1     M         2.203   2.256   2.373   2.596   2.668   2.886   2.574   2.664   2.914
2     W        -0.644  -0.511  -0.626  -0.419  -0.233  -0.372  -0.686  -0.526  -0.636
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     -        -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    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
13    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
14    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
15    S        -1.085  -1.131  -1.117  -0.865  -0.896  -0.916  -0.878  -0.924  -0.883
16    R        -0.369  -0.436  -0.556  -0.440  -0.502  -0.730  -0.302  -0.390  -0.536
17    N         0.428   0.557   0.267   0.422   0.600   0.210   0.465   0.659   0.213
18    V        -2.135  -2.081  -1.997  -1.814  -1.663  -1.606  -1.453  -1.394  -1.289
19    -        -0.115  -0.159  -0.054  -0.434  -0.581  -0.431  -0.362  -0.433  -0.293
20    R        -0.369  -0.263  -0.486  -0.391  -0.247  -0.550  -0.302  -0.163  -0.445
21    L        -0.810  -0.719  -0.687  -1.063  -0.889  -0.853  -0.878  -0.777  -0.709
22    L         0.072   0.127   0.059  -0.116  -0.052  -0.106  -0.111  -0.050  -0.137
23    G        -0.202  -0.133  -0.046  -0.375  -0.231  -0.116  -0.494  -0.395  -0.283
24    S        -0.149  -0.077  -0.039  -0.404  -0.289  -0.195  -0.433  -0.334  -0.276
25    W        -1.791  -1.739  -1.651  -1.772  -1.759  -1.563  -1.341  -1.280  -1.172
26    T        -0.567  -0.553  -0.621  -0.574  -0.589  -0.715  -0.558  -0.547  -0.620
27    R         1.087   1.019   1.014   0.926   0.817   0.818   1.071   0.929   0.881
28    S        -0.052  -0.110   0.000  -0.102  -0.171  -0.008  -0.297  -0.368  -0.225
29    Y         0.269   0.172   0.120   0.509   0.354   0.226   0.225   0.076  -0.021
30    M        -1.693  -1.702  -1.623  -1.391  -1.424  -1.315  -1.261  -1.254  -1.150
31    V        -0.369  -0.394  -0.502  -0.386  -0.401  -0.580  -0.302  -0.340  -0.466
32    P         0.869   0.935   0.963   0.944   1.033   1.088   0.656   0.766   0.774
33    A        -0.369  -0.408  -0.500  -0.059  -0.150  -0.308  -0.302  -0.357  -0.463
34    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
35    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
36    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
37    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
38    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
39    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
40    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
41    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
42    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
43    -         0.949   1.040   0.985   0.581   0.729   0.590   0.812   0.969   0.822
44    T        -0.761  -0.753  -0.704  -1.076  -1.092  -0.991  -0.819  -0.798  -0.724
45    K        -1.385  -1.327  -1.241  -1.328  -1.193  -1.112  -1.184  -1.117  -1.008
46    R         0.085  -0.048  -0.005  -0.098  -0.292  -0.238  -0.057  -0.263  -0.218
47    K         1.198   1.212   1.087   1.120   1.138   0.984   1.269   1.286   1.028
48    T        -0.761  -0.668  -0.681  -0.989  -0.841  -0.851  -0.819  -0.711  -0.698
49    I        -0.052  -0.108  -0.035  -0.180  -0.271  -0.177  -0.297  -0.368  -0.270
50    P        -0.761  -0.756  -0.707  -0.641  -0.617  -0.547  -0.819  -0.801  -0.728
51    V         0.784   0.788   0.845   0.509   0.503   0.568   0.486   0.469   0.525
