1     M         0.984   0.991   1.047   1.172   1.176   1.252   1.039   1.051   1.133
2     V        -1.233  -1.108  -1.333  -1.049  -0.876  -1.283  -1.122  -1.002  -1.199
3     T        -1.850  -1.788  -1.757  -1.630  -1.637  -1.523  -1.554  -1.502  -1.395
4     S        -2.015  -1.921  -1.780  -1.957  -1.839  -1.692  -1.706  -1.625  -1.413
5     N        -1.571  -1.554  -1.386  -1.588  -1.630  -1.326  -1.510  -1.489  -1.252
6     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
7     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
8     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
9     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
10    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
11    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
12    V         0.260   0.180  -0.074   0.292   0.199  -0.201   0.267   0.147  -0.285
13    V        -1.887  -1.965  -1.776  -1.788  -1.890  -1.592  -1.608  -1.660  -1.410
14    L        -0.096  -0.067  -0.122  -0.200  -0.156  -0.277  -0.284  -0.243  -0.370
15    V        -0.746  -0.839  -0.844  -0.750  -0.873  -0.863  -0.836  -0.955  -0.942
16    S         0.984   0.991   1.047   1.028   1.042   1.124   1.039   1.051   1.133
17    G        -1.347  -1.226  -1.341  -1.139  -0.973  -1.172  -1.277  -1.131  -1.208
18    E        -0.287  -0.153  -0.134  -0.765  -0.491  -0.504  -0.615  -0.390  -0.391
19    G        -0.746  -0.744  -0.845  -0.530  -0.558  -0.793  -0.836  -0.851  -0.943
20    E        -0.429  -0.563  -0.807  -0.511  -0.675  -0.968  -0.395  -0.573  -0.891
21    R        -1.887  -1.929  -1.763  -1.846  -1.939  -1.724  -1.608  -1.625  -1.400
22    F         0.260   0.163  -0.074   0.543   0.412   0.004   0.267   0.121  -0.285
23    T        -1.554  -1.542  -1.371  -1.422  -1.420  -1.204  -1.497  -1.475  -1.238
24    V         0.984   0.991   1.047   0.917   0.939   1.026   1.039   1.051   1.133
25    D        -0.096  -0.018  -0.136  -0.376  -0.240  -0.509  -0.284  -0.162  -0.395
26    K        -2.013  -1.928  -1.764  -1.798  -1.652  -1.465  -1.718  -1.635  -1.401
27    K        -0.429  -0.593  -0.814  -0.290  -0.523  -0.900  -0.395  -0.612  -0.900
28    I        -0.096  -0.167  -0.148  -0.203  -0.336  -0.334  -0.284  -0.414  -0.416
29    A         0.984   0.991   1.047   1.048   1.067   1.142   1.039   1.051   1.133
30    E        -0.429  -0.359  -0.780  -0.492  -0.419  -0.889  -0.395  -0.316  -0.856
31    R        -0.096  -0.067  -0.122  -0.098  -0.048  -0.190  -0.284  -0.243  -0.370
32    S         0.984   0.991   1.047   1.028   1.042   1.124   1.039   1.051   1.133
33    L        -1.347  -1.409  -1.358  -1.275  -1.350  -1.253  -1.277  -1.334  -1.225
34    L         0.984   0.991   1.047   0.934   0.950   1.041   1.039   1.051   1.133
35    L        -0.287  -0.153  -0.134  -0.540  -0.307  -0.299  -0.615  -0.390  -0.391
36    K         0.984   0.991   1.047   0.959   0.963   1.063   1.039   1.051   1.133
37    N         0.260   0.299  -0.061   0.365   0.411  -0.112   0.267   0.319  -0.262
38    Y        -0.888  -0.865  -0.841  -0.676  -0.634  -0.642  -1.056  -0.994  -0.937
39    L        -0.888  -0.905  -0.852  -1.009  -1.029  -0.886  -1.056  -1.070  -0.953
40    N        -0.888  -0.740  -0.836  -1.170  -0.986  -0.980  -1.056  -0.871  -0.932
41    D         0.984   0.991   1.047   0.838   0.855   0.956   1.039   1.051   1.133
42    M        -1.347  -1.323  -1.330  -1.250  -1.219  -1.253  -1.277  -1.228  -1.197
43    H        -1.095  -1.005  -0.882  -0.938  -0.805  -0.674  -1.277  -1.165  -0.986
44    D        -1.554  -1.455  -1.362  -1.842  -1.719  -1.515  -1.497  -1.402  -1.230
45    S        -1.887  -1.840  -1.760  -1.899  -1.875  -1.718  -1.608  -1.550  -1.397
46    N        -2.013  -1.870  -1.767  -1.818  -1.632  -1.519  -1.718  -1.602  -1.404
47    L         0.118  -0.078  -0.124   0.149  -0.148  -0.262   0.059  -0.262  -0.373
48    Q        -2.015  -1.921  -1.780  -2.000  -1.856  -1.576  -1.706  -1.625  -1.413
49    N        -1.127  -1.069  -0.879  -1.673  -1.544  -1.235  -1.314  -1.244  -0.983
50    N        -0.842  -0.698  -0.856  -1.171  -0.926  -1.227  -0.937  -0.751  -0.954
51    S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
