1     M         0.787   0.807   0.847   1.128   1.145   1.160   0.823   0.849   0.906
2     G         0.787   0.807   0.847   0.662   0.687   0.773   0.823   0.849   0.906
3     I         0.787   0.807   0.847   0.909   0.932   0.978   0.823   0.849   0.906
4     S        -0.319  -0.224  -0.355  -0.356  -0.218  -0.440  -0.492  -0.348  -0.592
5     R         0.787   0.807   0.847   0.515   0.554   0.651   0.823   0.849   0.906
6     D         0.787   0.807   0.847   1.040   1.054   1.087   0.823   0.849   0.906
7     S         0.787   0.807   0.847   0.746   0.779   0.843   0.823   0.849   0.906
8     R         0.787   0.807   0.847   0.515   0.554   0.651   0.823   0.849   0.906
9     H         0.787   0.807   0.847   1.018   1.035   1.069   0.823   0.849   0.906
10    K         0.787   0.807   0.847   0.605   0.644   0.726   0.823   0.849   0.906
11    R         0.787   0.807   0.847   0.515   0.554   0.651   0.823   0.849   0.906
12    S        -0.542  -0.386  -0.397  -0.846  -0.560  -0.648  -0.867  -0.610  -0.664
13    A        -0.319  -0.497  -0.414  -0.481  -0.728  -0.552  -0.492  -0.800  -0.694
14    T         0.787   0.807   0.847   0.830   0.862   0.913   0.823   0.849   0.906
15    G         0.787   0.807   0.847   0.662   0.687   0.773   0.823   0.849   0.906
16    A         0.787   0.807   0.847   0.562   0.606   0.690   0.823   0.849   0.906
17    K         0.787   0.807   0.847   0.605   0.644   0.726   0.823   0.849   0.906
18    R         0.059   0.137  -0.341  -0.116  -0.009  -0.687   0.072   0.176  -0.567
19    A         0.059  -0.176  -0.355  -0.032  -0.312  -0.553   0.072  -0.272  -0.592
20    Q        -0.641  -0.973  -1.116  -0.228  -0.689  -0.953  -0.585  -1.011  -1.186
21    F        -1.170  -1.308  -1.146  -0.937  -1.128  -0.918  -1.337  -1.466  -1.225
22    R         0.059  -0.176  -0.355  -0.061  -0.329  -0.525   0.072  -0.272  -0.592
23    K         0.787   0.807   0.847   0.605   0.644   0.726   0.823   0.849   0.906
24    K         0.787   0.807   0.847   0.605   0.644   0.726   0.823   0.849   0.906
25    R         0.787   0.807   0.847   0.515   0.554   0.651   0.823   0.849   0.906
26    K         0.059  -0.062  -0.347  -0.029  -0.176  -0.648   0.072  -0.100  -0.578
27    F         0.787   0.807   0.847   0.984   1.007   1.040   0.823   0.849   0.906
28    E         0.787   0.807   0.847   0.820   0.848   0.905   0.823   0.849   0.906
29    L        -0.641  -0.973  -1.116  -0.317  -0.747  -1.021  -0.585  -1.011  -1.186
30    G         0.787   0.807   0.847   0.662   0.687   0.773   0.823   0.849   0.906
31    R         0.787   0.807   0.847   0.515   0.554   0.651   0.823   0.849   0.906
32    Q         0.787   0.807   0.847   0.956   0.974   1.017   0.823   0.849   0.906
33    P        -0.641  -0.748  -1.105  -0.239  -0.432  -1.094  -0.585  -0.747  -1.173
34    A        -0.319  -0.224  -0.355  -0.562  -0.411  -0.614  -0.492  -0.348  -0.592
35    N         0.059  -0.176  -0.355   0.383   0.082  -0.249   0.072  -0.272  -0.592
36    T         0.787   0.807   0.847   0.830   0.862   0.913   0.823   0.849   0.906
37    K        -0.648  -0.594  -0.418  -1.239  -1.162  -0.831  -1.055  -0.972  -0.701
38    I         0.787   0.807   0.847   0.909   0.932   0.978   0.823   0.849   0.906
39    G         0.787   0.807   0.847   0.662   0.687   0.773   0.823   0.849   0.906
40    A        -1.751  -1.506  -1.655  -1.687  -1.378  -1.580  -1.713  -1.468  -1.482
41    K         0.787   0.807   0.847   0.605   0.644   0.726   0.823   0.849   0.906
