1     M         2.051   2.060   2.113   2.356   2.370   2.460   2.266   2.278   2.366
2     I        -1.188  -1.174  -1.105  -1.005  -0.985  -0.876  -1.012  -0.996  -0.905
3     S        -1.188  -1.174  -1.105  -1.185  -1.156  -1.055  -1.012  -0.996  -0.905
4     Y        -1.188  -1.174  -1.105  -1.036  -1.021  -0.907  -1.012  -0.996  -0.905
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    E        -0.169  -0.203  -0.267  -0.167  -0.226  -0.334  -0.182  -0.226  -0.314
12    F         0.882   0.853   0.729   1.070   1.025   0.814   0.867   0.819   0.594
13    Q        -0.413  -0.427  -0.398  -0.399  -0.417  -0.339  -0.531  -0.544  -0.494
14    T        -0.169  -0.150  -0.276   0.021   0.065  -0.126  -0.182  -0.156  -0.326
15    H        -1.061  -1.042  -1.071  -0.900  -0.874  -0.872  -0.881  -0.858  -0.870
16    L        -0.169  -0.194  -0.299  -0.285  -0.326  -0.484  -0.182  -0.213  -0.357
17    P        -1.061  -1.050  -1.047  -0.982  -0.970  -0.946  -0.881  -0.867  -0.846
18    K        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
19    G        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
20    K        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
21    D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
22    S        -0.413  -0.416  -0.370  -0.466  -0.458  -0.367  -0.531  -0.531  -0.460
23    S        -1.061  -1.042  -1.071  -0.930  -0.884  -0.967  -0.881  -0.858  -0.870
24    L        -1.061  -1.056  -1.026  -0.954  -0.941  -0.912  -0.881  -0.873  -0.824
25    N        -0.169  -0.150  -0.276   0.062   0.093  -0.137  -0.182  -0.156  -0.326
26    A        -0.413  -0.418  -0.378  -0.393  -0.398  -0.334  -0.531  -0.534  -0.470
27    S        -0.378  -0.402  -0.398  -0.486  -0.524  -0.528  -0.466  -0.497  -0.490
28    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
29    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
30    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
31    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
32    S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
33    E         0.564   0.609   0.588   0.303   0.391   0.324   0.323   0.402   0.341
34    N        -0.378  -0.355  -0.334  -0.460  -0.421  -0.389  -0.466  -0.432  -0.405
35    K        -0.378  -0.402  -0.398  -0.420  -0.453  -0.460  -0.466  -0.497  -0.490
36    E         2.051   2.060   2.113   2.058   2.069   2.164   2.266   2.278   2.366
37    L        -0.413  -0.427  -0.398  -0.601  -0.613  -0.578  -0.531  -0.544  -0.494
38    Y        -1.709  -1.709  -1.624  -1.301  -1.301  -1.170  -1.230  -1.227  -1.123
39    V        -0.413  -0.403  -0.396  -0.516  -0.500  -0.497  -0.531  -0.518  -0.492
40    Q        -1.061  -1.042  -1.071  -0.631  -0.591  -0.670  -0.881  -0.858  -0.870
41    A        -0.169  -0.194  -0.299   0.008  -0.027  -0.233  -0.182  -0.213  -0.357
42    T        -1.061  -1.042  -1.071  -1.146  -1.126  -1.161  -0.881  -0.858  -0.870
43    H        -0.169  -0.194  -0.299   0.200   0.163  -0.050  -0.182  -0.213  -0.357
44    F        -0.169  -0.141  -0.233   0.085   0.127  -0.037  -0.182  -0.142  -0.268
45    N        -0.413  -0.403  -0.364  -0.635  -0.619  -0.553  -0.531  -0.517  -0.455
46    N         0.479   0.473   0.533   0.251   0.241   0.333   0.168   0.156   0.240
47    T        -0.169  -0.150  -0.276  -0.087  -0.048  -0.266  -0.182  -0.156  -0.326
48    I        -0.169  -0.203  -0.267  -0.159  -0.212  -0.303  -0.182  -0.226  -0.314
49    L        -0.413  -0.384  -0.392  -0.723  -0.680  -0.692  -0.531  -0.497  -0.487
50    L         2.051   2.060   2.113   1.904   1.915   2.011   2.266   2.278   2.366
51    Q         0.479   0.473   0.533   0.453   0.449   0.533   0.168   0.156   0.240
52    I        -0.169  -0.171  -0.239  -0.285  -0.293  -0.416  -0.182  -0.183  -0.276
53    R        -0.169  -0.194  -0.299   0.018  -0.027  -0.254  -0.182  -0.213  -0.357
54    L        -1.061  -1.042  -1.071  -1.132  -1.092  -1.144  -0.881  -0.858  -0.870