52    D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
53    S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
54    E        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
55    S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
56    D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
57    S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
58    D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
59    S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
60    E        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
61    T        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
62    N        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
63    H        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
64    K        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
65    S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
66    K        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
67    D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
68    N        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
69    N        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
70    N        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
71    G        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
72    D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
73    D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
74    D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
75    D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
76    E        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
77    D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
78    D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
79    D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
80    E        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
81    I        -1.887  -1.965  -1.776  -1.738  -1.871  -1.613  -1.608  -1.660  -1.410
82    V        -1.428  -1.478  -1.365  -1.653  -1.697  -1.467  -1.387  -1.412  -1.232
83    M        -0.287  -0.153  -0.134  -0.412  -0.216  -0.178  -0.615  -0.390  -0.391
84    P         0.984   0.991   1.047   1.076   1.085   1.167   1.039   1.051   1.133
85    V        -1.014  -1.031  -0.877  -1.110  -1.151  -0.910  -1.167  -1.196  -0.981
86    P         0.984   0.991   1.047   1.076   1.085   1.167   1.039   1.051   1.133
87    N         0.984   0.991   1.047   0.987   0.997   1.088   1.039   1.051   1.133
88    V         0.984   0.991   1.047   0.917   0.939   1.026   1.039   1.051   1.133
89    R        -0.746  -0.869  -0.853  -0.653  -0.837  -0.846  -0.836  -0.999  -0.953
90    S        -0.429  -0.515  -0.796  -0.238  -0.367  -0.857  -0.395  -0.512  -0.876
91    S        -1.428  -1.408  -1.355  -1.318  -1.281  -1.160  -1.387  -1.348  -1.222
92    V         0.984   0.991   1.047   0.917   0.939   1.026   1.039   1.051   1.133
93    L         0.984   0.991   1.047   0.934   0.950   1.041   1.039   1.051   1.133
94    Q        -1.887  -1.879  -1.770  -1.467  -1.501  -1.356  -1.608  -1.596  -1.406
95    K         0.984   0.991   1.047   0.959   0.963   1.063   1.039   1.051   1.133
96    V         0.984   0.991   1.047   0.917   0.939   1.026   1.039   1.051   1.133
97    I        -0.888  -0.936  -0.857  -1.062  -1.130  -0.996  -1.056  -1.101  -0.958
98    E         0.984   0.991   1.047   0.688   0.702   0.823   1.039   1.051   1.133
99    W         0.260   0.214  -0.067   0.656   0.600   0.192   0.267   0.198  -0.273
100   A        -0.287  -0.153  -0.134  -0.186   0.052   0.012  -0.615  -0.390  -0.391
101   E        -0.746  -0.664  -0.827  -0.931  -0.831  -0.986  -0.836  -0.751  -0.920
102   H         0.260   0.214  -0.067   0.671   0.617   0.205   0.267   0.198  -0.273
103   H         0.984   0.991   1.047   1.254   1.263   1.325   1.039   1.051   1.133
104   R        -0.287  -0.231  -0.158  -0.469  -0.379  -0.275  -0.615  -0.527  -0.434
105   D        -0.888  -0.936  -0.857  -1.103  -1.156  -1.007  -1.056  -1.101  -0.958
106   S        -0.888  -0.871  -0.855  -0.989  -0.995  -0.888  -1.056  -1.039  -0.956
107   N        -1.554  -1.569  -1.383  -1.586  -1.601  -1.343  -1.497  -1.501  -1.249