42    R         0.787   0.807   0.847   0.515   0.554   0.651   0.823   0.849   0.906
43    I         0.787   0.807   0.847   0.909   0.932   0.978   0.823   0.849   0.906
44    H         0.787   0.807   0.847   1.018   1.035   1.069   0.823   0.849   0.906
45    S        -2.394  -2.182  -2.082  -2.310  -2.040  -1.868  -2.088  -1.895  -1.663
46    V         0.787   0.807   0.847   0.881   0.893   0.955   0.823   0.849   0.906
47    R         0.787   0.807   0.847   0.515   0.554   0.651   0.823   0.849   0.906
48    T        -0.319  -0.224  -0.355  -0.260  -0.128  -0.356  -0.492  -0.348  -0.592
49    R         0.787   0.807   0.847   0.515   0.554   0.651   0.823   0.849   0.906
50    G         0.787   0.807   0.847   0.662   0.687   0.773   0.823   0.849   0.906
51    G         0.787   0.807   0.847   0.662   0.687   0.773   0.823   0.849   0.906
52    N         0.787   0.807   0.847   0.978   1.005   1.035   0.823   0.849   0.906
53    K        -1.751  -1.685  -1.659  -1.712  -1.613  -1.494  -1.713  -1.598  -1.485
54    K         0.787   0.807   0.847   0.605   0.644   0.726   0.823   0.849   0.906
55    Y        -0.319  -0.308  -0.397  -0.081  -0.079  -0.270  -0.492  -0.481  -0.664
56    R         0.787   0.807   0.847   0.515   0.554   0.651   0.823   0.849   0.906
57    A         0.787   0.807   0.847   0.562   0.606   0.690   0.823   0.849   0.906
58    L         0.059  -0.176  -0.355   0.281  -0.013  -0.314   0.072  -0.272  -0.592
59    R         0.787   0.807   0.847   0.515   0.554   0.651   0.823   0.849   0.906
60    I        -1.170  -1.070  -1.135  -1.067  -0.964  -1.013  -1.337  -1.224  -1.212
61    E        -0.542  -0.519  -0.411  -0.558  -0.536  -0.374  -0.867  -0.838  -0.689
62    T        -0.542  -0.519  -0.411  -0.684  -0.662  -0.525  -0.867  -0.838  -0.689
63    G         0.787   0.807   0.847   0.662   0.687   0.773   0.823   0.849   0.906
64    N         0.787   0.807   0.847   0.978   1.005   1.035   0.823   0.849   0.906
65    F         0.787   0.807   0.847   0.984   1.007   1.040   0.823   0.849   0.906
66    S         0.059  -0.062  -0.347   0.113  -0.040  -0.538   0.072  -0.100  -0.578
67    W         0.787   0.807   0.847   1.104   1.123   1.140   0.823   0.849   0.906
68    A        -0.648  -0.569  -0.416  -1.159  -1.017  -0.755  -1.055  -0.926  -0.698
69    S         0.787   0.807   0.847   0.746   0.779   0.843   0.823   0.849   0.906
70    E         0.787   0.807   0.847   0.820   0.848   0.905   0.823   0.849   0.906
71    G         0.787   0.807   0.847   0.662   0.687   0.773   0.823   0.849   0.906
72    I        -1.308  -1.488  -1.650  -0.837  -1.117  -1.307  -1.149  -1.369  -1.476
73    S        -1.429  -1.407  -1.161  -1.746  -1.684  -1.315  -1.619  -1.576  -1.241
74    K        -0.648  -0.535  -0.410  -1.254  -1.046  -0.818  -1.055  -0.867  -0.688
75    K         0.787   0.807   0.847   0.605   0.644   0.726   0.823   0.849   0.906
76    T         0.787   0.807   0.847   0.830   0.862   0.913   0.823   0.849   0.906
77    R         0.787   0.807   0.847   0.515   0.554   0.651   0.823   0.849   0.906
78    I        -0.986  -1.075  -1.136  -0.747  -0.960  -1.013  -1.055  -1.218  -1.213
79    A        -2.273  -2.162  -2.083  -2.176  -2.018  -1.851  -1.994  -1.876  -1.664
80    G        -0.986  -1.015  -1.116  -0.957  -0.995  -1.101  -1.055  -1.068  -1.186
81    V         0.787   0.807   0.847   0.881   0.893   0.955   0.823   0.849   0.906
82    V        -1.170  -1.308  -1.146  -1.275  -1.510  -1.267  -1.337  -1.466  -1.225
