1     M         1.069   1.099   1.156   1.259   1.307   1.378   1.123   1.170   1.255
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     -        -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    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
16    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
17    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
18    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
19    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
20    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
21    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
22    F         0.241   0.199  -0.055   0.305   0.247  -0.188   0.230   0.163  -0.268
23    F         0.241   0.199  -0.055   0.332   0.279  -0.116   0.230   0.163  -0.268
24    I        -1.510  -1.471  -1.417  -1.579  -1.525  -1.392  -1.408  -1.352  -1.235
25    K         1.069   1.099   1.156   1.063   1.117   1.202   1.123   1.170   1.255
26    D         0.241   0.114  -0.063   0.370   0.196  -0.109   0.230   0.033  -0.282
27    L         1.069   1.099   1.156   0.981   1.028   1.129   1.123   1.170   1.255
28    S         0.241   0.199  -0.055   0.270   0.225  -0.166   0.230   0.163  -0.268
29    L         1.069   1.099   1.156   0.981   1.028   1.129   1.123   1.170   1.255
30    N        -0.539  -0.704  -0.845  -0.263  -0.521  -0.808  -0.514  -0.734  -0.909
31    I        -0.959  -0.871  -0.856  -1.267  -1.139  -1.111  -1.110  -1.001  -0.924
32    T         0.241   0.114  -0.063   0.385   0.200  -0.132   0.230   0.033  -0.282
33    L         1.069   1.099   1.156   0.981   1.028   1.129   1.123   1.170   1.255
34    H         1.069   1.099   1.156   1.341   1.386   1.452   1.123   1.170   1.255
35    P         1.069   1.099   1.156   1.105   1.154   1.240   1.123   1.170   1.255
36    S         1.069   1.099   1.156   1.005   1.062   1.151   1.123   1.170   1.255
37    F        -0.310  -0.272  -0.137  -0.485  -0.433  -0.212  -0.663  -0.618  -0.412
38    F         1.069   1.099   1.156   1.068   1.116   1.206   1.123   1.170   1.255
39    G         1.069   1.099   1.156   0.943   0.993   1.094   1.123   1.170   1.255
40    P         1.069   1.099   1.156   1.105   1.154   1.240   1.123   1.170   1.255
41    R        -0.310  -0.270  -0.138  -0.326  -0.287  -0.085  -0.663  -0.615  -0.414
42    M         1.069   1.099   1.156   1.255   1.314   1.374   1.123   1.170   1.255
43    K        -1.949  -1.951  -1.841  -1.753  -1.712  -1.568  -1.612  -1.590  -1.410
44    Q        -1.099  -1.278  -1.377  -0.648  -0.960  -1.125  -0.928  -1.141  -1.196
45    Y         0.308   0.074  -0.035   0.549   0.228  -0.017   0.326  -0.030  -0.234
46    L        -0.417  -0.570  -0.790  -0.371  -0.582  -0.994  -0.358  -0.579  -0.839
47    K        -1.467  -1.496  -1.401  -1.334  -1.381  -1.208  -1.384  -1.390  -1.221
48    T        -1.731  -1.468  -1.794  -1.402  -1.070  -1.555  -1.384  -1.127  -1.373
49    K         1.069   1.099   1.156   1.081   1.141   1.218   1.123   1.170   1.255
50    L         1.069   1.099   1.156   0.991   1.120   1.138   1.123   1.170   1.255