108   F        -1.079  -1.258  -1.349  -0.605  -0.856  -1.043  -0.946  -1.152  -1.215
109   P        -0.746  -0.844  -0.847  -0.531  -0.675  -0.686  -0.836  -0.967  -0.946
110   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
111   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
112   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
113   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
114   D         0.260   0.180  -0.074   0.177   0.071  -0.372   0.267   0.147  -0.285
115   E        -0.096  -0.067  -0.122  -0.476  -0.430  -0.524  -0.284  -0.243  -0.370
116   D        -1.680  -1.819  -1.758  -1.570  -1.773  -1.698  -1.387  -1.521  -1.395
117   D         0.260   0.214  -0.067   0.249   0.202  -0.152   0.267   0.198  -0.273
118   D        -1.554  -1.569  -1.383  -1.856  -1.859  -1.566  -1.497  -1.501  -1.249
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   D         0.196   0.055  -0.101   0.147  -0.032  -0.274   0.175  -0.044  -0.333
122   S        -1.887  -1.965  -1.776  -1.704  -1.819  -1.584  -1.608  -1.660  -1.410
123   R        -0.348  -0.290  -0.164  -0.575  -0.482  -0.285  -0.725  -0.632  -0.445
124   K         0.984   0.991   1.047   0.959   0.963   1.063   1.039   1.051   1.133
125   S         0.260   0.361  -0.060   0.419   0.541  -0.042   0.267   0.405  -0.260
126   A        -0.888  -0.871  -0.855  -0.816  -0.782  -0.772  -1.056  -1.039  -0.956
127   P        -1.079  -1.258  -1.349  -0.850  -1.154  -1.438  -0.946  -1.152  -1.215
128   V        -0.287  -0.311  -0.172  -0.556  -0.612  -0.385  -0.615  -0.670  -0.459
129   D         0.260   0.268  -0.062   0.177   0.192  -0.349   0.267   0.275  -0.265
130   S        -1.680  -1.437  -1.729  -1.704  -1.402  -1.739  -1.387  -1.150  -1.372
131   W         0.984   0.991   1.047   1.238   1.245   1.311   1.039   1.051   1.133
132   D         0.984   0.991   1.047   0.838   0.855   0.956   1.039   1.051   1.133
133   R        -1.079  -1.167  -1.331  -0.702  -0.805  -1.038  -0.946  -1.052  -1.196
134   E        -1.095  -1.068  -0.880  -1.482  -1.408  -1.110  -1.277  -1.242  -0.985
135   F         0.984   0.991   1.047   1.168   1.176   1.248   1.039   1.051   1.133
136   L        -0.096  -0.183  -0.151  -0.123  -0.255  -0.205  -0.284  -0.441  -0.422
137   K        -0.746  -0.862  -0.853  -0.635  -0.801  -0.764  -0.836  -0.994  -0.952
138   V         0.984   0.991   1.047   0.917   0.939   1.026   1.039   1.051   1.133
139   D         0.984   0.991   1.047   0.838   0.855   0.956   1.039   1.051   1.133
140   Q         0.984   0.991   1.047   1.223   1.224   1.297   1.039   1.051   1.133
141   E         0.984   0.991   1.047   0.688   0.702   0.823   1.039   1.051   1.133
142   M         0.984   0.991   1.047   1.172   1.176   1.252   1.039   1.051   1.133
143   L         0.984   0.991   1.047   0.934   0.950   1.041   1.039   1.051   1.133
144   Y        -0.287  -0.311  -0.172  -0.146  -0.210  -0.024  -0.615  -0.670  -0.459
145   E         0.984   0.991   1.047   0.688   0.702   0.823   1.039   1.051   1.133
146   I         0.984   0.991   1.047   0.938   0.942   1.045   1.039   1.051   1.133
147   I         0.260   0.180  -0.074   0.310   0.202  -0.193   0.267   0.147  -0.285
148   L         0.984   0.991   1.047   0.934   0.950   1.041   1.039   1.051   1.133
149   A         0.260   0.214  -0.067   0.458   0.413   0.016   0.267   0.198  -0.273
150   A         0.260   0.180  -0.074   0.436   0.345  -0.058   0.267   0.147  -0.285
151   N         0.984   0.991   1.047   0.987   0.997   1.088   1.039   1.051   1.133
152   Y         0.984   0.991   1.047   1.250   1.258   1.321   1.039   1.051   1.133
153   L         0.260   0.163  -0.074   0.343   0.232  -0.090   0.267   0.121  -0.285
154   N        -0.287  -0.311  -0.172  -0.547  -0.624  -0.402  -0.615  -0.670  -0.459
155   I         0.984   0.991   1.047   0.938   0.942   1.045   1.039   1.051   1.133
156   K         0.260   0.299  -0.061   0.347   0.389  -0.106   0.267   0.319  -0.262
157   P         0.984   0.991   1.047   1.076   1.085   1.167   1.039   1.051   1.133
158   L         0.984   0.991   1.047   0.934   0.950   1.041   1.039   1.051   1.133
159   L         0.984   0.991   1.047   0.934   0.950   1.041   1.039   1.051   1.133
