1     M         1.189   1.212   1.292   1.376   1.404   1.515   1.282   1.313   1.433
2     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
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     N         0.205   0.135   0.169   0.156   0.029   0.031  -0.005  -0.143  -0.130
9     L        -1.007  -1.090  -0.977  -1.253  -1.327  -1.107  -1.078  -1.132  -0.964
10    R         1.189   1.212   1.292   1.329   1.358   1.471   1.282   1.313   1.433
11    F        -0.933  -0.764  -0.927  -0.877  -0.609  -0.864  -0.970  -0.765  -0.909
12    E        -1.424  -1.470  -1.361  -1.185  -1.257  -1.107  -1.292  -1.304  -1.142
13    L        -0.098  -0.038  -0.373  -0.291  -0.208  -0.647  -0.112  -0.040  -0.502
14    Q        -1.424  -1.391  -1.338  -1.380  -1.331  -1.209  -1.292  -1.236  -1.123
15    K        -0.386  -0.282  -0.444  -0.221  -0.062  -0.328  -0.541  -0.392  -0.608
16    L        -0.515  -0.591  -0.483  -0.767  -0.902  -0.742  -0.756  -0.827  -0.666
17    L         0.530   0.472   0.300   0.298   0.240   0.031   0.531   0.438   0.115
18    N        -0.933  -0.822  -0.923  -0.911  -0.713  -0.903  -0.970  -0.816  -0.904
19    V        -0.386  -0.370  -0.458  -0.724  -0.698  -0.803  -0.541  -0.534  -0.630
20    C        -1.121  -1.154  -0.996  -1.120  -1.213  -0.990  -1.185  -1.192  -0.983
21    F        -1.121  -1.030  -0.975  -1.359  -1.240  -1.099  -1.185  -1.061  -0.962
22    L        -0.933  -0.886  -0.948  -1.117  -1.064  -1.140  -0.970  -0.921  -0.935
23    F        -0.023   0.016   0.140  -0.452  -0.407  -0.202  -0.434  -0.370  -0.186
24    A        -0.098  -0.053  -0.368   0.043   0.110  -0.326  -0.112  -0.050  -0.496
25    S         0.530   0.472   0.300   0.601   0.539   0.289   0.531   0.438   0.115
26    A         0.205   0.253   0.193   0.217   0.302   0.134  -0.005   0.072  -0.083
27    Y        -0.023   0.017   0.140  -0.140  -0.073   0.108  -0.434  -0.367  -0.185
28    M         1.189   1.212   1.292   1.376   1.404   1.515   1.282   1.313   1.433
29    F        -1.727  -1.676  -1.651  -1.476  -1.409  -1.424  -1.399  -1.346  -1.243
30    W         0.205   0.135   0.169   0.413   0.281   0.276  -0.005  -0.143  -0.130
31    Q        -0.098   0.018  -0.362   0.146   0.300  -0.214  -0.112   0.047  -0.487
32    G        -0.515  -0.459  -0.470  -0.604  -0.526  -0.500  -0.756  -0.679  -0.648
33    L        -0.098  -0.121  -0.385  -0.275  -0.302  -0.628  -0.112  -0.146  -0.519
34    A         0.530   0.592   0.314   0.594   0.682   0.296   0.531   0.623   0.141
35    I        -1.121  -1.143  -0.995  -1.519  -1.510  -1.282  -1.185  -1.180  -0.983
36    A        -1.007  -0.905  -0.952  -1.144  -1.023  -1.009  -1.078  -0.959  -0.939
37    T         0.032   0.097   0.158  -0.009   0.104   0.163  -0.327  -0.215  -0.150
38    N         0.032   0.021   0.138  -0.101  -0.126   0.047  -0.327  -0.359  -0.190
39    S         0.205   0.167   0.174   0.209   0.159   0.172  -0.005  -0.084  -0.121
40    A        -0.933  -0.978  -0.966  -0.629  -0.718  -0.699  -0.970  -1.024  -0.953
41    S         1.189   1.212   1.292   1.165   1.203   1.318   1.282   1.313   1.433
42    P         1.189   1.212   1.292   1.358   1.380   1.498   1.282   1.313   1.433
43    I        -0.098  -0.234  -0.403  -0.045  -0.265  -0.626  -0.112  -0.305  -0.545
44    V         1.189   1.212   1.292   1.031   1.063   1.193   1.282   1.313   1.433
45    V         1.189   1.212   1.292   1.031   1.063   1.193   1.282   1.313   1.433
46    V         1.189   1.212   1.292   1.031   1.063   1.193   1.282   1.313   1.433
47    L         1.189   1.212   1.292   0.856   0.896   1.030   1.282   1.313   1.433
48    S         1.189   1.212   1.292   1.165   1.203   1.318   1.282   1.313   1.433
49    G         0.530   0.392   0.292   0.565   0.390   0.240   0.531   0.309   0.100
50    S         1.189   1.212   1.292   1.165   1.203   1.318   1.282   1.313   1.433
51    M         1.189   1.212   1.292   1.376   1.404   1.515   1.282   1.313   1.433