52    Y         1.198   1.212   1.087   1.540   1.569   1.403   1.269   1.286   1.028
53    P         0.658   0.711   0.823   0.598   0.689   0.868   0.225   0.309   0.476
54    P         0.428   0.447   0.237   0.610   0.619   0.267   0.465   0.491   0.165
55    V        -0.036  -0.051   0.011  -0.386  -0.373  -0.255  -0.302  -0.307  -0.214
56    -         1.087   1.123   1.061   1.268   1.315   1.234   1.071   1.125   0.977
57    Q        -1.252  -1.264  -1.208  -1.254  -1.297  -1.175  -1.069  -1.066  -0.978
58    R         0.072   0.012   0.061  -0.323  -0.393  -0.361  -0.111  -0.178  -0.133
59    I        -1.252  -1.280  -1.209  -1.539  -1.637  -1.490  -1.069  -1.078  -0.979
60    A        -1.693  -1.581  -1.585  -1.262  -1.051  -1.108  -1.261  -1.146  -1.117
61    S        -0.761  -0.756  -0.707  -0.804  -0.770  -0.747  -0.819  -0.801  -0.728
62    S        -1.085  -0.996  -1.122  -0.775  -0.678  -0.877  -0.878  -0.779  -0.889
63    Q        -1.693  -1.630  -1.593  -1.371  -1.243  -1.229  -1.261  -1.194  -1.124
64    I         0.072   0.103   0.083  -0.049   0.036  -0.007  -0.111  -0.043  -0.089
65    M        -0.644  -0.491  -0.577  -0.738  -0.519  -0.628  -0.686  -0.493  -0.580
66    K        -0.644  -0.749  -0.673  -0.794  -0.919  -0.793  -0.686  -0.789  -0.688
67    Q        -1.693  -1.652  -1.632  -1.383  -1.343  -1.311  -1.261  -1.214  -1.157
68    V         0.072  -0.027   0.034  -0.190  -0.312  -0.236  -0.111  -0.242  -0.175
69    A        -1.252  -1.280  -1.209  -0.815  -0.827  -0.744  -1.069  -1.078  -0.979
70    L        -1.252  -1.151  -1.159  -1.454  -1.297  -1.337  -1.069  -0.962  -0.935
71    S        -1.252  -1.096  -1.166  -1.098  -0.936  -0.972  -1.069  -0.910  -0.938
72    E        -1.085  -0.996  -1.122  -0.884  -0.734  -0.864  -0.878  -0.779  -0.889
73    I        -0.369  -0.469  -0.545  -0.413  -0.583  -0.689  -0.302  -0.436  -0.522
74    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
75    E        -0.810  -0.740  -0.692  -0.907  -0.811  -0.728  -0.878  -0.797  -0.713
76    S        -0.644  -0.659  -0.638  -0.799  -0.826  -0.774  -0.686  -0.698  -0.652
77    L        -0.369  -0.370  -0.539  -0.234  -0.225  -0.407  -0.302  -0.298  -0.514
78    D         2.203   2.256   2.373   2.404   2.491   2.690   2.574   2.664   2.914
79    P         0.428   0.367   0.205   0.758   0.661   0.459   0.465   0.362   0.114
80    G        -0.644  -0.561  -0.625  -0.340  -0.230  -0.290  -0.686  -0.605  -0.640
81    A        -0.369  -0.354  -0.521   0.007   0.005  -0.216  -0.302  -0.290  -0.491
82    V        -0.202  -0.182  -0.067  -0.560  -0.507  -0.327  -0.494  -0.467  -0.316
83    K         0.681   0.740   0.834   0.045   0.142   0.275   0.273   0.370   0.502
84    R        -0.369  -0.448  -0.547  -0.264  -0.357  -0.445  -0.302  -0.412  -0.524
85    K        -0.202  -0.154  -0.058  -0.422  -0.348  -0.193  -0.494  -0.424  -0.302
86    L         0.869   0.868   0.887   0.687   0.681   0.729   0.656   0.632   0.614
87    I        -1.085  -1.117  -1.132  -0.961  -0.956  -1.014  -0.878  -0.909  -0.899
88    S        -1.693  -1.708  -1.627  -1.230  -1.192  -1.087  -1.261  -1.258  -1.153
89    K        -1.085  -1.178  -1.170  -1.110  -1.280  -1.210  -0.878  -0.969  -0.938
90    K        -0.644  -0.585  -0.625  -0.824  -0.736  -0.758  -0.686  -0.624  -0.639
91    N        -0.567  -0.609  -0.597  -0.162  -0.244  -0.206  -0.558  -0.614  -0.588