55    N         2.051   2.060   2.113   2.117   2.135   2.223   2.266   2.278   2.366
56    G         2.051   2.060   2.113   2.151   2.160   2.256   2.266   2.278   2.366
57    E        -0.169  -0.194  -0.299  -0.227  -0.271  -0.472  -0.182  -0.213  -0.357
58    M         0.882   0.853   0.729   1.246   1.206   1.013   0.867   0.819   0.594
59    D         2.051   2.060   2.113   2.024   2.037   2.130   2.266   2.278   2.366
60    S         0.479   0.473   0.533   0.258   0.247   0.350   0.168   0.156   0.240
61    T         2.051   2.060   2.113   2.225   2.238   2.330   2.266   2.278   2.366
62    Y         0.479   0.473   0.533   0.545   0.534   0.628   0.168   0.156   0.240
63    E         0.882   0.865   0.751   0.903   0.876   0.694   0.867   0.839   0.632
64    V        -0.169  -0.194  -0.299  -0.252  -0.297  -0.502  -0.182  -0.213  -0.357
65    S        -1.061  -1.042  -1.071  -0.903  -0.855  -0.955  -0.881  -0.858  -0.870
66    S         0.479   0.473   0.533   0.155   0.139   0.241   0.168   0.156   0.240
67    K        -0.413  -0.427  -0.398  -0.626  -0.640  -0.591  -0.531  -0.544  -0.494
68    G        -0.169  -0.194  -0.299  -0.055  -0.098  -0.276  -0.182  -0.213  -0.357
69    L         0.479   0.473   0.533   0.120   0.118   0.211   0.168   0.156   0.240
70    N        -0.413  -0.427  -0.398  -0.522  -0.537  -0.460  -0.531  -0.544  -0.494
71    P        -1.061  -1.070  -1.055  -0.886  -0.900  -0.902  -0.881  -0.888  -0.854
72    I        -0.169  -0.181  -0.270  -0.148  -0.171  -0.294  -0.182  -0.196  -0.318
73    L        -1.709  -1.709  -1.624  -1.755  -1.744  -1.620  -1.230  -1.227  -1.123
74    D        -1.188  -1.186  -1.105  -0.918  -0.914  -0.790  -1.012  -1.007  -0.905
75    I        -1.188  -1.186  -1.105  -1.027  -1.022  -0.898  -1.012  -1.007  -0.905
76    N         0.432   0.437   0.505   0.069   0.081   0.198   0.081   0.089   0.188
77    -        -0.516  -0.496  -0.438  -0.544  -0.526  -0.419  -0.648  -0.621  -0.541
78    V        -1.061  -1.042  -1.071  -1.059  -1.026  -1.035  -0.881  -0.858  -0.870
79    P        -1.061  -1.070  -1.055  -0.840  -0.859  -0.849  -0.881  -0.888  -0.854
80    L        -0.413  -0.403  -0.396  -0.707  -0.697  -0.651  -0.531  -0.518  -0.492
81    A        -1.061  -1.070  -1.055  -0.896  -0.910  -0.904  -0.881  -0.888  -0.854
82    G        -1.061  -1.050  -1.047  -1.248  -1.239  -1.220  -0.881  -0.867  -0.846
83    N         0.479   0.488   0.530   0.224   0.243   0.305   0.168   0.184   0.234
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    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
87    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
88    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
89    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
90    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
91    L        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
92    G        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
93    N        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
94    T        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
95    G         0.882   0.876   0.738   1.060   1.051   0.859   0.867   0.856   0.611
96    G        -0.169  -0.203  -0.267  -0.052  -0.111  -0.218  -0.182  -0.226  -0.314
97    D         0.737   0.760   0.673   0.658   0.699   0.554   0.627   0.665   0.496
98    Y        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
99    D         0.737   0.760   0.673   0.629   0.663   0.516   0.627   0.665   0.496
100   D         0.737   0.632   0.637   0.629   0.450   0.450   0.627   0.443   0.431
101   E        -0.378  -0.411  -0.381  -0.401  -0.436  -0.398  -0.466  -0.511  -0.467
102   E         0.737   0.792   0.689   0.661   0.747   0.570   0.627   0.719   0.524
103   E        -1.188  -1.174  -1.105  -1.010  -0.974  -0.882  -1.012  -0.996  -0.905
104   E         0.737   0.792   0.689   0.735   0.815   0.663   0.627   0.719   0.524
105   F        -0.378  -0.301  -0.334  -0.351  -0.246  -0.274  -0.466  -0.360  -0.404
