1     M         1.038   1.082   1.155   1.364   1.397   1.477   1.083   1.143   1.248
2     T        -0.923  -0.585  -0.863  -0.832  -0.356  -0.809  -1.029  -0.572  -0.899
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    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
23    A        -1.864  -1.800  -1.497  -1.937  -1.827  -1.376  -1.779  -1.672  -1.284
24    Q        -1.149  -0.882  -0.896  -1.131  -0.742  -0.820  -1.351  -0.992  -0.941
25    Q        -2.217  -1.907  -1.891  -2.309  -1.958  -1.826  -1.898  -1.575  -1.428
26    A         0.218   0.399  -0.044   0.155   0.345  -0.176   0.213   0.460  -0.219
27    P        -1.084  -1.122  -0.916  -1.051  -1.104  -0.842  -1.277  -1.271  -0.968
28    K         1.038   1.082   1.155   0.649   0.729   0.878   1.083   1.143   1.248
29    W         0.218   0.061  -0.074   0.715   0.505   0.248   0.213  -0.023  -0.270
30    Y         1.038   1.082   1.155   1.255   1.297   1.386   1.083   1.143   1.248
31    P        -0.923  -0.711  -0.867  -0.786  -0.480  -0.774  -1.029  -0.715  -0.903
32    S        -0.403  -0.138  -0.120  -0.755  -0.356  -0.309  -0.780  -0.341  -0.350
33    E         0.218   0.061  -0.074   0.415   0.234   0.023   0.213  -0.023  -0.270
34    D        -1.300  -1.344  -1.444  -0.821  -0.922  -1.140  -1.153  -1.197  -1.233
35    V        -1.604  -1.532  -1.467  -1.640  -1.512  -1.415  -1.526  -1.449  -1.258
36    A        -1.697  -1.697  -1.469  -1.637  -1.601  -1.226  -1.650  -1.578  -1.259
37    A        -1.084  -1.044  -0.894  -1.394  -1.225  -1.009  -1.277  -1.155  -0.940
38    P         0.145   0.332  -0.070   0.271   0.500  -0.123   0.110   0.371  -0.263
39    K        -0.265  -0.275  -0.167  -0.722  -0.725  -0.529  -0.539  -0.575  -0.432
40    K        -0.403  -0.161  -0.124  -0.839  -0.472  -0.380  -0.780  -0.380  -0.356
41    T        -1.300  -1.596  -1.473  -0.918  -1.419  -1.317  -1.153  -1.461  -1.262
42    R         0.218   0.204  -0.061   0.340   0.330  -0.062   0.213   0.191  -0.249
43    K         0.218   0.204  -0.061  -0.027  -0.008  -0.322   0.213   0.191  -0.249
44    A        -1.084  -1.031  -0.912  -1.211  -1.143  -0.994  -1.277  -1.175  -0.964
45    V        -2.217  -2.158  -1.906  -2.184  -2.067  -1.670  -1.898  -1.794  -1.441
46    R         0.218   0.204  -0.061   0.356   0.351  -0.020   0.213   0.191  -0.249
47    P         0.218   0.204  -0.061   0.339   0.316  -0.179   0.213   0.191  -0.249
48    Q        -1.300  -1.596  -1.473  -0.746  -1.128  -1.037  -1.153  -1.461  -1.262
49    K         0.218   0.039  -0.074  -0.042  -0.241  -0.383   0.213  -0.056  -0.270
50    L         0.218   0.039  -0.074   0.133  -0.058  -0.241   0.213  -0.056  -0.270
51    R         1.038   1.082   1.155   1.026   1.082   1.194   1.083   1.143   1.248
52    A        -0.564  -0.765  -0.876  -0.523  -0.810  -0.936  -0.532  -0.789  -0.915
53    S         0.218   0.039  -0.074   0.385   0.169  -0.027   0.213  -0.056  -0.270
54    L         1.038   1.082   1.155   0.819   0.908   1.020   1.083   1.143   1.248
55    V         0.218   0.061  -0.074   0.137  -0.067  -0.310   0.213  -0.023  -0.270
56    P         1.038   1.082   1.155   1.085   1.136   1.244   1.083   1.143   1.248
57    G         1.038   1.082   1.155   1.161   1.197   1.307   1.083   1.143   1.248
58    T         0.218   0.204  -0.061   0.440   0.419  -0.049   0.213   0.191  -0.249
59    V         1.038   1.082   1.155   0.858   0.932   1.054   1.083   1.143   1.248
60    L         0.218   0.061  -0.074   0.183   0.048  -0.104   0.213  -0.023  -0.270