92    K        -0.149  -0.155  -0.041  -0.376  -0.353  -0.175  -0.433  -0.431  -0.279
93    D        -0.202  -0.176  -0.064  -0.167  -0.104   0.050  -0.494  -0.458  -0.311
94    R         0.072   0.180   0.096  -0.067   0.073   0.028  -0.111   0.043  -0.066
95    L         0.072  -0.009   0.035  -0.255  -0.393  -0.337  -0.111  -0.234  -0.176
96    K         0.681   0.731   0.832   0.045   0.123   0.268   0.273   0.352   0.495
97    A         0.072   0.047   0.034   0.221   0.138   0.130  -0.111  -0.178  -0.178
98    G         2.203   2.256   2.373   2.420   2.485   2.707   2.574   2.664   2.914
99    D         1.289   1.156   1.122   1.580   1.419   1.371   1.423   1.184   1.099
100   V         0.681   0.720   0.827   0.355   0.421   0.570   0.273   0.329   0.485
101   V        -0.202  -0.187  -0.088  -0.611  -0.598  -0.483  -0.494  -0.474  -0.346
102   R        -0.644  -0.749  -0.673  -1.061  -1.222  -1.096  -0.686  -0.789  -0.688
103   I         0.869   0.906   0.898   0.672   0.731   0.682   0.656   0.709   0.638
104   V        -0.644  -0.749  -0.673  -0.706  -0.833  -0.747  -0.686  -0.789  -0.688
105   Y         0.428   0.234   0.170   0.805   0.526   0.416   0.465   0.170   0.058
106   D         0.949   0.822   0.905   1.070   0.867   0.969   0.812   0.540   0.652
107   S         0.949   1.036   0.964   0.894   1.025   0.917   0.812   0.962   0.777
108   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
109   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
110   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
111   S         0.949   1.083   0.965   0.758   0.980   0.732   0.812   1.050   0.780
112   K         2.203   2.256   2.373   2.117   2.186   2.398   2.574   2.664   2.914
113   C        -0.644  -0.749  -0.673  -0.401  -0.551  -0.452  -0.686  -0.789  -0.688
114   S        -0.202  -0.144  -0.074  -0.251  -0.153  -0.066  -0.494  -0.413  -0.325
115   Y        -0.644  -0.749  -0.673  -0.691  -0.869  -0.763  -0.686  -0.789  -0.688
116   D        -0.644  -0.705  -0.653  -0.494  -0.559  -0.491  -0.686  -0.749  -0.669
117   T        -1.693  -1.692  -1.626  -1.538  -1.596  -1.485  -1.261  -1.246  -1.152
118   F         0.869   0.935   0.963   1.004   1.102   1.124   0.656   0.766   0.774
119   V         0.072   0.034   0.065   0.162   0.159   0.156  -0.111  -0.142  -0.118
120   G         2.203   2.256   2.373   2.420   2.485   2.707   2.574   2.664   2.914
121   Y        -0.369  -0.370  -0.539  -0.104  -0.112  -0.440  -0.302  -0.298  -0.514
122   I        -0.369  -0.469  -0.545  -0.336  -0.505  -0.634  -0.302  -0.436  -0.522
123   L         0.072   0.059   0.057  -0.116  -0.109  -0.092  -0.111  -0.118  -0.128
124   S        -1.085  -1.178  -1.170  -0.977  -1.175  -1.157  -0.878  -0.969  -0.938
125   I         0.681   0.709   0.818   0.324   0.371   0.537   0.273   0.304   0.466
126   D         0.072  -0.007   0.043  -0.054  -0.182  -0.165  -0.111  -0.210  -0.149
127   R         0.428   0.234   0.170   0.475   0.228   0.176   0.465   0.170   0.058
128   K        -0.644  -0.622  -0.646  -1.013  -1.010  -1.012  -0.686  -0.665  -0.662
129   Q        -1.693  -1.525  -1.577  -1.276  -1.024  -1.094  -1.261  -1.090  -1.110
130   L        -0.369  -0.361  -0.492  -0.355  -0.350  -0.521  -0.302  -0.299  -0.453
131   V        -0.767  -0.757  -0.709  -0.912  -0.882  -0.815  -0.809  -0.789  -0.728