106   V        -0.378  -0.429  -0.383  -0.435  -0.530  -0.441  -0.466  -0.535  -0.470
107   R        -0.378  -0.332  -0.345  -0.216  -0.130  -0.171  -0.466  -0.401  -0.419
108   D         0.737   0.632   0.637   0.629   0.450   0.450   0.627   0.443   0.431
109   H        -1.188  -1.174  -1.105  -0.769  -0.746  -0.642  -1.012  -0.996  -0.905
110   L         0.737   0.632   0.637   0.540   0.364   0.366   0.627   0.443   0.431
111   S        -0.378  -0.429  -0.383  -0.513  -0.601  -0.518  -0.466  -0.535  -0.470
112   D        -0.378  -0.411  -0.381  -0.418  -0.497  -0.407  -0.466  -0.511  -0.467
113   Y        -0.169  -0.194  -0.299   0.148   0.111  -0.074  -0.182  -0.213  -0.357
114   Q        -1.061  -1.042  -1.071  -1.017  -0.982  -1.025  -0.881  -0.858  -0.870
115   V         0.479   0.473   0.533   0.352   0.343   0.444   0.168   0.156   0.240
116   V         0.479   0.484   0.521   0.177   0.182   0.235   0.168   0.176   0.218
117   T        -1.061  -1.094  -1.057  -1.077  -1.145  -1.111  -0.881  -0.913  -0.856
118   K        -1.061  -1.094  -1.057  -1.049  -1.091  -1.054  -0.881  -0.913  -0.856
119   L         0.479   0.473   0.533   0.049   0.032   0.136   0.168   0.156   0.240
120   G         2.051   2.060   2.113   2.151   2.160   2.256   2.266   2.278   2.366
121   D         0.882   0.853   0.729   0.892   0.851   0.659   0.867   0.819   0.594
122   S        -1.061  -1.094  -1.057  -0.873  -0.913  -0.829  -0.881  -0.913  -0.856
123   A        -1.061  -1.042  -1.071  -1.092  -1.068  -1.095  -0.881  -0.858  -0.870
124   D         0.479   0.473   0.533   0.224   0.216   0.312   0.168   0.156   0.240
125   P        -0.413  -0.423  -0.376  -0.288  -0.303  -0.237  -0.531  -0.539  -0.469
126   K         2.051   2.060   2.113   2.117   2.146   2.223   2.266   2.278   2.366
127   V        -1.061  -1.056  -1.026  -1.117  -1.107  -1.060  -0.881  -0.873  -0.824
128   P        -1.061  -1.094  -1.057  -0.833  -0.883  -0.846  -0.881  -0.913  -0.856
129   V         0.479   0.492   0.529   0.162   0.181   0.241   0.168   0.191   0.233
130   V         0.882   0.904   0.746   0.888   0.919   0.669   0.867   0.902   0.625
131   C         0.479   0.473   0.533   0.675   0.664   0.754   0.168   0.156   0.240
132   V        -0.413  -0.383  -0.362  -0.546  -0.507  -0.464  -0.531  -0.496  -0.454
133   Q         2.051   2.060   2.113   2.291   2.312   2.395   2.266   2.278   2.366
134   I         2.051   2.060   2.113   1.999   2.007   2.105   2.266   2.278   2.366
135   A        -0.169  -0.194  -0.299   0.016  -0.024  -0.222  -0.182  -0.213  -0.357
136   E        -0.413  -0.403  -0.396  -0.490  -0.462  -0.436  -0.531  -0.518  -0.492
137   L         2.051   2.060   2.113   1.904   1.915   2.011   2.266   2.278   2.366
138   Y        -0.169  -0.194  -0.299   0.057   0.015  -0.198  -0.182  -0.213  -0.357
139   R        -1.188  -1.172  -1.105  -1.256  -1.261  -1.126  -1.012  -0.994  -0.905
140   R        -1.061  -1.094  -1.057  -0.833  -0.888  -0.853  -0.881  -0.913  -0.856
141   V        -1.061  -1.094  -1.057  -1.010  -1.056  -0.996  -0.881  -0.913  -0.856
142   I        -0.378  -0.350  -0.383  -0.471  -0.423  -0.464  -0.466  -0.427  -0.470
143   L        -0.378  -0.350  -0.383  -0.444  -0.406  -0.426  -0.466  -0.427  -0.470
144   P         2.051   2.060   2.113   2.266   2.279   2.370   2.266   2.278   2.366
145   E        -0.516  -0.513  -0.438  -0.506  -0.495  -0.381  -0.648  -0.642  -0.541
146   V        -0.516  -0.513  -0.438  -0.925  -0.923  -0.797  -0.648  -0.642  -0.541
147   S         0.564   0.600   0.570   0.418   0.481   0.408   0.323   0.386   0.308
148   G        -0.516  -0.513  -0.438  -0.804  -0.806  -0.677  -0.648  -0.642  -0.541
149   T         0.564   0.600   0.570   0.508   0.564   0.518   0.323   0.386   0.308
150   M        -0.516  -0.513  -0.438  -0.762  -0.775  -0.636  -0.648  -0.642  -0.541
151   A        -0.516  -0.513  -0.438  -0.521  -0.520  -0.396  -0.648  -0.642  -0.541