61    I         1.038   1.082   1.155   1.243   1.271   1.375   1.083   1.143   1.248
62    L         1.038   1.082   1.155   0.819   0.908   1.020   1.083   1.143   1.248
63    L         1.038   1.082   1.155   0.819   0.908   1.020   1.083   1.143   1.248
64    A         1.038   1.082   1.155   0.841   0.873   1.039   1.083   1.143   1.248
65    G         1.038   1.082   1.155   1.161   1.197   1.307   1.083   1.143   1.248
66    R         1.038   1.082   1.155   1.026   1.082   1.194   1.083   1.143   1.248
67    F         1.038   1.082   1.155   1.173   1.223   1.317   1.083   1.143   1.248
68    R         1.038   1.082   1.155   1.026   1.082   1.194   1.083   1.143   1.248
69    G         1.038   1.082   1.155   1.161   1.197   1.307   1.083   1.143   1.248
70    K         1.038   1.082   1.155   0.649   0.729   0.878   1.083   1.143   1.248
71    R         1.038   1.082   1.155   1.026   1.082   1.194   1.083   1.143   1.248
72    V         1.038   1.082   1.155   0.858   0.932   1.054   1.083   1.143   1.248
73    V         1.038   1.082   1.155   0.858   0.932   1.054   1.083   1.143   1.248
74    Y        -0.923  -1.102  -0.924  -0.770  -1.139  -0.974  -1.029  -1.242  -0.977
75    L         1.038   1.082   1.155   0.819   0.908   1.020   1.083   1.143   1.248
76    K         0.218   0.061  -0.074  -0.042  -0.211  -0.383   0.213  -0.023  -0.270
77    H        -2.217  -2.248  -1.919  -1.689  -1.797  -1.422  -1.898  -1.851  -1.450
78    L         0.218   0.399  -0.044   0.176   0.411  -0.086   0.213   0.460  -0.219
79    E         0.218   0.039  -0.074   0.409   0.195   0.007   0.213  -0.056  -0.270
80    D         0.218   0.039  -0.074   0.545   0.314   0.108   0.213  -0.056  -0.270
81    N        -0.265  -0.357  -0.173  -0.150  -0.335  -0.100  -0.539  -0.719  -0.443
82    T         0.218   0.039  -0.074   0.443   0.197  -0.067   0.213  -0.056  -0.270
83    L         1.038   1.082   1.155   0.819   0.908   1.020   1.083   1.143   1.248
84    L         0.218   0.061  -0.074   0.099  -0.077  -0.334   0.213  -0.023  -0.270
85    V         1.038   1.082   1.155   0.858   0.932   1.054   1.083   1.143   1.248
86    T        -0.472  -0.313  -0.148  -0.620  -0.335  -0.128  -0.905  -0.642  -0.398
87    G         1.038   1.082   1.155   1.161   1.197   1.307   1.083   1.143   1.248
88    P         1.038   1.082   1.155   1.085   1.136   1.244   1.083   1.143   1.248
89    F         0.218   0.061  -0.074   0.510   0.319   0.095   0.213  -0.023  -0.270
90    K         1.038   1.082   1.155   0.649   0.729   0.878   1.083   1.143   1.248
91    V         0.218   0.039  -0.074   0.196   0.000  -0.145   0.213  -0.056  -0.270
92    N         1.038   1.082   1.155   1.194   1.255   1.334   1.083   1.143   1.248
93    G         1.038   1.082   1.155   1.161   1.197   1.307   1.083   1.143   1.248
94    V         1.038   1.082   1.155   0.858   0.932   1.054   1.083   1.143   1.248
95    P         1.038   1.082   1.155   1.085   1.136   1.244   1.083   1.143   1.248
96    L         0.218   0.061  -0.074   0.157   0.004  -0.175   0.213  -0.023  -0.270
97    R         1.038   1.082   1.155   1.026   1.082   1.194   1.083   1.143   1.248
98    R         1.038   1.082   1.155   1.026   1.082   1.194   1.083   1.143   1.248
99    V         1.038   1.082   1.155   0.858   0.932   1.054   1.083   1.143   1.248
100   N         1.038   1.082   1.155   1.194   1.255   1.334   1.083   1.143   1.248
101   A        -0.564  -0.558  -0.854  -0.474  -0.480  -0.795  -0.532  -0.542  -0.887
102   R         1.038   1.082   1.155   1.026   1.082   1.194   1.083   1.143   1.248