51    L         0.308   0.074  -0.035   0.296   0.012  -0.273   0.326  -0.030  -0.234
52    E        -2.081  -2.015  -1.836  -1.902  -1.833  -1.562  -1.726  -1.648  -1.406
53    E        -0.267  -0.173  -0.104  -0.435  -0.305  -0.190  -0.586  -0.442  -0.354
54    V         1.069   1.099   1.156   0.839   0.842   1.001   1.123   1.170   1.255
55    E         1.069   1.099   1.156   1.106   1.120   1.241   1.123   1.170   1.255
56    G         1.069   1.099   1.156   0.931   0.952   1.084   1.123   1.170   1.255
57    S        -0.067   0.045  -0.026  -0.077   0.110  -0.055  -0.244  -0.077  -0.219
58    C         1.069   1.099   1.156   1.324   1.363   1.436   1.123   1.170   1.255
59    T        -0.417  -0.672  -0.819  -0.164  -0.530  -0.788  -0.358  -0.699  -0.875
60    G         1.069   1.099   1.156   0.931   0.952   1.084   1.123   1.170   1.255
61    K        -1.467  -1.508  -1.416  -1.335  -1.409  -1.260  -1.384  -1.402  -1.235
62    F        -0.067  -0.193  -0.129  -0.086  -0.254  -0.204  -0.244  -0.478  -0.399
63    G         1.069   1.099   1.156   0.943   0.993   1.094   1.123   1.170   1.255
64    Y         1.069   1.099   1.156   1.222   1.266   1.345   1.123   1.170   1.255
65    I         1.069   1.099   1.156   1.025   1.048   1.168   1.123   1.170   1.255
66    L        -1.031  -0.948  -0.865  -1.371  -1.225  -1.130  -1.156  -1.074  -0.936
67    C         0.308   0.074  -0.035   0.677   0.341   0.144   0.326  -0.030  -0.234
68    V         0.308   0.074  -0.035   0.170  -0.210  -0.322   0.326  -0.030  -0.234
69    L         0.308   0.074  -0.035   0.356   0.137  -0.097   0.326  -0.030  -0.234
70    D         1.069   1.099   1.156   1.110   1.153   1.244   1.123   1.170   1.255
71    Y        -1.661  -1.642  -1.416  -1.532  -1.524  -1.185  -1.556  -1.513  -1.234
72    D        -2.061  -2.043  -1.848  -1.763  -1.752  -1.468  -1.705  -1.664  -1.415
73    N        -0.539  -0.704  -0.845  -0.244  -0.499  -0.765  -0.514  -0.734  -0.909
74    I        -0.067  -0.161  -0.125  -0.175  -0.355  -0.317  -0.244  -0.421  -0.391
75    D        -0.067   0.028  -0.062  -0.079   0.045  -0.112  -0.244  -0.104  -0.281
76    I        -0.267  -0.229  -0.128  -0.652  -0.663  -0.456  -0.586  -0.540  -0.397
77    Q        -1.949  -1.977  -1.837  -1.913  -2.004  -1.697  -1.612  -1.618  -1.407
78    R        -0.899  -0.994  -0.871  -0.925  -1.061  -0.862  -1.042  -1.122  -0.942
79    G         1.069   1.099   1.156   0.931   0.952   1.084   1.123   1.170   1.255
80    R         1.069   1.099   1.156   1.214   1.254   1.338   1.123   1.170   1.255
81    I        -0.267  -0.191  -0.114  -0.652  -0.573  -0.421  -0.586  -0.473  -0.373
82    L        -1.031  -0.858  -0.855  -1.371  -1.065  -1.135  -1.156  -0.944  -0.923
83    P         1.069   1.099   1.156   1.102   1.175   1.237   1.123   1.170   1.255
84    T        -1.117  -0.990  -0.872  -1.405  -1.241  -1.045  -1.270  -1.117  -0.943
85    D        -1.949  -1.768  -1.824  -1.700  -1.482  -1.519  -1.612  -1.465  -1.398
86    G         1.069   1.099   1.156   0.931   0.952   1.084   1.123   1.170   1.255
