1     M         2.053   2.096   2.265   2.289   2.362   2.633   2.303   2.367   2.659
2     K         1.324   1.384   1.242   1.371   1.468   1.283   1.397   1.489   1.201
3     V         0.965   0.962   0.997   0.980   0.965   0.975   0.751   0.724   0.702
4     L         1.324   1.310   1.242   1.075   1.054   0.921   1.397   1.366   1.201
5     E         0.630   0.688   0.477   0.455   0.530   0.227   0.621   0.701   0.365
6     E        -0.293  -0.402  -0.353  -0.490  -0.622  -0.521  -0.414  -0.540  -0.472
7     R         0.630   0.558   0.430   0.880   0.777   0.579   0.621   0.504   0.289
8     N        -0.293  -0.365  -0.325  -0.281  -0.392  -0.391  -0.414  -0.485  -0.433
9     A        -0.023   0.026  -0.191   0.217   0.275  -0.067  -0.026   0.030  -0.246
10    F         0.312   0.225   0.235   0.326   0.138   0.128   0.104  -0.044  -0.040
11    L         0.630   0.558   0.430   0.520   0.421   0.261   0.621   0.504   0.289
12    S         0.630   0.696   0.435   0.825   0.913   0.579   0.621   0.713   0.298
13    D         0.773   0.835   0.936   0.587   0.692   0.822   0.362   0.465   0.573
14    Y        -0.293  -0.382  -0.345  -0.019  -0.130  -0.081  -0.414  -0.511  -0.461
15    E         2.053   2.096   2.265   1.774   1.838   2.095   2.303   2.367   2.659
16    V         1.324   1.384   1.242   1.522   1.608   1.431   1.397   1.489   1.201
17    L        -0.023  -0.076  -0.225  -0.080  -0.153  -0.337  -0.026  -0.103  -0.291
18    K        -0.837  -0.843  -0.815  -0.918  -0.953  -0.913  -0.802  -0.803  -0.734
19    F         0.965   1.050   1.041   1.158   1.300   1.254   0.751   0.896   0.795
20    L         0.630   0.493   0.416   0.487   0.295   0.180   0.621   0.409   0.267
21    T        -1.969  -1.933  -1.850  -1.924  -1.930  -1.762  -1.319  -1.280  -1.159
22    D        -0.963  -0.896  -0.859  -1.206  -1.143  -1.073  -0.931  -0.861  -0.780
23    L        -0.628  -0.586  -0.470  -0.852  -0.769  -0.611  -0.802  -0.749  -0.604
24    E         0.042   0.091   0.170  -0.437  -0.359  -0.258  -0.284  -0.220  -0.130
25    K        -0.963  -0.947  -0.860  -1.024  -0.984  -0.869  -0.931  -0.905  -0.781
26    K        -0.293  -0.324  -0.334  -0.397  -0.441  -0.496  -0.414  -0.440  -0.446
27    H        -0.837  -0.918  -0.839  -0.534  -0.660  -0.537  -0.802  -0.867  -0.756
28    L        -0.375  -0.299  -0.337  -0.427  -0.304  -0.361  -0.543  -0.454  -0.459
29    W         2.053   2.096   2.265   2.413   2.484   2.762   2.303   2.367   2.659
30    D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
31    Q        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
32    K        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
33    S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
34    L        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
35    A        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
36    A        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
37    L        -0.965  -0.875  -0.865  -1.114  -0.913  -1.023  -0.917  -0.813  -0.777
38    K        -0.350  -0.216  -0.341  -0.488  -0.264  -0.538  -0.457  -0.278  -0.444
39    K        -1.412  -1.381  -1.281  -1.194  -1.141  -1.000  -1.147  -1.108  -0.977
40    S         0.097   0.176   0.173  -0.142  -0.020  -0.041  -0.227  -0.117  -0.133
41    R        -0.350  -0.336  -0.347  -0.368  -0.345  -0.380  -0.457  -0.442  -0.451
42    S        -0.293  -0.229  -0.295  -0.306  -0.177  -0.289  -0.414  -0.311  -0.389
43    K        -0.628  -0.650  -0.752  -0.415  -0.438  -0.567  -0.543  -0.561  -0.657
44    G        -1.172  -1.151  -1.196  -0.852  -0.832  -0.854  -0.931  -0.901  -0.905