83    Y         0.059  -0.176  -0.355   0.408   0.110  -0.197   0.072  -0.272  -0.592
84    H         0.787   0.807   0.847   1.018   1.035   1.069   0.823   0.849   0.906
85    P         0.787   0.807   0.847   1.015   1.032   1.066   0.823   0.849   0.906
86    S         0.787   0.807   0.847   0.746   0.779   0.843   0.823   0.849   0.906
87    N         0.787   0.807   0.847   0.978   1.005   1.035   0.823   0.849   0.906
88    N         0.787   0.807   0.847   0.978   1.005   1.035   0.823   0.849   0.906
89    E         0.787   0.807   0.847   0.820   0.848   0.905   0.823   0.849   0.906
90    L         0.787   0.807   0.847   0.871   0.900   0.947   0.823   0.849   0.906
91    V         0.059  -0.176  -0.355   0.290  -0.020  -0.307   0.072  -0.272  -0.592
92    R         0.787   0.807   0.847   0.515   0.554   0.651   0.823   0.849   0.906
93    T         0.787   0.807   0.847   0.830   0.862   0.913   0.823   0.849   0.906
94    N         0.787   0.807   0.847   0.978   1.005   1.035   0.823   0.849   0.906
95    T         0.787   0.807   0.847   0.830   0.862   0.913   0.823   0.849   0.906
96    L         0.787   0.807   0.847   0.871   0.900   0.947   0.823   0.849   0.906
97    T         0.787   0.807   0.847   0.830   0.862   0.913   0.823   0.849   0.906
98    K         0.787   0.807   0.847   0.605   0.644   0.726   0.823   0.849   0.906
99    A        -0.648  -0.520  -0.406  -1.087  -0.826  -0.669  -1.055  -0.840  -0.680
100   A         0.787   0.807   0.847   0.562   0.606   0.690   0.823   0.849   0.906
101   I        -0.319  -0.334  -0.403  -0.183  -0.226  -0.385  -0.492  -0.523  -0.674
102   V         0.787   0.807   0.847   0.881   0.893   0.955   0.823   0.849   0.906
103   Q         0.787   0.807   0.847   0.956   0.974   1.017   0.823   0.849   0.906
104   I         0.787   0.807   0.847   0.909   0.932   0.978   0.823   0.849   0.906
105   D         0.787   0.807   0.847   1.040   1.054   1.087   0.823   0.849   0.906
106   A         0.787   0.807   0.847   0.562   0.606   0.690   0.823   0.849   0.906
107   T        -0.542  -0.519  -0.411  -0.767  -0.747  -0.624  -0.867  -0.838  -0.689
108   P         0.787   0.807   0.847   1.015   1.032   1.066   0.823   0.849   0.906
109   F         0.787   0.807   0.847   0.984   1.007   1.040   0.823   0.849   0.906
110   R         0.059   0.137  -0.341  -0.116  -0.009  -0.687   0.072   0.176  -0.567
111   Q        -0.319  -0.224  -0.355  -0.138  -0.019  -0.264  -0.492  -0.348  -0.592
112   W         0.787   0.807   0.847   1.104   1.123   1.140   0.823   0.849   0.906
113   F        -0.319  -0.173  -0.378  -0.077   0.113  -0.235  -0.492  -0.268  -0.631
114   E         0.787   0.807   0.847   0.820   0.848   0.905   0.823   0.849   0.906
115   A        -1.951  -1.853  -1.678  -2.105  -1.985  -1.638  -1.900  -1.786  -1.503
116   H         0.059  -0.176  -0.355   0.437   0.136  -0.175   0.072  -0.272  -0.592
117   Y         0.787   0.807   0.847   0.990   1.008   1.046   0.823   0.849   0.906
118   G         0.787   0.807   0.847   0.662   0.687   0.773   0.823   0.849   0.906
119   Q        -1.751  -1.771  -1.667  -1.593  -1.664  -1.584  -1.713  -1.700  -1.493
120   T        -2.394  -2.348  -2.086  -2.262  -2.199  -1.855  -2.088  -2.009  -1.665
121   L        -0.319  -0.224  -0.355  -0.150  -0.027  -0.221  -0.492  -0.348  -0.592
122   G         0.787   0.807   0.847   0.662   0.687   0.773   0.823   0.849   0.906
