1     M         0.987   0.990   1.049   1.158   1.149   1.234   1.042   1.050   1.134
2     G         0.270   0.267  -0.016   0.338   0.338  -0.055   0.261   0.254  -0.224
3     A        -1.653  -1.781  -1.674  -1.329  -1.546  -1.452  -1.412  -1.546  -1.362
4     A        -1.653  -1.796  -1.677  -1.342  -1.589  -1.478  -1.412  -1.559  -1.364
5     P        -2.188  -2.248  -2.009  -1.649  -1.774  -1.509  -1.746  -1.790  -1.486
6     S         0.987   0.990   1.049   0.923   0.920   1.032   1.042   1.050   1.134
7     K        -1.210  -1.285  -1.275  -1.082  -1.233  -1.197  -1.143  -1.247  -1.182
8     I        -0.414  -0.584  -0.733  -0.338  -0.571  -0.825  -0.408  -0.649  -0.841
9     V        -0.925  -0.907  -0.799  -1.112  -1.077  -0.907  -1.143  -1.094  -0.928
10    D        -0.333  -0.297  -0.135  -0.846  -0.768  -0.477  -0.743  -0.691  -0.439
11    G        -1.858  -1.725  -1.662  -1.776  -1.600  -1.503  -1.635  -1.507  -1.353
12    L        -1.057  -1.191  -1.253  -0.976  -1.182  -1.281  -0.966  -1.135  -1.159
13    L        -1.445  -1.454  -1.300  -1.616  -1.625  -1.353  -1.435  -1.442  -1.208
14    E        -0.529  -0.587  -0.758  -0.551  -0.649  -0.989  -0.561  -0.657  -0.873
15    D        -0.833  -0.935  -0.804  -1.150  -1.279  -1.037  -0.998  -1.128  -0.935
16    T         0.206   0.063  -0.051   0.423   0.207  -0.042   0.168  -0.060  -0.287
17    N         0.206   0.063  -0.051   0.352   0.128  -0.098   0.168  -0.060  -0.287
18    F         0.987   0.990   1.049   0.980   0.982   1.081   1.042   1.050   1.134
19    D        -0.313  -0.295  -0.133  -0.835  -0.780  -0.486  -0.706  -0.687  -0.436
20    R        -1.822  -1.903  -1.697  -1.662  -1.836  -1.589  -1.580  -1.655  -1.380
21    D        -0.925  -0.825  -0.797  -1.303  -1.118  -1.008  -1.143  -1.023  -0.927
22    E         0.987   0.990   1.049   0.944   0.950   1.050   1.042   1.050   1.134
23    I         0.987   0.990   1.049   0.930   0.941   1.038   1.042   1.050   1.134
24    E        -0.152  -0.182  -0.120  -0.425  -0.490  -0.438  -0.415  -0.479  -0.412
25    R         0.987   0.990   1.049   1.137   1.140   1.215   1.042   1.050   1.134
26    L         0.206   0.063  -0.051   0.171  -0.030  -0.241   0.168  -0.060  -0.287
27    R         0.206   0.283  -0.033   0.409   0.510  -0.005   0.168   0.278  -0.254
28    K         0.987   0.990   1.049   0.980   0.984   1.081   1.042   1.050   1.134
29    R         0.987   0.990   1.049   1.137   1.140   1.215   1.042   1.050   1.134
30    F         0.987   0.990   1.049   0.980   0.982   1.081   1.042   1.050   1.134
31    M         0.206   0.063  -0.051   0.431   0.213  -0.035   0.168  -0.060  -0.287
32    K         0.987   0.990   1.049   0.980   0.984   1.081   1.042   1.050   1.134
33    L         0.206   0.063  -0.051   0.171  -0.030  -0.241   0.168  -0.060  -0.287
34    D         0.987   0.990   1.049   0.767   0.787   0.898   1.042   1.050   1.134
35    R        -1.445  -1.446  -1.289  -1.393  -1.369  -1.138  -1.435  -1.416  -1.196
36    D         0.270   0.193  -0.018   0.145   0.063  -0.227   0.261   0.143  -0.229
37    S        -1.858  -1.930  -1.694  -1.829  -1.904  -1.516  -1.635  -1.684  -1.378
38    S         0.987   0.990   1.049   0.923   0.920   1.032   1.042   1.050   1.134
39    G         0.987   0.990   1.049   0.960   0.964   1.063   1.042   1.050   1.134
