -0.615  -0.595
26    K        -1.013  -0.991  -0.977  -1.111  -1.087  -1.010  -1.212  -1.189  -1.106
27    Q         0.105  -0.041  -0.233   0.394   0.211  -0.093   0.086  -0.133  -0.477
28    D        -1.985  -1.987  -1.862  -1.889  -1.881  -1.717  -1.753  -1.740  -1.542
29    G         0.809   0.820   0.861   0.833   0.843   0.910   0.843   0.858   0.914
30    C        -1.539  -1.628  -1.481  -1.248  -1.359  -1.144  -1.537  -1.597  -1.384
31    T         0.809   0.820   0.861   0.843   0.856   0.919   0.843   0.858   0.914
32    I        -1.013  -0.990  -0.973  -1.184  -1.148  -1.128  -1.212  -1.161  -1.101
33    W         0.809   0.820   0.861   1.070   1.084   1.119   0.843   0.858   0.914
34    L        -0.874  -1.029  -0.977  -0.911  -1.093  -0.963  -0.996  -1.187  -1.105
35    T         0.809   0.820   0.861   0.843   0.856   0.919   0.843   0.858   0.914
36    G         0.809   0.820   0.861   0.833   0.843   0.910   0.843   0.858   0.914
37    L         0.809   0.820   0.861   0.635   0.664   0.736   0.843   0.858   0.914
38    S         0.809   0.820   0.861   0.768   0.788   0.853   0.843   0.858   0.914
39    A         0.809   0.820   0.861   0.712   0.723   0.804   0.843   0.858   0.914
40    S         0.809   0.820   0.861   0.768   0.788   0.853   0.843   0.858   0.914
41    G         0.809   0.820   0.861   0.833   0.843   0.910   0.843   0.858   0.914
42    K         0.809   0.820   0.861   0.758   0.781   0.845   0.843   0.858   0.914
43    S         0.809   0.820   0.861   0.768   0.788   0.853   0.843   0.858   0.914
44    T         0.809   0.820   0.861   0.843   0.856   0.919   0.843   0.858   0.914
45    I         0.105   0.043  -0.230   0.122   0.047  -0.350   0.086  -0.005  -0.471
46    A         0.809   0.820   0.861   0.712   0.723   0.804   0.843   0.858   0.914
47    C        -0.242  -0.290  -0.297  -0.054  -0.144  -0.239  -0.455  -0.540  -0.590
48    A         0.809   0.820   0.861   0.712   0.723   0.804   0.843   0.858   0.914
49    L         0.809   0.820   0.861   0.635   0.664   0.736   0.843   0.858   0.914
50    E         0.809   0.820   0.861   0.669   0.684   0.766   0.843   0.858   0.914
51    Q         0.809   0.820   0.861   0.970   0.983   1.031   0.843   0.858   0.914
52    L        -1.985  -2.078  -1.868  -1.906  -1.983  -1.641  -1.753  -1.813  -1.547
53    L        -0.242  -0.178  -0.266  -0.485  -0.373  -0.544  -0.455  -0.352  -0.535
54    L         0.809   0.820   0.861   0.635   0.664   0.736   0.843   0.858   0.914
55    Q        -1.783  -1.676  -1.829  -1.329  -1.195  -1.480  -1.537  -1.426  -1.515
56    K        -1.539  -1.564  -1.474  -1.593  -1.608  -1.472  -1.537  -1.538  -1.377
57    N        -0.566  -0.533  -0.921  -0.359  -0.328  -0.900  -0.563  -0.521  -1.032
58    L        -0.566  -0.732  -0.938  -0.573  -0.788  -1.111  -0.563  -0.781  -1.054
59    S        -1.539  -1.628  -1.481  -1.508  -1.616  -1.433  -1.537  -1.597  -1.384
60    A        -1.459  -1.523  -1.473  -1.430  -1.528  -1.400  -1.429  -1.486  -1.376
61    Y         0.809   0.820   0.861   0.942   0.956   1.006   0.843   0.858   0.914
62    R         0.809   0.820   0.861   0.778   0.799   0.862   0.843   0.858   0.914
63    L         0.809   0.820   0.861   0.635   0.664   0.736   0.843   0.858   0.914