52    E         1.189   1.212   1.292   1.318   1.349   1.461   1.282   1.313   1.433
53    P         1.189   1.212   1.292   1.358   1.380   1.498   1.282   1.313   1.433
54    A         0.530   0.392   0.292   0.700   0.521   0.324   0.531   0.309   0.100
55    F         0.530   0.536   0.312   0.740   0.755   0.422   0.531   0.538   0.138
56    Q         1.189   1.212   1.292   1.332   1.371   1.474   1.282   1.313   1.433
57    R         1.189   1.212   1.292   1.329   1.358   1.471   1.282   1.313   1.433
58    G         1.189   1.212   1.292   1.131   1.164   1.286   1.282   1.313   1.433
59    D         1.189   1.212   1.292   1.296   1.324   1.440   1.282   1.313   1.433
60    I        -0.630  -0.656  -0.534  -1.010  -1.140  -0.960  -0.863  -0.899  -0.728
61    L         1.189   1.212   1.292   0.856   0.896   1.030   1.282   1.313   1.433
62    F         0.530   0.536   0.312   0.680   0.693   0.281   0.531   0.538   0.138
63    L         1.189   1.212   1.292   0.856   0.896   1.030   1.282   1.313   1.433
64    W         0.530   0.392   0.292   0.880   0.699   0.511   0.531   0.309   0.100
65    N         1.189   1.212   1.292   1.225   1.266   1.374   1.282   1.313   1.433
66    R         1.189   1.212   1.292   1.329   1.358   1.471   1.282   1.313   1.433
67    N        -0.386  -0.260  -0.413  -0.318  -0.110  -0.346  -0.541  -0.343  -0.560
68    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
69    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
70    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
71    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
72    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
73    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
74    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
75    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
76    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
77    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
78    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
79    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
80    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
81    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
82    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
83    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
84    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
85    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
86    T        -2.448  -2.353  -2.173  -1.966  -1.864  -1.600  -1.721  -1.632  -1.410
87    F        -2.145  -2.081  -1.935  -1.611  -1.531  -1.345  -1.614  -1.544  -1.343
88    N        -1.424  -1.332  -1.350  -1.366  -1.285  -1.235  -1.292  -1.205  -1.135
89    Q        -1.727  -1.765  -1.667  -1.483  -1.572  -1.432  -1.399  -1.416  -1.256
90    V         0.530   0.392   0.292   0.447   0.262   0.107   0.531   0.309   0.100
91    G         1.189   1.212   1.292   1.131   1.164   1.286   1.282   1.313   1.433
92    D         0.205   0.177   0.175   0.273   0.216   0.178  -0.005  -0.065  -0.119
93    V        -0.023   0.017   0.141  -0.412  -0.337  -0.134  -0.434  -0.368  -0.184
94    V         1.189   1.212   1.292   1.031   1.063   1.193   1.282   1.313   1.433
95    V         1.189   1.212   1.292   1.031   1.063   1.193   1.282   1.313   1.433
96    Y         1.189   1.212   1.292   1.292   1.325   1.437   1.282   1.313   1.433
97    E        -0.386  -0.524  -0.482  -0.289  -0.511  -0.493  -0.541  -0.721  -0.662
98    V        -0.515  -0.561  -0.479  -0.866  -0.949  -0.832  -0.756  -0.778  -0.659
99    E        -1.539  -1.517  -1.368  -1.349  -1.307  -1.092  -1.399  -1.354  -1.150
100   G         0.530   0.392   0.292   0.561   0.384   0.232   0.531   0.309   0.100
101   K         0.205   0.135   0.169   0.237   0.121   0.142  -0.005  -0.143  -0.130
102   Q        -1.424  -1.500  -1.363  -1.244  -1.317  -1.109  -1.292  -1.334  -1.145
103   I         0.530   0.536   0.312   0.635   0.644   0.339   0.531   0.538   0.138