123   K        -0.986  -1.015  -1.116  -1.145  -1.181  -1.389  -1.055  -1.068  -1.186
124   K         0.059  -0.062  -0.347  -0.035  -0.186  -0.668   0.072  -0.100  -0.578
125   K        -0.986  -1.015  -1.116  -1.174  -1.211  -1.429  -1.055  -1.068  -1.186
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   N        -1.326  -1.411  -1.158  -1.488  -1.694  -1.334  -1.501  -1.580  -1.239
132   V        -2.833  -2.688  -2.428  -2.663  -2.458  -2.068  -2.267  -2.123  -1.779
133   K        -1.094  -1.102  -1.143  -1.337  -1.393  -1.452  -1.197  -1.233  -1.221
134   -        -1.456  -1.370  -1.640  -1.377  -1.270  -1.582  -1.316  -1.222  -1.466
135   E        -1.613  -1.804  -1.671  -1.428  -1.730  -1.564  -1.525  -1.695  -1.495
136   E        -2.194  -2.233  -2.082  -1.954  -2.031  -1.858  -1.900  -1.918  -1.663
137   E        -0.986  -0.821  -1.101  -0.897  -0.671  -1.154  -1.055  -0.841  -1.168
138   T        -2.394  -2.081  -2.069  -2.073  -1.690  -1.625  -2.088  -1.780  -1.652
139   V        -2.394  -2.379  -2.085  -2.311  -2.235  -1.774  -2.088  -2.032  -1.665
140   A        -2.194  -2.094  -2.070  -2.085  -1.966  -1.915  -1.900  -1.796  -1.653
141   K        -1.935  -1.819  -2.063  -1.751  -1.632  -1.915  -1.619  -1.517  -1.648
142   S         0.059  -0.176  -0.355   0.113  -0.207  -0.555   0.072  -0.272  -0.592
143   K        -0.986  -1.093  -1.126  -1.171  -1.292  -1.384  -1.055  -1.166  -1.199
144   N        -2.516  -2.456  -2.090  -2.440  -2.419  -1.907  -2.182  -2.082  -1.668
145   A        -1.613  -1.542  -1.652  -1.408  -1.280  -1.480  -1.525  -1.428  -1.478
146   E        -0.542  -0.556  -0.416  -0.597  -0.638  -0.425  -0.867  -0.903  -0.697
147   R        -0.641  -0.973  -1.116  -0.756  -1.237  -1.501  -0.585  -1.011  -1.186
148   K         0.059  -0.176  -0.355  -0.029  -0.342  -0.664   0.072  -0.272  -0.592
149   W        -2.394  -2.438  -2.093  -1.873  -1.962  -1.539  -2.088  -2.068  -1.670
150   A        -0.319  -0.224  -0.355  -0.562  -0.411  -0.614  -0.492  -0.348  -0.592
151   A        -0.641  -0.695  -1.095  -0.615  -0.679  -1.166  -0.585  -0.659  -1.160
152   R         0.787   0.807   0.847   0.515   0.554   0.651   0.823   0.849   0.906
153   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
154   A        -1.872  -1.888  -1.670  -2.002  -1.979  -1.630  -1.806  -1.781  -1.495
155   A        -0.648  -0.564  -0.417  -1.176  -1.030  -0.764  -1.055  -0.918  -0.699
156   S        -1.951  -1.733  -1.670  -1.992  -1.682  -1.580  -1.900  -1.673  -1.496
157   A        -1.170  -1.190  -1.136  -1.482  -1.483  -1.380  -1.337  -1.319  -1.213
158   K        -0.641  -0.485  -1.091  -0.606  -0.407  -1.226  -0.585  -0.391  -1.155
159   I        -1.229  -1.315  -1.139  -1.179  -1.281  -1.020  -1.431  -1.475  -1.217
160   E        -0.648  -0.594  -0.418  -0.718  -0.621  -0.365  -1.055  -0.972  -0.701
161   S        -0.986  -1.029  -1.136  -0.834  -0.950  -0.982  -1.055  -1.175  -1.213
162   S         0.059   0.216  -0.334  -0.050   0.147  -0.579   0.072   0.278  -0.556
163   V        -0.542  -0.519  -0.411  -0.581  -0.574  -0.425  -0.867  -0.838  -0.689
164   E        -0.542  -0.374  -0.395  -0.558  -0.314  -0.353  -0.867  -0.590  -0.660
165   S        -2.194  -2.297  -2.087  -2.063  -2.294  -1.966  -1.900  -1.959  -1.666
166   Q         0.787   0.807   0.847   0.956   0.974   1.017   0.823   0.849   0.906
167   F         0.787   0.807   0.847   0.984   1.007   1.040   0.823   0.849   0.906
168   S        -2.394  -2.266  -2.079  -2.503  -2.304  -1.969  -2.088  -1.931  -1.660