40    S        -1.323  -1.341  -1.285  -1.310  -1.346  -1.217  -1.300  -1.334  -1.194
41    I         0.270   0.267  -0.016   0.281   0.286  -0.160   0.261   0.254  -0.224
42    D        -0.084  -0.179  -0.102  -0.403  -0.558  -0.434  -0.297  -0.474  -0.379
43    K        -0.727  -0.817  -0.794  -0.695  -0.839  -0.767  -0.854  -1.004  -0.922
44    N        -1.057  -1.107  -1.242  -0.756  -0.876  -1.059  -0.966  -1.045  -1.147
45    E         0.987   0.990   1.049   0.943   0.950   1.049   1.042   1.050   1.134
46    F         0.987   0.990   1.049   0.980   0.982   1.081   1.042   1.050   1.134
47    M        -0.273  -0.104  -0.081  -0.504  -0.226  -0.190  -0.631  -0.342  -0.341
48    S         0.270   0.309  -0.011   0.303   0.344  -0.073   0.261   0.315  -0.216
49    I        -0.084  -0.179  -0.102  -0.255  -0.427  -0.329  -0.297  -0.474  -0.379
50    P         0.987   0.990   1.049   1.297   1.292   1.352   1.042   1.050   1.134
51    G        -0.414  -0.648  -0.742  -0.296  -0.623  -0.780  -0.408  -0.731  -0.852
52    V        -0.273  -0.283  -0.132  -0.457  -0.503  -0.266  -0.631  -0.664  -0.433
53    S        -0.084  -0.121  -0.108  -0.192  -0.257  -0.233  -0.297  -0.371  -0.390
54    S        -0.868  -0.926  -0.780  -0.983  -1.035  -0.792  -1.077  -1.119  -0.907
55    N         0.987   0.990   1.049   1.088   1.081   1.173   1.042   1.050   1.134
56    P         0.987   0.990   1.049   1.297   1.292   1.352   1.042   1.050   1.134
57    L         0.987   0.990   1.049   0.911   0.921   1.021   1.042   1.050   1.134
58    A         0.987   0.990   1.049   1.139   1.144   1.217   1.042   1.050   1.134
59    G        -1.983  -1.822  -1.684  -2.007  -1.758  -1.544  -1.746  -1.603  -1.371
60    R         0.987   0.990   1.049   1.147   1.154   1.223   1.042   1.050   1.134
61    I        -0.868  -0.881  -0.773  -1.119  -1.056  -0.884  -1.077  -1.052  -0.895
62    M        -0.727  -0.823  -0.782  -0.641  -0.823  -0.805  -0.854  -0.988  -0.908
63    E        -1.404  -1.476  -1.289  -1.695  -1.750  -1.447  -1.412  -1.458  -1.197
64    V         0.270   0.083  -0.019   0.449   0.178  -0.025   0.261  -0.029  -0.231
65    F         0.270   0.193  -0.018   0.353   0.253  -0.058   0.261   0.143  -0.229
66    D         0.987   0.990   1.049   0.774   0.795   0.904   1.042   1.050   1.134
67    A        -0.727  -0.524  -0.724  -0.767  -0.455  -0.760  -0.854  -0.565  -0.829
68    D         0.270   0.267  -0.016   0.145   0.159  -0.223   0.261   0.254  -0.224
69    N        -0.868  -0.742  -0.770  -0.941  -0.726  -0.702  -1.077  -0.885  -0.891
70    S        -1.323  -1.330  -1.290  -1.460  -1.513  -1.426  -1.300  -1.331  -1.199
71    G         0.987   0.990   1.049   0.960   0.964   1.063   1.042   1.050   1.134
72    D        -0.414  -0.365  -0.728  -0.490  -0.412  -0.914  -0.408  -0.350  -0.833
73    V        -0.084  -0.047  -0.087  -0.087  -0.034  -0.161  -0.297  -0.244  -0.351
74    D         0.987   0.990   1.049   0.774   0.795   0.904   1.042   1.050   1.134
75    F         0.987   0.990   1.049   0.980   0.982   1.081   1.042   1.050   1.134
76    Q         0.270   0.284  -0.012   0.540   0.545   0.064   0.261   0.279  -0.218
77    E         0.987   0.990   1.049   0.943   0.950   1.049   1.042   1.050   1.134
78    F         0.987   0.990   1.049   0.980   0.982   1.081   1.042   1.050   1.134