104   P         1.189   1.212   1.292   1.358   1.380   1.498   1.282   1.313   1.433
105   I         1.189   1.212   1.292   1.199   1.228   1.350   1.282   1.313   1.433
106   V         1.189   1.212   1.292   1.031   1.063   1.193   1.282   1.313   1.433
107   H         1.189   1.212   1.292   1.412   1.449   1.549   1.282   1.313   1.433
108   R         1.189   1.212   1.292   1.329   1.358   1.471   1.282   1.313   1.433
109   V         0.530   0.472   0.300   0.447   0.373   0.120   0.531   0.438   0.115
110   L         0.205   0.108   0.162  -0.254  -0.438  -0.362  -0.005  -0.193  -0.144
111   R         0.205   0.167   0.174   0.284   0.211   0.171  -0.005  -0.084  -0.121
112   Q        -1.424  -1.495  -1.360  -1.309  -1.466  -1.285  -1.292  -1.330  -1.143
113   H        -0.098  -0.290  -0.413   0.282   0.023  -0.205  -0.112  -0.379  -0.560
114   N        -2.145  -2.123  -1.947  -1.771  -1.760  -1.544  -1.614  -1.569  -1.350
115   N        -1.424  -1.401  -1.353  -1.292  -1.273  -1.162  -1.292  -1.258  -1.137
116   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
117   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
118   H        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
119   A        -2.145  -2.039  -1.928  -1.784  -1.646  -1.497  -1.614  -1.511  -1.338
120   D        -1.842  -1.711  -1.666  -1.796  -1.581  -1.533  -1.507  -1.383  -1.256
121   K        -0.386  -0.498  -0.472  -0.282  -0.425  -0.410  -0.541  -0.680  -0.648
122   Q        -0.098  -0.290  -0.413   0.208  -0.044  -0.260  -0.112  -0.379  -0.560
123   F        -1.007  -1.091  -0.966  -1.166  -1.223  -1.030  -1.078  -1.133  -0.954
124   L         0.530   0.582   0.312   0.288   0.365   0.025   0.531   0.608   0.138
125   L         0.530   0.392   0.292   0.270   0.095  -0.051   0.531   0.309   0.100
126   T         1.189   1.212   1.292   1.336   1.366   1.478   1.282   1.313   1.433
127   K         1.189   1.212   1.292   1.255   1.296   1.402   1.282   1.313   1.433
128   G         1.189   1.212   1.292   1.131   1.164   1.286   1.282   1.313   1.433
129   D         1.189   1.212   1.292   1.296   1.324   1.440   1.282   1.313   1.433
130   N         1.189   1.212   1.292   1.225   1.266   1.374   1.282   1.313   1.433
131   N         1.189   1.212   1.292   1.225   1.266   1.374   1.282   1.313   1.433
132   A        -0.689  -0.806  -0.923  -0.454  -0.636  -0.873  -0.649  -0.793  -0.901
133   G        -1.007  -1.090  -0.977  -1.257  -1.358  -1.171  -1.078  -1.132  -0.964
134   N         0.530   0.592   0.314   0.716   0.794   0.390   0.531   0.623   0.141
135   D         1.189   1.212   1.292   1.296   1.324   1.440   1.282   1.313   1.433
136   I        -1.121  -1.054  -0.969  -1.511  -1.347  -1.214  -1.185  -1.084  -0.954
137   S        -1.424  -1.438  -1.345  -1.297  -1.303  -1.170  -1.292  -1.285  -1.129
138   L        -0.098  -0.234  -0.403  -0.254  -0.416  -0.608  -0.112  -0.305  -0.545
139   Y         0.530   0.392   0.292   0.724   0.548   0.378   0.531   0.309   0.100
140   A        -0.689  -0.780  -0.917  -0.427  -0.553  -0.810  -0.649  -0.760  -0.895
141   N        -1.727  -1.675  -1.655  -1.486  -1.415  -1.416  -1.399  -1.334  -1.246
142   K        -1.121  -1.162  -0.996  -1.161  -1.224  -0.985  -1.185  -1.201  -0.984
143   K        -1.007  -1.030  -0.965  -0.944  -0.968  -0.873  -1.078  -1.080  -0.953
144   I        -1.842  -1.808  -1.674  -1.595  -1.557  -1.350  -1.507  -1.456  -1.261
145   Y         1.189   1.212   1.292   1.292   1.325   1.437   1.282   1.313   1.433
146   L         1.189   1.212   1.292   0.856   0.896   1.030   1.282   1.313   1.433
147   N        -0.386  -0.495  -0.482  -0.374  -0.555  -0.568  -0.541  -0.696  -0.662
148   K        -0.704  -0.591  -0.506  -0.740  -0.562  -0.442  -0.970  -0.820  -0.691
149   S        -1.045  -0.892  -0.953  -0.946  -0.695  -0.812  -1.099  -0.903  -0.935
150   K        -0.933  -0.817  -0.953  -0.801  -0.695  -0.821  -0.970  -0.874  -0.940