45    K        -0.628  -0.753  -0.778  -0.453  -0.630  -0.660  -0.543  -0.681  -0.685
46    Q        -1.298  -1.250  -1.211  -1.165  -1.112  -1.065  -1.060  -1.007  -0.923
47    N        -0.944  -0.919  -0.864  -0.892  -0.857  -0.765  -0.907  -0.873  -0.781
48    R        -0.561  -0.516  -0.443  -0.494  -0.404  -0.318  -0.738  -0.679  -0.576
49    P         0.111   0.074   0.174   0.162   0.106   0.272  -0.232  -0.269  -0.137
50    Y        -0.417  -0.405  -0.390  -0.245  -0.261  -0.204  -0.569  -0.558  -0.516
51    N        -1.298  -1.339  -1.248  -0.938  -0.991  -0.845  -1.060  -1.078  -0.952
52    H        -0.963  -0.969  -0.875  -0.656  -0.667  -0.519  -0.931  -0.920  -0.792
53    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
54    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
55    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
56    P        -0.293  -0.184  -0.312  -0.305  -0.176  -0.430  -0.414  -0.298  -0.422
57    E         0.312   0.394   0.292   0.163   0.315   0.094   0.104   0.232   0.055
58    L         1.324   1.225   1.221   1.133   1.004   1.001   1.397   1.218   1.160
59    Q        -0.375  -0.446  -0.371  -0.597  -0.677  -0.556  -0.543  -0.604  -0.497
60    G        -0.628  -0.427  -0.672  -0.404  -0.114  -0.488  -0.543  -0.300  -0.566
61    I         0.630   0.493   0.416   0.760   0.547   0.406   0.621   0.409   0.267
62    T         0.630   0.573   0.413   0.850   0.766   0.535   0.621   0.533   0.262
63    R        -0.023  -0.182  -0.256   0.287   0.051  -0.062  -0.026  -0.235  -0.332
64    N         0.312   0.351   0.267   0.270   0.289   0.113   0.104   0.135   0.009
65    V        -0.375  -0.357  -0.347  -0.619  -0.623  -0.577  -0.543  -0.511  -0.470
66    V        -0.837  -0.767  -0.791  -1.079  -0.991  -1.023  -0.802  -0.717  -0.707
67    N        -1.298  -1.299  -1.232  -1.183  -1.178  -1.080  -1.060  -1.047  -0.938
68    Y         1.324   1.440   1.256   1.650   1.805   1.610   1.397   1.580   1.228
69    L         1.324   1.384   1.242   1.125   1.207   1.019   1.397   1.489   1.201
70    S        -0.944  -0.957  -0.868  -1.184  -1.158  -1.044  -0.907  -0.906  -0.783
71    I        -1.327  -1.349  -1.267  -1.203  -1.236  -1.103  -1.076  -1.084  -0.966
72    N        -0.178  -0.308  -0.315  -0.112  -0.326  -0.354  -0.232  -0.404  -0.410
73    K        -0.944  -0.959  -0.864  -1.001  -0.959  -0.870  -0.907  -0.912  -0.781
74    N        -0.944  -0.957  -0.868  -0.864  -0.852  -0.723  -0.907  -0.906  -0.783
75    F        -1.327  -1.349  -1.267  -1.002  -0.998  -0.877  -1.076  -1.084  -0.966
76    I        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
77    N        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
78    Q        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
79    E        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
80    D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
81    E        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
82    G        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
83    E        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
84    E        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
85    R        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
86    E        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
87    S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
88    S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
89    G        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
90    A        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