64    D         0.809   0.820   0.861   0.827   0.841   0.905   0.843   0.858   0.914
65    G         0.809   0.820   0.861   0.833   0.843   0.910   0.843   0.858   0.914
66    D         0.809   0.820   0.861   0.827   0.841   0.905   0.843   0.858   0.914
67    N         0.809   0.820   0.861   0.910   0.929   0.978   0.843   0.858   0.914
68    I        -0.487  -0.442  -0.312  -0.758  -0.676  -0.470  -0.888  -0.810  -0.617
69    R         0.809   0.820   0.861   0.778   0.799   0.862   0.843   0.858   0.914
70    F         0.809   0.820   0.861   0.933   0.941   0.998   0.843   0.858   0.914
71    G         0.809   0.820   0.861   0.833   0.843   0.910   0.843   0.858   0.914
72    L         0.809   0.820   0.861   0.635   0.664   0.736   0.843   0.858   0.914
73    N         0.809   0.820   0.861   0.910   0.929   0.978   0.843   0.858   0.914
74    K         0.105  -0.041  -0.233   0.148  -0.038  -0.363   0.086  -0.133  -0.477
75    D         0.809   0.820   0.861   0.827   0.841   0.905   0.843   0.858   0.914
76    L         0.809   0.820   0.861   0.635   0.664   0.736   0.843   0.858   0.914
77    G         0.809   0.820   0.861   0.833   0.843   0.910   0.843   0.858   0.914
78    F         0.809   0.820   0.861   0.933   0.941   0.998   0.843   0.858   0.914
79    S         0.809   0.820   0.861   0.768   0.788   0.853   0.843   0.858   0.914
80    E         0.809   0.820   0.861   0.669   0.684   0.766   0.843   0.858   0.914
81    K        -1.661  -1.640  -1.479  -1.688  -1.662  -1.401  -1.645  -1.618  -1.383
82    D         0.809   0.820   0.861   0.827   0.841   0.905   0.843   0.858   0.914
83    R         0.809   0.820   0.861   0.778   0.799   0.862   0.843   0.858   0.914
84    N         0.809   0.820   0.861   0.910   0.929   0.978   0.843   0.858   0.914
85    E         0.809   0.820   0.861   0.669   0.684   0.766   0.843   0.858   0.914
86    N         0.809   0.820   0.861   0.910   0.929   0.978   0.843   0.858   0.914
87    I         0.809   0.820   0.861   0.719   0.739   0.810   0.843   0.858   0.914
88    R         0.809   0.820   0.861   0.778   0.799   0.862   0.843   0.858   0.914
89    R         0.809   0.820   0.861   0.778   0.799   0.862   0.843   0.858   0.914
90    I         0.809   0.820   0.861   0.719   0.739   0.810   0.843   0.858   0.914
91    S        -0.566  -0.761  -0.941  -0.444  -0.715  -1.031  -0.563  -0.818  -1.057
92    E         0.105  -0.041  -0.233   0.095  -0.082  -0.328   0.086  -0.133  -0.477
93    V         0.809   0.820   0.861   0.859   0.859   0.933   0.843   0.858   0.914
94    S        -0.428  -0.329  -0.287  -0.721  -0.552  -0.499  -0.780  -0.608  -0.572
95    K         0.809   0.820   0.861   0.758   0.781   0.845   0.843   0.858   0.914
96    L         0.809   0.820   0.861   0.635   0.664   0.736   0.843   0.858   0.914
97    F         0.809   0.820   0.861   0.933   0.941   0.998   0.843   0.858   0.914
98    A        -1.198  -1.144  -1.442  -1.052  -0.989  -1.409  -1.104  -1.039  -1.345
99    D         0.809   0.820   0.861   0.827   0.841   0.905   0.843   0.858   0.914
100   S         0.105  -0.041  -0.233   0.150  -0.045  -0.379   0.086  -0.133  -0.477
101   C        -0.566  -0.657  -0.934  -0.174  -0.303  -0.817  -0.563  -0.679  -1.049