151   E        -0.386  -0.477  -0.465  -0.230  -0.343  -0.342  -0.541  -0.648  -0.638
152   I        -0.630  -0.491  -0.482  -1.010  -0.733  -0.804  -0.863  -0.666  -0.658
153   V        -0.098  -0.290  -0.413  -0.188  -0.493  -0.730  -0.112  -0.379  -0.560
154   G         1.189   1.212   1.292   1.131   1.164   1.286   1.282   1.313   1.433
155   T        -0.386  -0.495  -0.482  -0.343  -0.564  -0.587  -0.541  -0.696  -0.662
156   V         1.189   1.212   1.292   1.031   1.063   1.193   1.282   1.313   1.433
157   K        -0.689  -0.829  -0.924  -0.456  -0.647  -0.839  -0.649  -0.818  -0.902
158   G         0.205   0.200   0.180   0.105   0.095   0.042  -0.005  -0.024  -0.108
159   Y         1.189   1.212   1.292   1.292   1.325   1.437   1.282   1.313   1.433
160   F        -1.121  -1.092  -0.993  -1.485  -1.398  -1.228  -1.185  -1.143  -0.981
161   P         1.189   1.212   1.292   1.358   1.380   1.498   1.282   1.313   1.433
162   Q        -1.539  -1.501  -1.366  -1.548  -1.497  -1.268  -1.399  -1.344  -1.148
163   L        -0.515  -0.407  -0.467  -1.018  -0.894  -0.906  -0.756  -0.638  -0.646
164   G         1.189   1.212   1.292   1.131   1.164   1.286   1.282   1.313   1.433
165   Y         0.530   0.392   0.292   0.733   0.560   0.401   0.531   0.309   0.100
166   I        -0.515  -0.448  -0.467  -0.738  -0.632  -0.628  -0.756  -0.661  -0.645
167   T         1.189   1.212   1.292   1.336   1.366   1.478   1.282   1.313   1.433
168   I         1.189   1.212   1.292   1.199   1.228   1.350   1.282   1.313   1.433
169   W        -0.023   0.012   0.138  -0.341  -0.259  -0.070  -0.434  -0.378  -0.190
170   I        -0.023   0.034   0.151  -0.540  -0.474  -0.272  -0.434  -0.335  -0.164
171   S        -0.933  -0.921  -0.947  -0.866  -0.846  -0.867  -0.970  -0.954  -0.933
172   E         0.530   0.392   0.292   0.747   0.567   0.395   0.531   0.309   0.100
173   N        -0.689  -0.829  -0.924  -0.446  -0.630  -0.788  -0.649  -0.818  -0.902
174   K        -1.842  -1.685  -1.665  -1.612  -1.364  -1.373  -1.507  -1.360  -1.256
175   Y        -0.689  -0.829  -0.924  -0.374  -0.578  -0.726  -0.649  -0.818  -0.902
176   A        -0.704  -0.692  -0.539  -0.936  -0.980  -0.747  -0.970  -0.946  -0.733
177   K         0.530   0.653   0.321   0.690   0.847   0.399   0.531   0.710   0.153
178   F        -0.386  -0.378  -0.444  -0.250  -0.220  -0.339  -0.541  -0.511  -0.607
179   A        -1.424  -1.441  -1.349  -1.411  -1.462  -1.298  -1.292  -1.289  -1.133
180   L        -0.515  -0.477  -0.473  -0.819  -0.732  -0.675  -0.756  -0.709  -0.655
181   L         0.530   0.582   0.312   0.298   0.373   0.049   0.531   0.608   0.138
182   G         1.189   1.212   1.292   1.131   1.164   1.286   1.282   1.313   1.433
183   M        -0.689  -0.772  -0.915  -0.849  -0.979  -1.128  -0.649  -0.751  -0.892
184   L        -0.386  -0.369  -0.449  -0.633  -0.599  -0.644  -0.541  -0.513  -0.616
185   G         0.530   0.612   0.319   0.560   0.666   0.273   0.531   0.652   0.150
186   L         0.530   0.653   0.321   0.270   0.431  -0.004   0.531   0.710   0.153
187   S        -0.386  -0.495  -0.482  -0.600  -0.837  -0.873  -0.541  -0.696  -0.662
188   A        -1.007  -1.086  -0.972  -1.037  -1.115  -0.970  -1.078  -1.126  -0.959
189   L        -0.098  -0.163  -0.388  -0.318  -0.403  -0.726  -0.112  -0.202  -0.523
190   L        -0.515  -0.412  -0.470  -0.915  -0.784  -0.761  -0.756  -0.647  -0.652
191   G        -0.515  -0.469  -0.478  -0.611  -0.523  -0.530  -0.756  -0.701  -0.660
192   G        -1.424  -1.429  -1.350  -1.396  -1.376  -1.262  -1.292  -1.269  -1.133
193   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
194   E         0.530   0.612   0.319   0.747   0.850   0.441   0.531   0.652   0.150
195   -        -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/P15367
Output conservation file - output/P15367
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