132   Q        -0.767  -0.757  -0.709  -0.741  -0.738  -0.715  -0.809  -0.789  -0.728
133   D        -0.644  -0.749  -0.673  -0.595  -0.772  -0.684  -0.686  -0.789  -0.688
134   A        -0.202  -0.172  -0.074  -0.203  -0.173  -0.029  -0.494  -0.456  -0.326
135   S         0.681   0.715   0.824   0.547   0.601   0.775   0.273   0.317   0.478
136   L         0.072   0.157   0.065  -0.103   0.032  -0.169  -0.111   0.003  -0.127
137   L         2.203   2.256   2.373   2.068   2.136   2.348   2.574   2.664   2.914
138   L         1.289   1.349   1.167   1.217   1.300   1.058   1.423   1.522   1.187
139   R         2.203   2.256   2.373   2.039   2.105   2.319   2.574   2.664   2.914
140   N        -0.369  -0.305  -0.482   0.054   0.154  -0.120  -0.302  -0.217  -0.440
141   Q        -0.644  -0.607  -0.634  -0.752  -0.727  -0.721  -0.686  -0.631  -0.642
142   I        -0.644  -0.610  -0.627  -0.722  -0.681  -0.711  -0.686  -0.647  -0.641
143   A        -1.252  -1.264  -1.208  -0.810  -0.790  -0.707  -1.069  -1.066  -0.978
144   K         1.289   1.156   1.122   1.224   1.044   1.008   1.423   1.184   1.099
145   T        -0.644  -0.670  -0.650  -0.667  -0.732  -0.754  -0.686  -0.713  -0.666
146   A        -0.369  -0.122  -0.481   0.122   0.449   0.008  -0.302   0.030  -0.439
147   V         0.428   0.401   0.228   0.485   0.455   0.183   0.465   0.424   0.151
148   E         1.289   1.246   1.144   1.653   1.599   1.466   1.423   1.346   1.142
149   I        -1.085  -1.147  -1.119  -0.775  -0.896  -0.909  -0.878  -0.939  -0.886
150   R         1.289   1.156   1.122   1.145   0.935   0.872   1.423   1.184   1.099
151   V        -0.644  -0.717  -0.644  -0.729  -0.817  -0.725  -0.686  -0.746  -0.654
152   P         1.289   1.246   1.144   1.484   1.407   1.250   1.423   1.346   1.142
153   L         0.072   0.168   0.071  -0.103   0.084  -0.159  -0.111   0.040  -0.119
154   F         0.869   0.829   0.874   1.109   1.013   1.075   0.656   0.553   0.588
155   S         0.869   0.935   0.963   0.869   0.971   1.012   0.656   0.766   0.774
156   P         2.203   2.256   2.373   2.376   2.435   2.662   2.574   2.664   2.914
157   L        -0.644  -0.749  -0.673  -0.653  -0.746  -0.622  -0.686  -0.789  -0.688
158   I         0.869   0.919   0.910   0.756   0.841   0.765   0.656   0.735   0.663
159   E         0.072  -0.007   0.043   0.024  -0.122  -0.088  -0.111  -0.210  -0.149
160   R         0.072   0.059   0.057  -0.126  -0.138  -0.134  -0.111  -0.118  -0.128
161   I         1.289   1.246   1.144   1.441   1.389   1.223   1.423   1.346   1.142
162   D        -0.644  -0.749  -0.673  -0.592  -0.768  -0.698  -0.686  -0.789  -0.688
163   L         0.072   0.124   0.084  -0.206  -0.073  -0.192  -0.111  -0.008  -0.087
164   L         0.072   0.138   0.085  -0.220  -0.115  -0.212  -0.111  -0.017  -0.094
165   T        -0.644  -0.653  -0.633  -0.735  -0.780  -0.719  -0.686  -0.689  -0.639
166   P        -0.644  -0.659  -0.638  -0.968  -0.973  -0.933  -0.686  -0.698  -0.652
167   H        -1.252  -1.222  -1.190  -0.918  -0.868  -0.788  -1.069  -1.030  -0.961
168   V        -1.252  -1.229  -1.172  -1.154  -1.073  -1.051  -1.069  -1.033  -0.946
169   S        -1.693  -1.702  -1.623  -1.714  -1.763  -1.673  -1.261  -1.254  -1.150
170   S        -0.202  -0.180  -0.065  -0.533  -0.492  -0.324  -0.494  -0.464  -0.312
171   R        -1.085  -1.178  -1.170  -1.206  -1.364  -1.337  -0.878  -0.969  -0.938