79    I         0.270   0.083  -0.019   0.308   0.066  -0.095   0.261  -0.029  -0.231
80    T        -1.323  -1.415  -1.292  -1.147  -1.340  -1.146  -1.300  -1.405  -1.200
81    G        -0.084  -0.068  -0.106  -0.227  -0.206  -0.313  -0.297  -0.279  -0.387
82    L         0.987   0.990   1.049   0.911   0.921   1.021   1.042   1.050   1.134
83    S         0.987   0.990   1.049   0.923   0.920   1.032   1.042   1.050   1.134
84    I        -1.404  -1.372  -1.289  -1.386  -1.270  -1.153  -1.412  -1.355  -1.197
85    F         0.987   0.990   1.049   0.980   0.982   1.081   1.042   1.050   1.134
86    S         0.987   0.990   1.049   0.923   0.920   1.032   1.042   1.050   1.134
87    G        -1.057  -1.259  -1.273  -0.904  -1.220  -1.232  -0.966  -1.210  -1.180
88    R        -0.868  -0.800  -0.772  -0.886  -0.739  -0.662  -1.077  -0.953  -0.893
89    G        -0.414  -0.365  -0.728  -0.304  -0.241  -0.775  -0.408  -0.350  -0.833
90    S        -1.404  -1.254  -1.286  -1.560  -1.299  -1.393  -1.412  -1.247  -1.195
91    K        -0.414  -0.304  -0.711  -0.252  -0.116  -0.670  -0.408  -0.273  -0.810
92    D        -1.528  -1.489  -1.310  -1.943  -1.830  -1.536  -1.523  -1.478  -1.218
93    E        -1.653  -1.655  -1.658  -1.506  -1.514  -1.530  -1.412  -1.428  -1.349
94    K         0.987   0.990   1.049   0.984   0.990   1.084   1.042   1.050   1.134
95    L         0.987   0.990   1.049   0.911   0.921   1.021   1.042   1.050   1.134
96    R        -0.273  -0.224  -0.130  -0.390  -0.297  -0.201  -0.631  -0.556  -0.430
97    F         0.987   0.990   1.049   0.980   0.982   1.081   1.042   1.050   1.134
98    A         0.987   0.990   1.049   1.139   1.144   1.217   1.042   1.050   1.134
99    F         0.987   0.990   1.049   0.980   0.982   1.081   1.042   1.050   1.134
100   K        -0.414  -0.304  -0.711  -0.252  -0.114  -0.670  -0.408  -0.273  -0.810
101   I        -0.084  -0.179  -0.102  -0.193  -0.349  -0.234  -0.297  -0.474  -0.379
102   Y         0.987   0.990   1.049   1.301   1.291   1.356   1.042   1.050   1.134
103   D         0.987   0.990   1.049   0.774   0.795   0.904   1.042   1.050   1.134
104   I         0.987   0.990   1.049   0.935   0.947   1.042   1.042   1.050   1.134
105   D         0.987   0.990   1.049   0.774   0.795   0.904   1.042   1.050   1.134
106   K        -0.273  -0.104  -0.081  -0.390  -0.064  -0.092  -0.631  -0.342  -0.341
107   D         0.987   0.990   1.049   0.774   0.795   0.904   1.042   1.050   1.134
108   G         0.987   0.990   1.049   0.960   0.964   1.063   1.042   1.050   1.134
109   F        -0.414  -0.089  -0.693   0.005   0.405  -0.518  -0.408   0.001  -0.786
110   I         0.987   0.990   1.049   0.935   0.947   1.042   1.042   1.050   1.134
111   S        -0.084  -0.047  -0.087  -0.251  -0.199  -0.284  -0.297  -0.244  -0.351
112   N         0.987   0.990   1.049   1.088   1.081   1.173   1.042   1.050   1.134
113   G         0.987   0.990   1.049   0.960   0.964   1.063   1.042   1.050   1.134
114   E         0.987   0.990   1.049   0.943   0.950   1.049   1.042   1.050   1.134
115   L         0.987   0.990   1.049   0.911   0.921   1.021   1.042   1.050   1.134
116   F         0.270   0.193  -0.018   0.383   0.290   0.018   0.261   0.143  -0.229