102   A        -1.985  -1.946  -1.858  -1.688  -1.656  -1.608  -1.753  -1.713  -1.539
103   I        -0.242  -0.333  -0.300  -0.357  -0.514  -0.466  -0.455  -0.615  -0.595
104   S        -1.214  -1.149  -0.995  -1.447  -1.361  -1.123  -1.429  -1.345  -1.126
105   I        -1.214  -1.197  -1.000  -1.545  -1.515  -1.194  -1.429  -1.398  -1.132
106   T         0.809   0.820   0.861   0.843   0.856   0.919   0.843   0.858   0.914
107   S         0.809   0.820   0.861   0.768   0.788   0.853   0.843   0.858   0.914
108   F         0.809   0.820   0.861   0.933   0.941   0.998   0.843   0.858   0.914
109   I         0.809   0.820   0.861   0.719   0.739   0.810   0.843   0.858   0.914
110   S         0.809   0.820   0.861   0.768   0.788   0.853   0.843   0.858   0.914
111   P         0.809   0.820   0.861   0.933   0.944   0.998   0.843   0.858   0.914
112   Y         0.809   0.820   0.861   0.942   0.956   1.006   0.843   0.858   0.914
113   R        -0.566  -0.569  -0.926  -0.404  -0.406  -0.924  -0.563  -0.566  -1.038
114   V        -1.985  -1.806  -1.847  -1.970  -1.736  -1.780  -1.753  -1.590  -1.531
115   D         0.809   0.820   0.861   0.827   0.841   0.905   0.843   0.858   0.914
116   R         0.809   0.820   0.861   0.778   0.799   0.862   0.843   0.858   0.914
117   D        -1.013  -0.959  -0.977  -0.998  -0.937  -0.942  -1.212  -1.156  -1.107
118   R        -2.431  -2.452  -2.181  -2.422  -2.417  -2.051  -1.970  -1.964  -1.652
119   A         0.809   0.820   0.861   0.712   0.723   0.804   0.843   0.858   0.914
120   R         0.809   0.820   0.861   0.778   0.799   0.862   0.843   0.858   0.914
121   E         0.105   0.043  -0.230   0.067  -0.010  -0.404   0.086  -0.005  -0.471
122   L         0.105  -0.041  -0.233   0.049  -0.121  -0.390   0.086  -0.133  -0.477
123   H         0.809   0.820   0.861   1.014   1.024   1.070   0.843   0.858   0.914
124   K        -1.013  -1.038  -0.982  -1.256  -1.285  -1.197  -1.212  -1.225  -1.112
125   E        -1.539  -1.564  -1.474  -1.676  -1.682  -1.533  -1.537  -1.538  -1.377
126   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
127   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
128   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
129   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
130   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
131   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
132   A        -1.459  -1.329  -1.455  -1.417  -1.222  -1.441  -1.429  -1.272  -1.358
133   G        -1.539  -1.492  -1.470  -1.458  -1.409  -1.377  -1.537  -1.486  -1.374
134   L         0.809   0.820   0.861   0.635   0.664   0.736   0.843   0.858   0.914
135   K        -0.874  -0.694  -0.950  -0.758  -0.493  -0.933  -0.996  -0.754  -1.069
136   F         0.809   0.820   0.861   0.933   0.941   0.998   0.843   0.858   0.914
137   I        -0.428  -0.399  -0.306  -0.666  -0.629  -0.475  -0.780  -0.733  -0.606
138   E         0.809   0.820   0.861   0.669   0.684   0.766   0.843   0.858   0.914
139   I         0.105   0.179  -0.220   0.242   0.318  -0.277   0.086   0.189  -0.454
140   F        -0.487  -0.460  -0.316  -0.544  -0.510  -0.297  -0.888  -0.843  -0.624
141   V         0.105   0.181  -0.218   0.242   0.320  -0.272   0.086   0.193  -0.449