87    S        -1.731  -1.675  -1.808  -1.579  -1.498  -1.762  -1.384  -1.354  -1.384
88    A         1.069   1.099   1.156   1.189   1.196   1.315   1.123   1.170   1.255
89    E         1.069   1.099   1.156   1.106   1.120   1.241   1.123   1.170   1.255
90    F         1.069   1.099   1.156   1.064   1.172   1.203   1.123   1.170   1.255
91    N        -1.117  -1.001  -0.850  -1.202  -1.054  -0.805  -1.270  -1.128  -0.917
92    V         1.069   1.099   1.156   0.839   0.842   1.001   1.123   1.170   1.255
93    K         0.308   0.372   0.002   0.439   0.534   0.020   0.326   0.413  -0.170
94    Y         1.069   1.099   1.156   1.222   1.266   1.345   1.123   1.170   1.255
95    R         1.069   1.099   1.156   1.214   1.254   1.338   1.123   1.170   1.255
96    A         1.069   1.099   1.156   1.189   1.196   1.315   1.123   1.170   1.255
97    V         0.308   0.372   0.002   0.170   0.205  -0.257   0.326   0.413  -0.170
98    V         0.308   0.277  -0.011   0.164   0.096  -0.295   0.326   0.279  -0.193
99    F        -0.067   0.045  -0.026   0.178   0.359   0.168  -0.244  -0.077  -0.219
100   K        -0.267  -0.272  -0.137  -0.403  -0.422  -0.201  -0.586  -0.619  -0.413
101   P         1.069   1.099   1.156   1.102   1.175   1.237   1.123   1.170   1.255
102   F         1.069   1.099   1.156   1.064   1.172   1.203   1.123   1.170   1.255
103   K         0.308   0.277  -0.011   0.439   0.418  -0.003   0.326   0.279  -0.193
104   G         0.308   0.372   0.002   0.290   0.346  -0.105   0.326   0.413  -0.170
105   E         1.069   1.099   1.156   1.106   1.120   1.241   1.123   1.170   1.255
106   V         1.069   1.099   1.156   0.839   0.842   1.001   1.123   1.170   1.255
107   V         0.308   0.382   0.000   0.164   0.227  -0.274   0.326   0.426  -0.173
108   D         1.069   1.099   1.156   1.110   1.153   1.244   1.123   1.170   1.255
109   G        -0.267  -0.173  -0.104  -0.455  -0.345  -0.219  -0.586  -0.442  -0.354
110   T        -1.031  -0.788  -0.800  -1.288  -0.920  -0.937  -1.156  -0.846  -0.851
111   V         1.069   1.099   1.156   0.839   0.842   1.001   1.123   1.170   1.255
112   V        -1.381  -1.429  -1.403  -1.390  -1.464  -1.470  -1.270  -1.310  -1.221
113   S        -0.899  -0.777  -0.849  -0.993  -0.780  -0.864  -1.042  -0.881  -0.917
114   C        -0.899  -0.994  -0.871  -1.065  -1.249  -0.988  -1.042  -1.122  -0.942
115   S        -0.749  -0.609  -0.816  -0.616  -0.401  -0.749  -0.814  -0.631  -0.872
116   Q        -1.381  -1.429  -1.403  -1.197  -1.271  -1.219  -1.270  -1.310  -1.221
117   H        -0.899  -0.830  -0.860  -0.740  -0.628  -0.708  -1.042  -0.969  -0.931
118   G         1.069   1.099   1.156   0.931   0.952   1.084   1.123   1.170   1.255
119   F         1.069   1.099   1.156   1.064   1.172   1.203   1.123   1.170   1.255
120   E        -0.267  -0.173  -0.104  -0.475  -0.288  -0.226  -0.586  -0.442  -0.354
121   V        -1.467  -1.508  -1.416  -1.552  -1.646  -1.412  -1.384  -1.402  -1.235
122   Q        -1.467  -1.387  -1.395  -1.291  -1.164  -1.164  -1.384  -1.282  -1.215