160   D         0.260   0.268  -0.062   0.177   0.192  -0.349   0.267   0.275  -0.265
161   A        -1.554  -1.569  -1.383  -1.500  -1.519  -1.240  -1.497  -1.501  -1.249
162   G         0.984   0.991   1.047   1.207   1.214   1.283   1.039   1.051   1.133
163   C         0.984   0.991   1.047   1.273   1.276   1.342   1.039   1.051   1.133
164   K         0.984   0.991   1.047   0.959   0.963   1.063   1.039   1.051   1.133
165   V        -1.428  -1.342  -1.361  -1.291  -1.126  -1.161  -1.387  -1.284  -1.228
166   V         0.984   0.991   1.047   0.917   0.939   1.026   1.039   1.051   1.133
167   A         0.984   0.991   1.047   1.048   1.067   1.142   1.039   1.051   1.133
168   E        -0.287  -0.311  -0.172  -0.735  -0.764  -0.505  -0.615  -0.670  -0.459
169   M         0.984   0.991   1.047   1.172   1.176   1.252   1.039   1.051   1.133
170   I         0.984   0.991   1.047   0.938   0.942   1.045   1.039   1.051   1.133
171   R        -0.287  -0.300  -0.171  -0.443  -0.481  -0.293  -0.615  -0.650  -0.458
172   G         0.260   0.268  -0.062   0.594   0.601   0.091   0.267   0.275  -0.265
173   R        -0.287  -0.153  -0.134  -0.469  -0.245  -0.233  -0.615  -0.390  -0.391
174   S        -0.096  -0.066  -0.143  -0.029   0.013  -0.118  -0.284  -0.241  -0.406
175   P         0.984   0.991   1.047   1.076   1.085   1.167   1.039   1.051   1.133
176   E         0.984   0.991   1.047   0.688   0.702   0.823   1.039   1.051   1.133
177   E         0.260   0.180  -0.074   0.046  -0.056  -0.436   0.267   0.147  -0.285
178   I        -0.096  -0.067  -0.122  -0.198  -0.161  -0.275  -0.284  -0.243  -0.370
179   R         0.984   0.991   1.047   1.032   1.054   1.128   1.039   1.051   1.133
180   R        -0.096  -0.183  -0.151  -0.098  -0.249  -0.249  -0.284  -0.441  -0.422
181   T         0.984   0.991   1.047   1.184   1.184   1.262   1.039   1.051   1.133
182   F         0.984   0.991   1.047   1.168   1.176   1.248   1.039   1.051   1.133
183   N         0.984   0.991   1.047   0.987   0.997   1.088   1.039   1.051   1.133
184   I         0.984   0.991   1.047   0.938   0.942   1.045   1.039   1.051   1.133
185   V        -1.680  -1.819  -1.758  -1.411  -1.596  -1.513  -1.387  -1.521  -1.395
186   N         0.984   0.991   1.047   0.987   0.997   1.088   1.039   1.051   1.133
187   D         0.984   0.991   1.047   0.838   0.855   0.956   1.039   1.051   1.133
188   F         0.984   0.991   1.047   1.168   1.176   1.248   1.039   1.051   1.133
189   T        -0.096  -0.067  -0.122   0.070   0.101  -0.040  -0.284  -0.243  -0.370
190   P         0.984   0.991   1.047   1.076   1.085   1.167   1.039   1.051   1.133
191   E         0.984   0.991   1.047   0.688   0.702   0.823   1.039   1.051   1.133
192   E         0.984   0.991   1.047   0.688   0.702   0.823   1.039   1.051   1.133
193   E         0.984   0.991   1.047   0.688   0.702   0.823   1.039   1.051   1.133
194   A        -0.096  -0.183  -0.151  -0.167  -0.345  -0.381  -0.284  -0.441  -0.422
195   A        -0.287  -0.311  -0.172  -0.290  -0.324  -0.118  -0.615  -0.670  -0.459
196   I         0.984   0.991   1.047   0.938   0.942   1.045   1.039   1.051   1.133
197   R         0.260   0.299  -0.061   0.410   0.468  -0.075   0.267   0.319  -0.262
198   R        -0.096  -0.133  -0.151  -0.098  -0.159  -0.248  -0.284  -0.354  -0.421
199   E         0.984   0.991   1.047   0.688   0.702   0.823   1.039   1.051   1.133
200   N         0.984   0.991   1.047   0.987   0.997   1.088   1.039   1.051   1.133
201   E         0.984   0.991   1.047   0.688   0.702   0.823   1.039   1.051   1.133
202   W         0.984   0.991   1.047   1.238   1.245   1.311   1.039   1.051   1.133
203   A         0.984   0.991   1.047   1.048   1.067   1.142   1.039   1.051   1.133
204   E         0.984   0.991   1.047   0.688   0.702   0.823   1.039   1.051   1.133
205   D         0.984   0.991   1.047   0.838   0.855   0.956   1.039   1.051   1.133
206   R         0.984   0.991   1.047   1.032   1.054   1.128   1.039   1.051   1.133
* 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/P52286
Output conservation file - output/P52286
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