152   Q        -0.516  -0.513  -0.438  -0.529  -0.529  -0.404  -0.648  -0.642  -0.541
153   D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
154   N        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
155   M        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
156   Q        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
157   F        -1.061  -1.042  -1.071  -0.907  -0.869  -0.912  -0.881  -0.858  -0.870
158   S        -1.061  -1.030  -1.012  -1.017  -0.954  -0.941  -0.881  -0.844  -0.808
159   L        -0.169  -0.163  -0.248  -0.211  -0.202  -0.311  -0.182  -0.172  -0.288
160   L        -0.413  -0.384  -0.392  -0.723  -0.680  -0.692  -0.531  -0.497  -0.487
161   I         0.479   0.473   0.533   0.077   0.056   0.158   0.168   0.156   0.240
162   S         0.882   0.904   0.746   0.886   0.915   0.696   0.867   0.902   0.625
163   M        -0.413  -0.384  -0.392  -0.660  -0.632  -0.588  -0.531  -0.497  -0.487
164   S         0.479   0.473   0.533   0.214   0.199   0.304   0.168   0.156   0.240
165   S        -0.169  -0.181  -0.270  -0.097  -0.114  -0.226  -0.182  -0.196  -0.318
166   K         0.882   0.865   0.751   1.038   1.031   0.861   0.867   0.839   0.632
167   I        -0.413  -0.384  -0.392  -0.439  -0.391  -0.431  -0.531  -0.497  -0.487
168   W         0.479   0.473   0.533   0.673   0.660   0.751   0.168   0.156   0.240
169   R        -0.413  -0.427  -0.398  -0.336  -0.357  -0.304  -0.531  -0.544  -0.494
170   A        -0.169  -0.150  -0.276  -0.029   0.011  -0.190  -0.182  -0.156  -0.326
171   T        -1.061  -1.042  -1.071  -1.006  -0.981  -1.037  -0.881  -0.858  -0.870
172   K        -1.061  -1.036  -1.011  -1.006  -0.956  -0.923  -0.881  -0.851  -0.807
173   E         0.737   0.692   0.662   0.630   0.548   0.483   0.627   0.548   0.476
174   Q        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
175   S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
176   A        -0.516  -0.503  -0.438  -0.508  -0.478  -0.383  -0.648  -0.629  -0.541
177   D         2.051   2.060   2.113   2.058   2.066   2.164   2.266   2.278   2.366
178   D        -0.413  -0.423  -0.373  -0.692  -0.707  -0.617  -0.531  -0.539  -0.465
179   N         0.882   0.853   0.729   1.038   1.004   0.828   0.867   0.819   0.594
180   D         0.882   0.904   0.746   0.878   0.910   0.666   0.867   0.902   0.625
181   F         2.051   2.060   2.113   2.234   2.246   2.338   2.266   2.278   2.366
182   G        -1.061  -1.062  -1.024  -0.982  -0.980  -0.919  -0.881  -0.879  -0.821
183   K         0.882   0.853   0.729   0.968   0.939   0.722   0.867   0.819   0.594
184   L         2.051   2.060   2.113   1.904   1.915   2.011   2.266   2.278   2.366
185   V        -0.413  -0.403  -0.396  -0.428  -0.408  -0.415  -0.531  -0.518  -0.492
186   F         2.051   2.060   2.113   2.234   2.246   2.338   2.266   2.278   2.366
187   V        -0.413  -0.418  -0.377  -0.759  -0.770  -0.690  -0.531  -0.533  -0.470
188   L         2.051   2.060   2.113   1.904   1.915   2.011   2.266   2.278   2.366
189   K        -1.709  -1.709  -1.624  -1.487  -1.465  -1.355  -1.230  -1.227  -1.123
190   C        -0.413  -0.403  -0.396  -0.218  -0.202  -0.172  -0.531  -0.518  -0.492
191   I         0.479   0.488   0.530   0.177   0.190   0.253   0.168   0.184   0.234
192   K         2.051   2.060   2.113   2.117   2.146   2.223   2.266   2.278   2.366
193   D        -1.061  -1.070  -1.055  -0.985  -0.990  -0.960  -0.881  -0.888  -0.854
194   M        -0.413  -0.403  -0.396  -0.439  -0.432  -0.380  -0.531  -0.518  -0.492
195   Y         2.051   2.060   2.113   2.264   2.277   2.369   2.266   2.278   2.366
196   A        -1.061  -1.050  -1.047  -1.143  -1.136  -1.130  -0.881  -0.867  -0.846
197   K        -0.378  -0.379  -0.353  -0.373  -0.376  -0.330  -0.466  -0.466  -0.430
* 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/Q07951
Output conservation file - output/Q07951
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