142   D         0.105  -0.041  -0.233   0.203   0.001  -0.349   0.086  -0.133  -0.477
143   V         0.105  -0.041  -0.233   0.288   0.096  -0.169   0.086  -0.133  -0.477
144   P         0.809   0.820   0.861   0.933   0.944   0.998   0.843   0.858   0.914
145   L        -0.874  -0.952  -0.971  -1.014  -1.135  -1.149  -0.996  -1.103  -1.098
146   E         0.105   0.043  -0.230   0.050  -0.031  -0.453   0.086  -0.005  -0.471
147   V         0.105   0.043  -0.230   0.235   0.137  -0.316   0.086  -0.005  -0.471
148   A         0.809   0.820   0.861   0.712   0.723   0.804   0.843   0.858   0.914
149   E         0.809   0.820   0.861   0.669   0.684   0.766   0.843   0.858   0.914
150   Q        -0.566  -0.600  -0.928  -0.234  -0.287  -0.838  -0.563  -0.607  -1.041
151   R         0.809   0.820   0.861   0.778   0.799   0.862   0.843   0.858   0.914
152   D         0.809   0.820   0.861   0.827   0.841   0.905   0.843   0.858   0.914
153   P         0.809   0.820   0.861   0.933   0.944   0.998   0.843   0.858   0.914
154   K         0.809   0.820   0.861   0.758   0.781   0.845   0.843   0.858   0.914
155   G         0.809   0.820   0.861   0.833   0.843   0.910   0.843   0.858   0.914
156   L         0.809   0.820   0.861   0.635   0.664   0.736   0.843   0.858   0.914
157   Y         0.809   0.820   0.861   0.942   0.956   1.006   0.843   0.858   0.914
158   K         0.809   0.820   0.861   0.758   0.781   0.845   0.843   0.858   0.914
159   K         0.105  -0.041  -0.233   0.149  -0.036  -0.359   0.086  -0.133  -0.477
160   A         0.809   0.820   0.861   0.712   0.723   0.804   0.843   0.858   0.914
161   R         0.809   0.820   0.861   0.778   0.799   0.862   0.843   0.858   0.914
162   E        -1.013  -0.947  -0.975  -1.248  -1.194  -1.111  -1.212  -1.150  -1.104
163   G         0.809   0.820   0.861   0.833   0.843   0.910   0.843   0.858   0.914
164   V        -1.459  -1.487  -1.467  -1.514  -1.609  -1.519  -1.429  -1.472  -1.371
165   I         0.809   0.820   0.861   0.719   0.739   0.810   0.843   0.858   0.914
166   K         0.105   0.076  -0.226   0.172   0.145  -0.281   0.086   0.044  -0.464
167   E        -0.242  -0.223  -0.290  -0.416  -0.392  -0.506  -0.455  -0.427  -0.578
168   F         0.809   0.820   0.861   0.933   0.941   0.998   0.843   0.858   0.914
169   T         0.809   0.820   0.861   0.843   0.856   0.919   0.843   0.858   0.914
170   G         0.809   0.820   0.861   0.833   0.843   0.910   0.843   0.858   0.914
171   I         0.809   0.820   0.861   0.719   0.739   0.810   0.843   0.858   0.914
172   S         0.809   0.820   0.861   0.768   0.788   0.853   0.843   0.858   0.914
173   A         0.809   0.820   0.861   0.712   0.723   0.804   0.843   0.858   0.914
174   P         0.809   0.820   0.861   0.933   0.944   0.998   0.843   0.858   0.914
175   Y         0.809   0.820   0.861   0.942   0.956   1.006   0.843   0.858   0.914
176   E         0.809   0.820   0.861   0.669   0.684   0.766   0.843   0.858   0.914
177   A        -0.566  -0.368  -0.913  -0.506  -0.266  -1.039  -0.563  -0.310  -1.021
178   P         0.809   0.820   0.861   0.933   0.944   0.998   0.843   0.858   0.914
179   K        -2.309  -2.206  -2.162  -2.320  -2.177  -2.172  -1.861  -1.770  -1.640