123   V        -0.417  -0.672  -0.819  -0.465  -0.886  -1.012  -0.358  -0.699  -0.875
124   G         1.069   1.099   1.156   0.931   0.952   1.084   1.123   1.170   1.255
125   P         1.069   1.099   1.156   1.102   1.175   1.237   1.123   1.170   1.255
126   M        -0.067   0.045  -0.026  -0.145   0.095  -0.083  -0.244  -0.077  -0.219
127   K        -0.749  -0.697  -0.800  -0.759  -0.629  -0.811  -0.814  -0.734  -0.851
128   V         0.308   0.074  -0.035   0.170  -0.210  -0.322   0.326  -0.030  -0.234
129   F         1.069   1.099   1.156   1.064   1.172   1.203   1.123   1.170   1.255
130   V         1.069   1.099   1.156   0.839   0.842   1.001   1.123   1.170   1.255
131   T        -0.067   0.045  -0.026  -0.150   0.058  -0.103  -0.244  -0.077  -0.219
132   K        -1.599  -1.374  -1.381  -1.667  -1.295  -1.338  -1.498  -1.249  -1.200
133   H         0.308   0.382   0.000   0.664   0.776   0.166   0.326   0.426  -0.173
134   L         1.069   1.099   1.156   0.991   1.120   1.138   1.123   1.170   1.255
135   M        -0.899  -0.820  -0.848  -0.950  -0.806  -0.907  -1.042  -0.914  -0.914
136   P         1.069   1.099   1.156   1.102   1.175   1.237   1.123   1.170   1.255
137   Q        -1.731  -1.599  -1.407  -1.749  -1.564  -1.295  -1.612  -1.474  -1.227
138   D         0.308   0.074  -0.035   0.453   0.118  -0.063   0.326  -0.030  -0.234
139   L        -0.899  -0.994  -0.871  -0.934  -1.031  -0.904  -1.042  -1.122  -0.942
140   T        -0.899  -0.994  -0.871  -0.925  -0.999  -0.806  -1.042  -1.122  -0.942
141   F         1.069   1.099   1.156   1.064   1.172   1.203   1.123   1.170   1.255
142   N        -0.067  -0.193  -0.129   0.022  -0.234  -0.164  -0.244  -0.478  -0.399
143   A        -0.749  -0.609  -0.816  -0.682  -0.467  -0.810  -0.814  -0.631  -0.872
144   G        -1.467  -1.551  -1.419  -1.586  -1.663  -1.422  -1.384  -1.435  -1.238
145   S        -0.267  -0.173  -0.104  -0.407  -0.268  -0.171  -0.586  -0.442  -0.354
146   N         0.308   0.074  -0.035   0.561   0.239   0.035   0.326  -0.030  -0.234
147   P         1.069   1.099   1.156   1.102   1.175   1.237   1.123   1.170   1.255
148   P         1.069   1.099   1.156   1.102   1.175   1.237   1.123   1.170   1.255
149   S        -1.467  -1.551  -1.419  -1.368  -1.450  -1.227  -1.384  -1.435  -1.238
150   Y         0.308   0.074  -0.035   0.559   0.242   0.012   0.326  -0.030  -0.234
151   Q        -1.467  -1.551  -1.419  -1.514  -1.616  -1.419  -1.384  -1.435  -1.238
152   S        -0.417  -0.672  -0.819  -0.289  -0.618  -0.901  -0.358  -0.699  -0.875
153   S        -1.599  -1.589  -1.419  -1.645  -1.594  -1.343  -1.498  -1.465  -1.237
154   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
155   E        -0.267  -0.173  -0.104  -0.435  -0.305  -0.190  -0.586  -0.442  -0.354
156   D        -1.599  -1.557  -1.387  -1.446  -1.361  -1.126  -1.498  -1.430  -1.205
157   V        -1.031  -0.802  -0.812  -1.336  -1.072  -0.998  -1.156  -0.865  -0.867
158   I         1.069   1.099   1.156   1.025   1.048   1.168   1.123   1.170   1.255