117   I         0.270   0.193  -0.018   0.281   0.186  -0.165   0.261   0.143  -0.229
118   V         0.987   0.990   1.049   1.099   1.095   1.183   1.042   1.050   1.134
119   L        -0.084  -0.047  -0.087  -0.197  -0.137  -0.199  -0.297  -0.244  -0.351
120   K         0.987   0.990   1.049   0.984   0.990   1.084   1.042   1.050   1.134
121   I        -0.273  -0.104  -0.081  -0.405  -0.083  -0.104  -0.631  -0.342  -0.341
122   M         0.987   0.990   1.049   1.158   1.149   1.234   1.042   1.050   1.134
123   V         0.987   0.990   1.049   1.099   1.095   1.183   1.042   1.050   1.134
124   G         0.987   0.990   1.049   0.960   0.964   1.063   1.042   1.050   1.134
125   S        -1.528  -1.479  -1.303  -1.642  -1.569  -1.264  -1.523  -1.466  -1.212
126   N         0.987   0.990   1.049   1.088   1.081   1.173   1.042   1.050   1.134
127   L         0.987   0.990   1.049   0.911   0.921   1.021   1.042   1.050   1.134
128   D        -1.858  -1.683  -1.663  -1.920  -1.577  -1.570  -1.635  -1.453  -1.353
129   D         0.270   0.193  -0.018   0.123   0.038  -0.284   0.261   0.143  -0.229
130   E        -1.653  -1.696  -1.663  -1.532  -1.613  -1.578  -1.412  -1.474  -1.353
131   Q        -0.084  -0.047  -0.087   0.003   0.048  -0.089  -0.297  -0.244  -0.351
132   L         0.987   0.990   1.049   0.911   0.921   1.021   1.042   1.050   1.134
133   Q         0.987   0.990   1.049   1.189   1.179   1.260   1.042   1.050   1.134
134   Q         0.987   0.990   1.049   1.189   1.179   1.260   1.042   1.050   1.134
135   I         0.987   0.990   1.049   0.935   0.947   1.042   1.042   1.050   1.134
136   V         0.987   0.990   1.049   1.099   1.095   1.183   1.042   1.050   1.134
137   D         0.987   0.990   1.049   0.774   0.795   0.904   1.042   1.050   1.134
138   R        -0.273  -0.104  -0.081  -0.447  -0.160  -0.141  -0.631  -0.342  -0.341
139   T         0.987   0.990   1.049   1.147   1.141   1.223   1.042   1.050   1.134
140   I        -0.414  -0.365  -0.728  -0.328  -0.257  -0.793  -0.408  -0.350  -0.833
141   V         0.270   0.445   0.004   0.530   0.721   0.121   0.261   0.501  -0.191
142   E         0.987   0.990   1.049   0.943   0.950   1.049   1.042   1.050   1.134
143   N        -0.868  -0.800  -0.772  -0.850  -0.695  -0.680  -1.077  -0.953  -0.893
144   D         0.987   0.990   1.049   0.774   0.795   0.904   1.042   1.050   1.134
145   S        -1.858  -1.654  -1.663  -1.957  -1.677  -1.656  -1.635  -1.463  -1.354
146   D         0.987   0.990   1.049   0.774   0.795   0.904   1.042   1.050   1.134
147   G        -0.414  -0.648  -0.742  -0.294  -0.624  -0.774  -0.408  -0.731  -0.852
148   D         0.987   0.990   1.049   0.774   0.795   0.904   1.042   1.050   1.134
149   G         0.987   0.990   1.049   0.960   0.964   1.063   1.042   1.050   1.134
150   R        -0.727  -0.464  -0.749  -0.687  -0.332  -0.693  -0.854  -0.518  -0.864
151   L        -0.273  -0.295  -0.135  -0.626  -0.672  -0.400  -0.631  -0.687  -0.440
152   S        -0.084  -0.047  -0.087  -0.209  -0.161  -0.223  -0.297  -0.244  -0.351
153   F         0.987   0.990   1.049   0.980   0.982   1.081   1.042   1.050   1.134
154   E         0.270   0.309  -0.011   0.354   0.403   0.021   0.261   0.315  -0.216
155   E         0.987   0.990   1.049   0.943   0.950   1.049   1.042   1.050   1.134