172   Q        -1.252  -1.193  -1.180  -1.332  -1.250  -1.227  -1.069  -1.001  -0.952
173   R         0.428   0.234   0.170   0.404   0.130   0.050   0.465   0.170   0.058
174   N        -1.252  -1.192  -1.171  -1.173  -1.104  -1.053  -1.069  -0.997  -0.944
175   K         0.869   0.790   0.853   0.452   0.261   0.323   0.656   0.475   0.543
176   H        -0.644  -0.749  -0.673  -0.317  -0.483  -0.394  -0.686  -0.789  -0.688
177   Y         1.289   1.365   1.170   1.654   1.760   1.531   1.423   1.548   1.192
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   Y         2.203   2.256   2.373   2.463   2.537   2.751   2.574   2.664   2.914
181   I         1.289   1.156   1.122   1.425   1.226   1.152   1.423   1.184   1.099
182   R         2.203   2.256   2.373   2.039   2.105   2.319   2.574   2.664   2.914
183   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
184   G        -0.644  -0.674  -0.622  -0.265  -0.296  -0.204  -0.686  -0.719  -0.635
185   T         0.072  -0.047   0.031   0.088  -0.116  -0.044  -0.111  -0.276  -0.180
186   R         1.289   1.365   1.170   1.144   1.247   0.954   1.423   1.548   1.192
187   L         0.072  -0.007   0.043  -0.051  -0.135  -0.041  -0.111  -0.210  -0.149
188   D         1.289   1.156   1.122   1.508   1.315   1.231   1.423   1.184   1.099
189   V         1.289   1.156   1.122   1.278   1.076   1.005   1.423   1.184   1.099
190   G         0.428   0.321   0.209   0.763   0.602   0.442   0.465   0.297   0.120
191   D         1.289   1.156   1.122   1.562   1.390   1.336   1.423   1.184   1.099
192   L         0.681   0.704   0.820   0.144   0.172   0.350   0.273   0.294   0.469
193   E         2.203   2.256   2.373   2.490   2.558   2.778   2.574   2.664   2.914
194   A         0.428   0.335   0.208   0.830   0.691   0.507   0.465   0.317   0.118
195   G        -0.810  -0.834  -0.706  -0.782  -0.844  -0.655  -0.878  -0.882  -0.728
196   L         0.072   0.267   0.095  -0.137   0.172  -0.069  -0.111   0.178  -0.070
197   R         0.681   0.720   0.823   0.045   0.097   0.249   0.273   0.328   0.477
198   R         1.198   1.293   1.119   1.025   1.164   0.874   1.269   1.428   1.093
199   -        -0.887  -0.831  -0.740  -0.655  -0.564  -0.426  -0.949  -0.877  -0.763
200   -        -0.115  -0.056  -0.003  -0.089   0.004   0.087  -0.362  -0.281  -0.214
201   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
202   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
203   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
204   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
205   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
206   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
207   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
208   -         0.949   0.890   0.953   0.737   0.649   0.746   0.812   0.677   0.755
209   -        -0.115  -0.078  -0.010  -0.289  -0.217  -0.111  -0.362  -0.317  -0.225
210   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
211   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
212   K         0.428   0.415   0.238   0.492   0.481   0.284   0.465   0.444   0.167
213   K         0.428   0.367   0.205   0.328   0.240  -0.039   0.465   0.362   0.114
* 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/P25626
Output conservation file - output/P25626
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