159   T        -0.267  -0.173  -0.104  -0.421  -0.301  -0.176  -0.586  -0.442  -0.354
160   I        -0.749  -0.858  -0.825  -0.750  -0.898  -0.880  -0.814  -0.935  -0.883
161   K        -0.067   0.045  -0.026  -0.261  -0.119  -0.206  -0.244  -0.077  -0.219
162   S         0.308   0.074  -0.035   0.373   0.102  -0.118   0.326  -0.030  -0.234
163   R        -0.417  -0.672  -0.819  -0.038  -0.384  -0.602  -0.358  -0.699  -0.875
164   I        -0.067   0.045  -0.026  -0.370  -0.256  -0.306  -0.244  -0.077  -0.219
165   R         1.069   1.099   1.156   1.214   1.254   1.338   1.123   1.170   1.255
166   V        -0.267  -0.258  -0.135  -0.683  -0.678  -0.501  -0.586  -0.594  -0.409
167   K         1.069   1.099   1.156   1.081   1.141   1.218   1.123   1.170   1.255
168   I         1.069   1.099   1.156   1.025   1.048   1.168   1.123   1.170   1.255
169   E        -0.749  -0.858  -0.825  -0.984  -1.234  -1.101  -0.814  -0.935  -0.883
170   G         1.069   1.099   1.156   0.931   0.952   1.084   1.123   1.170   1.255
171   C        -1.949  -1.943  -1.835  -1.726  -1.769  -1.649  -1.612  -1.591  -1.406
172   I        -0.067   0.045  -0.026  -0.005   0.151   0.007  -0.244  -0.077  -0.219
173   S        -0.899  -0.792  -0.845  -0.975  -0.797  -0.845  -1.042  -0.905  -0.911
174   Q        -1.031  -1.003  -0.869  -1.044  -1.063  -0.832  -1.156  -1.131  -0.941
175   V        -0.417  -0.672  -0.819  -0.470  -0.877  -1.027  -0.358  -0.699  -0.875
176   S        -1.599  -1.560  -1.406  -1.646  -1.649  -1.387  -1.498  -1.444  -1.226
177   S        -0.267  -0.173  -0.104  -0.481  -0.337  -0.235  -0.586  -0.442  -0.354
178   I        -0.067  -0.161  -0.125  -0.112  -0.288  -0.206  -0.244  -0.421  -0.391
179   H        -1.031  -0.942  -0.845  -0.944  -0.809  -0.715  -1.156  -1.048  -0.911
180   A         1.069   1.099   1.156   1.189   1.196   1.315   1.123   1.170   1.255
181   I         1.069   1.099   1.156   1.025   1.048   1.168   1.123   1.170   1.255
182   G         0.308   0.277  -0.011   0.286   0.220  -0.136   0.326   0.279  -0.193
183   S        -0.067  -0.047  -0.095  -0.150  -0.088  -0.222  -0.244  -0.228  -0.339
184   I         0.308   0.277  -0.011   0.390   0.337  -0.032   0.326   0.279  -0.193
185   K         0.308   0.074  -0.035   0.439   0.142  -0.042   0.326  -0.030  -0.234
186   E         0.308   0.074  -0.035   0.424   0.041  -0.138   0.326  -0.030  -0.234
187   D         1.069   1.099   1.156   1.110   1.153   1.244   1.123   1.170   1.255
188   Y         0.308   0.074  -0.035   0.559   0.242   0.012   0.326  -0.030  -0.234
189   L         1.069   1.099   1.156   0.991   1.120   1.138   1.123   1.170   1.255
190   G         1.069   1.099   1.156   0.931   0.952   1.084   1.123   1.170   1.255
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   A        -2.081  -2.029  -1.827  -2.088  -2.022  -1.729  -1.726  -1.656  -1.400
194   I        -1.949  -1.951  -1.841  -1.857  -1.908  -1.751  -1.612  -1.590  -1.410
* 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/P34087
Output conservation file - output/P34087
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