91    K        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
92    D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
93    A        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
94    E         0.215   0.344   0.267   0.088   0.317   0.107  -0.015   0.180   0.028
95    K         0.215   0.194   0.222   0.176   0.133   0.164  -0.015  -0.058  -0.044
96    S         1.085   1.023   1.076   1.093   0.996   1.058   0.978   0.843   0.869
97    G        -0.524  -0.479  -0.416  -0.411  -0.367  -0.265  -0.678  -0.623  -0.539
98    I        -0.524  -0.519  -0.433  -0.862  -0.869  -0.724  -0.678  -0.673  -0.559
99    S        -1.634  -1.631  -1.550  -1.585  -1.562  -1.433  -1.190  -1.175  -1.055
100   K        -1.298  -1.324  -1.243  -1.196  -1.213  -1.103  -1.060  -1.067  -0.948
101   M        -0.837  -0.798  -0.798  -0.935  -0.893  -0.838  -0.802  -0.758  -0.718
102   S         0.168   0.215   0.232   0.022   0.089   0.120  -0.155  -0.090  -0.063
103   D        -0.837  -0.804  -0.799  -0.673  -0.633  -0.606  -0.802  -0.756  -0.716
104   E         0.312   0.425   0.310   0.004   0.162  -0.011   0.104   0.261   0.083
105   S        -0.837  -0.785  -0.803  -0.742  -0.648  -0.695  -0.802  -0.729  -0.720
106   F         0.630   0.493   0.416   0.865   0.658   0.502   0.621   0.409   0.267
107   A        -1.298  -1.299  -1.232  -1.301  -1.294  -1.201  -1.060  -1.047  -0.938
108   E        -0.628  -0.602  -0.715  -0.810  -0.793  -0.969  -0.543  -0.508  -0.616
109   L         0.630   0.573   0.413   0.541   0.477   0.278   0.621   0.533   0.262
110   M        -0.628  -0.753  -0.778  -0.304  -0.511  -0.599  -0.543  -0.681  -0.685
111   T        -1.634  -1.585  -1.540  -1.492  -1.424  -1.372  -1.190  -1.141  -1.048
112   K        -1.172  -1.062  -1.154  -1.065  -0.905  -1.049  -0.931  -0.814  -0.866
113   L         0.630   0.573   0.413   0.496   0.423   0.193   0.621   0.533   0.262
114   N         1.324   1.225   1.221   1.433   1.317   1.313   1.397   1.218   1.160
115   S        -1.298  -1.222  -1.214  -1.242  -1.188  -1.100  -1.060  -0.983  -0.925
116   F        -0.293  -0.343  -0.320  -0.260  -0.330  -0.328  -0.414  -0.467  -0.430
117   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
118   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
119   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
120   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
121   K        -0.837  -0.807  -0.798  -0.922  -0.870  -0.823  -0.802  -0.768  -0.717
122   L         2.053   2.096   2.265   1.784   1.847   2.106   2.303   2.367   2.659
123   F        -1.298  -1.339  -1.248  -1.087  -1.180  -1.046  -1.060  -1.078  -0.952
124   K         1.324   1.373   1.237   1.366   1.450   1.265   1.397   1.471   1.191
125   A         0.312   0.309   0.316   0.448   0.472   0.484   0.104   0.122   0.100
126   E         2.053   2.096   2.265   1.774   1.838   2.095   2.303   2.367   2.659
127   K        -0.023  -0.182  -0.256   0.129  -0.077  -0.198  -0.026  -0.235  -0.332
128   L         2.053   2.096   2.265   1.784   1.847   2.106   2.303   2.367   2.659
129   Q         0.630   0.497   0.399   0.892   0.715   0.583   0.621   0.415   0.239
130   I         1.324   1.310   1.242   1.406   1.390   1.266   1.397   1.366   1.201
131   V         0.312   0.225   0.235   0.305   0.133   0.101   0.104  -0.044  -0.040
132   N         2.053   2.096   2.265   2.079   2.154   2.413   2.303   2.367   2.659
133   Q        -0.375  -0.446  -0.371  -0.510  -0.637  -0.538  -0.543  -0.604  -0.497
134   L        -0.023  -0.182  -0.256  -0.146  -0.373  -0.495  -0.026  -0.235  -0.332