180   A        -1.013  -0.941  -0.973  -1.191  -1.090  -1.123  -1.212  -1.126  -1.101
181   P         0.105   0.181  -0.218   0.315   0.403  -0.215   0.086   0.193  -0.449
182   E         0.809   0.820   0.861   0.669   0.684   0.766   0.843   0.858   0.914
183   L        -0.428  -0.329  -0.287  -0.787  -0.591  -0.563  -0.780  -0.608  -0.572
184   H        -0.566  -0.761  -0.941  -0.175  -0.454  -0.791  -0.563  -0.818  -1.057
185   L        -1.135  -1.181  -1.004  -1.411  -1.489  -1.202  -1.321  -1.378  -1.138
186   R        -1.013  -1.093  -0.985  -1.171  -1.271  -1.114  -1.212  -1.283  -1.116
187   T        -1.135  -1.145  -0.999  -1.187  -1.229  -1.023  -1.321  -1.334  -1.131
188   D        -1.539  -1.443  -1.466  -1.324  -1.208  -1.210  -1.537  -1.439  -1.371
189   Q        -1.985  -2.008  -1.852  -1.946  -1.998  -1.786  -1.753  -1.755  -1.534
190   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
191   K        -2.107  -2.075  -1.862  -2.068  -2.012  -1.713  -1.861  -1.817  -1.542
192   T         0.105   0.179  -0.220   0.169   0.261  -0.301   0.086   0.189  -0.454
193   V        -0.487  -0.462  -0.316  -0.758  -0.736  -0.489  -0.888  -0.846  -0.625
194   E         0.809   0.820   0.861   0.669   0.684   0.766   0.843   0.858   0.914
195   E        -0.874  -0.814  -0.964  -0.944  -0.880  -1.033  -0.996  -0.925  -1.089
196   C        -0.428  -0.399  -0.306  -0.459  -0.417  -0.328  -0.780  -0.733  -0.606
197   A        -0.428  -0.461  -0.317  -0.672  -0.746  -0.493  -0.780  -0.844  -0.627
198   T        -2.431  -2.286  -2.168  -2.425  -2.227  -2.055  -1.970  -1.852  -1.644
199   I        -1.214  -1.149  -0.995  -1.349  -1.251  -1.046  -1.429  -1.345  -1.126
200   I         0.809   0.820   0.861   0.719   0.739   0.810   0.843   0.858   0.914
201   Y        -1.135  -1.151  -0.995  -1.144  -1.200  -0.997  -1.321  -1.343  -1.127
202   E        -1.459  -1.514  -1.458  -1.372  -1.417  -1.352  -1.429  -1.463  -1.361
203   Y         0.809   0.820   0.861   0.942   0.956   1.006   0.843   0.858   0.914
204   L         0.809   0.820   0.861   0.635   0.664   0.736   0.843   0.858   0.914
205   I        -2.431  -2.358  -2.169  -2.396  -2.318  -2.003  -1.970  -1.902  -1.645
206   S        -1.539  -1.486  -1.462  -1.683  -1.612  -1.539  -1.537  -1.470  -1.367
207   E        -1.539  -1.526  -1.470  -1.676  -1.639  -1.527  -1.537  -1.504  -1.374
208   K        -1.459  -1.534  -1.466  -1.393  -1.506  -1.393  -1.429  -1.500  -1.370
209   I        -1.539  -1.421  -1.465  -1.573  -1.440  -1.468  -1.537  -1.422  -1.370
210   I        -0.242  -0.239  -0.281  -0.357  -0.358  -0.436  -0.455  -0.453  -0.562
211   R        -2.200  -2.148  -1.875  -2.079  -2.018  -1.649  -1.926  -1.869  -1.551
212   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
213   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
214   K        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
215   H        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
216   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
217   L        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
* 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/Q02196
Output conservation file - output/Q02196
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