156   F         0.987   0.990   1.049   0.980   0.982   1.081   1.042   1.050   1.134
157   K        -0.414  -0.584  -0.733  -0.276  -0.511  -0.758  -0.408  -0.649  -0.841
158   N        -1.858  -1.784  -1.673  -1.840  -1.771  -1.615  -1.635  -1.575  -1.362
159   A        -1.057  -1.259  -1.273  -0.706  -1.007  -1.074  -0.966  -1.210  -1.180
160   I        -0.727  -0.443  -0.731  -0.667  -0.232  -0.677  -0.854  -0.466  -0.837
161   E        -1.653  -1.659  -1.670  -1.619  -1.644  -1.729  -1.412  -1.421  -1.358
162   T        -1.323  -1.415  -1.292  -1.219  -1.398  -1.237  -1.300  -1.405  -1.200
163   T        -1.057  -1.073  -1.255  -0.814  -0.858  -1.262  -0.966  -0.992  -1.162
164   E        -1.858  -1.881  -1.688  -1.901  -1.968  -1.661  -1.635  -1.649  -1.374
165   V         0.270   0.284  -0.012   0.449   0.461  -0.011   0.261   0.279  -0.218
166   A        -1.653  -1.740  -1.672  -1.293  -1.461  -1.391  -1.412  -1.510  -1.360
167   K        -1.983  -1.939  -1.681  -1.929  -1.854  -1.466  -1.746  -1.691  -1.369
168   S        -0.414  -0.365  -0.728  -0.304  -0.247  -0.721  -0.408  -0.350  -0.833
169   L        -0.273  -0.295  -0.135  -0.504  -0.527  -0.261  -0.631  -0.687  -0.440
170   T         0.987   0.990   1.049   1.147   1.141   1.223   1.042   1.050   1.134
171   L         0.987   0.990   1.049   0.911   0.921   1.021   1.042   1.050   1.134
172   Q        -1.528  -1.564  -1.311  -1.604  -1.715  -1.336  -1.523  -1.543  -1.219
173   Y        -2.313  -2.269  -2.009  -1.944  -1.986  -1.600  -1.858  -1.808  -1.486
174   D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
175   V        -0.993  -0.761  -0.782  -1.185  -0.810  -0.876  -1.189  -0.884  -0.907
176   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
177   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
178   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
179   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
180   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
181   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
182   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
183   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
184   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
185   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
186   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
187   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
188   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
189   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
190   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
191   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
192   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
193   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
194   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
195   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
196   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
197   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
198   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
199   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
200   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
201   -        -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/P25296
Output conservation file - output/P25296
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