135   P         2.053   2.096   2.265   2.318   2.382   2.663   2.303   2.367   2.659
136   A        -0.837  -0.753  -0.788  -0.695  -0.577  -0.611  -0.802  -0.695  -0.700
137   N         0.168   0.197   0.217  -0.005   0.035   0.075  -0.155  -0.123  -0.082
138   M        -0.502  -0.510  -0.418  -0.606  -0.614  -0.512  -0.672  -0.674  -0.551
139   V         0.630   0.497   0.399   0.914   0.736   0.611   0.621   0.415   0.239
140   H        -0.293  -0.358  -0.333  -0.135  -0.254  -0.262  -0.414  -0.490  -0.449
141   L         2.053   2.096   2.265   1.784   1.847   2.106   2.303   2.367   2.659
142   Y         1.324   1.225   1.221   1.612   1.485   1.480   1.397   1.218   1.160
143   S         0.168   0.109   0.215   0.083  -0.000   0.161  -0.155  -0.220  -0.082
144   I        -0.375  -0.446  -0.371  -0.599  -0.673  -0.541  -0.543  -0.604  -0.497
145   V         0.965   0.947   0.983   0.980   0.937   0.948   0.751   0.693   0.674
146   E         2.053   2.096   2.265   1.774   1.838   2.095   2.303   2.367   2.659
147   E         0.630   0.497   0.399   0.526   0.355   0.239   0.621   0.415   0.239
148   C         0.630   0.497   0.399   1.075   0.906   0.752   0.621   0.415   0.239
149   D         0.168   0.111   0.222  -0.162  -0.266  -0.146  -0.155  -0.216  -0.075
150   A        -1.298  -1.204  -1.212  -1.356  -1.283  -1.228  -1.060  -0.970  -0.923
151   R         2.053   2.096   2.265   2.195   2.258   2.534   2.303   2.367   2.659
152   F         0.630   0.636   0.453   0.892   0.917   0.619   0.621   0.627   0.327
153   D        -0.963  -0.922  -0.862  -0.900  -0.859  -0.743  -0.931  -0.883  -0.782
154   E         1.324   1.373   1.237   1.122   1.192   1.015   1.397   1.471   1.191
155   K        -0.293  -0.265  -0.327  -0.502  -0.468  -0.519  -0.414  -0.402  -0.440
156   T        -0.375  -0.441  -0.357  -0.432  -0.554  -0.419  -0.543  -0.596  -0.481
157   I        -0.837  -0.824  -0.809  -0.647  -0.632  -0.594  -0.802  -0.783  -0.728
158   E        -0.628  -0.706  -0.752  -0.693  -0.806  -0.847  -0.543  -0.629  -0.657
159   E        -0.963  -0.894  -0.860  -1.186  -1.103  -1.020  -0.931  -0.860  -0.781
160   M         0.168   0.242   0.218  -0.136  -0.047  -0.068  -0.155  -0.067  -0.081
161   L         0.168   0.165   0.211  -0.231  -0.233  -0.149  -0.155  -0.153  -0.085
162   E        -0.293  -0.259  -0.320  -0.535  -0.496  -0.559  -0.414  -0.397  -0.431
163   I        -0.837  -0.839  -0.823  -0.878  -0.879  -0.858  -0.802  -0.798  -0.743
164   I         1.324   1.373   1.237   1.460   1.533   1.364   1.397   1.471   1.191
165   S        -0.837  -0.889  -0.834  -0.789  -0.856  -0.769  -0.802  -0.839  -0.751
166   G        -0.837  -0.735  -0.793  -0.904  -0.806  -0.791  -0.802  -0.700  -0.712
167   Y         0.042   0.166   0.211  -0.152   0.069   0.106  -0.284  -0.097  -0.063
168   -         0.097   0.086   0.164  -0.015  -0.072   0.052  -0.227  -0.250  -0.149
169   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
170   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
171   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
172   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
173   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
174   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
175   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
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   A        -1.634  -1.608  -1.543  -1.728  -1.696  -1.587  -1.190  -1.158  -1.050
* 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/P47076
Output conservation file - output/P47076
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