169   A         0.059   0.163  -0.340  -0.050   0.090  -0.589   0.072   0.211  -0.566
170   G         0.787   0.807   0.847   0.662   0.687   0.773   0.823   0.849   0.906
171   R         0.787   0.807   0.847   0.515   0.554   0.651   0.823   0.849   0.906
172   L         0.787   0.807   0.847   0.871   0.900   0.947   0.823   0.849   0.906
173   Y         0.787   0.807   0.847   0.990   1.008   1.046   0.823   0.849   0.906
174   A         0.787   0.807   0.847   0.562   0.606   0.690   0.823   0.849   0.906
175   C        -1.429  -1.313  -1.154  -1.405  -1.240  -1.059  -1.619  -1.471  -1.234
176   I        -0.542  -0.556  -0.416  -0.551  -0.612  -0.410  -0.867  -0.903  -0.697
177   S         0.787   0.807   0.847   0.746   0.779   0.843   0.823   0.849   0.906
178   S         0.787   0.807   0.847   0.746   0.779   0.843   0.823   0.849   0.906
179   R         0.787   0.807   0.847   0.515   0.554   0.651   0.823   0.849   0.906
180   P         0.787   0.807   0.847   1.015   1.032   1.066   0.823   0.849   0.906
181   G         0.787   0.807   0.847   0.662   0.687   0.773   0.823   0.849   0.906
182   Q         0.787   0.807   0.847   0.956   0.974   1.017   0.823   0.849   0.906
183   S         0.787   0.807   0.847   0.746   0.779   0.843   0.823   0.849   0.906
184   G         0.787   0.807   0.847   0.662   0.687   0.773   0.823   0.849   0.906
185   R         0.787   0.807   0.847   0.515   0.554   0.651   0.823   0.849   0.906
186   C         0.059  -0.176  -0.355   0.532   0.216  -0.140   0.072  -0.272  -0.592
187   D         0.787   0.807   0.847   1.040   1.054   1.087   0.823   0.849   0.906
188   G         0.787   0.807   0.847   0.662   0.687   0.773   0.823   0.849   0.906
189   Y         0.787   0.807   0.847   0.990   1.008   1.046   0.823   0.849   0.906
190   I         0.059  -0.176  -0.355   0.315   0.010  -0.299   0.072  -0.272  -0.592
191   L         0.787   0.807   0.847   0.871   0.900   0.947   0.823   0.849   0.906
192   E         0.787   0.807   0.847   0.820   0.848   0.905   0.823   0.849   0.906
193   G         0.787   0.807   0.847   0.662   0.687   0.773   0.823   0.849   0.906
194   E         0.787   0.807   0.847   0.820   0.848   0.905   0.823   0.849   0.906
195   E         0.787   0.807   0.847   0.820   0.848   0.905   0.823   0.849   0.906
196   L         0.787   0.807   0.847   0.871   0.900   0.947   0.823   0.849   0.906
197   A        -0.319  -0.224  -0.355  -0.481  -0.341  -0.491  -0.492  -0.348  -0.592
198   F         0.787   0.807   0.847   0.984   1.007   1.040   0.823   0.849   0.906
199   Y         0.787   0.807   0.847   0.990   1.008   1.046   0.823   0.849   0.906
200   L         0.059  -0.062  -0.347   0.287   0.146  -0.281   0.072  -0.100  -0.578
201   R         0.059  -0.176  -0.355  -0.116  -0.424  -0.714   0.072  -0.272  -0.592
202   R        -0.319  -0.497  -0.414  -0.650  -0.972  -0.824  -0.492  -0.800  -0.694
203   L        -0.986  -1.109  -1.118  -0.697  -0.860  -0.889  -1.055  -1.186  -1.189
204   T        -1.094  -1.261  -1.142  -1.101  -1.345  -1.205  -1.197  -1.387  -1.218
205   A        -1.094  -1.261  -1.142  -1.198  -1.433  -1.224  -1.197  -1.387  -1.218
206   K         0.059  -0.062  -0.347   0.030  -0.096  -0.449   0.072  -0.100  -0.578
207   K         0.787   0.807   0.847   0.605   0.644   0.726   0.823   0.849   0.906
* 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/P0CX39
Output conservation file - output/P0CX39
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