103   Y         1.038   1.082   1.155   1.255   1.297   1.386   1.083   1.143   1.248
104   V         1.038   1.082   1.155   0.858   0.932   1.054   1.083   1.143   1.248
105   I         1.038   1.082   1.155   1.243   1.271   1.375   1.083   1.143   1.248
106   A         1.038   1.082   1.155   0.841   0.873   1.039   1.083   1.143   1.248
107   T         1.038   1.082   1.155   1.161   1.215   1.307   1.083   1.143   1.248
108   S         1.038   1.082   1.155   1.060   1.118   1.223   1.083   1.143   1.248
109   T        -0.564  -0.884  -0.891  -0.220  -0.675  -0.777  -0.532  -0.939  -0.933
110   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
111   K         0.218   0.391  -0.044  -0.048   0.185  -0.351   0.213   0.451  -0.219
112   V         0.218   0.061  -0.074   0.196   0.028  -0.145   0.213  -0.023  -0.270
113   S        -1.227  -0.839  -0.887  -1.088  -0.510  -0.659  -1.401  -0.880  -0.928
114   V        -0.403  -0.333  -0.169  -0.872  -0.740  -0.510  -0.780  -0.677  -0.434
115   E        -1.084  -1.064  -0.901  -1.154  -1.101  -0.909  -1.277  -1.183  -0.948
116   G         1.038   1.082   1.155   1.161   1.197   1.307   1.083   1.143   1.248
117   V         0.218   0.039  -0.074   0.196   0.000  -0.145   0.213  -0.056  -0.270
118   N        -1.604  -1.587  -1.462  -1.327  -1.312  -1.264  -1.526  -1.451  -1.252
119   V        -1.300  -1.360  -1.443  -1.192  -1.289  -1.407  -1.153  -1.217  -1.232
120   E        -1.839  -1.688  -1.474  -1.847  -1.644  -1.331  -1.774  -1.572  -1.264
121   K         1.038   1.082   1.155   0.649   0.729   0.878   1.083   1.143   1.248
122   F         0.218   0.039  -0.074   0.509   0.284   0.090   0.213  -0.056  -0.270
123   N        -0.187  -0.262  -0.162  -0.028  -0.160  -0.082  -0.408  -0.552  -0.423
124   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
125   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
126   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
127   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
128   V        -0.923  -1.102  -0.924  -1.091  -1.374  -1.142  -1.029  -1.242  -0.977
129   E        -1.084  -1.127  -0.912  -1.325  -1.459  -1.143  -1.277  -1.273  -0.962
130   Y         1.038   1.082   1.155   1.255   1.297   1.386   1.083   1.143   1.248
131   F         1.038   1.082   1.155   1.173   1.223   1.317   1.083   1.143   1.248
132   A        -0.564  -0.602  -0.857  -0.510  -0.587  -0.879  -0.532  -0.597  -0.890
133   K        -0.923  -1.054  -0.915  -1.059  -1.311  -1.191  -1.029  -1.169  -0.966
134   E        -0.564  -0.747  -0.876  -0.267  -0.491  -0.725  -0.532  -0.763  -0.915
135   K         1.038   1.082   1.155   0.657   0.739   0.885   1.083   1.143   1.248
136   L        -1.668  -1.558  -1.489  -1.809  -1.652  -1.561  -1.567  -1.453  -1.276
137   T        -1.300  -0.837  -1.392  -0.921  -0.356  -1.075  -1.153  -0.613  -1.181
138   K        -1.604  -1.597  -1.460  -1.864  -1.811  -1.582  -1.526  -1.462  -1.250
139   K        -2.217  -2.248  -1.919  -2.271  -2.214  -1.729  -1.898  -1.851  -1.450
140   E        -1.604  -1.450  -1.453  -1.820  -1.604  -1.525  -1.526  -1.319  -1.243
141   K        -0.564  -0.602  -0.857  -0.768  -0.838  -1.164  -0.532  -0.597  -0.890
142   K        -1.839  -1.737  -1.475  -2.206  -2.028  -1.598  -1.774  -1.611  -1.264
143   E         0.218   0.061  -0.074   0.409   0.224   0.007   0.213  -0.023  -0.270
144   A        -0.923  -1.033  -0.920  -1.111  -1.306  -1.142  -1.029  -1.178  -0.972
145   N        -1.982  -1.729  -1.486  -1.936  -1.654  -1.287  -1.898  -1.602  -1.274
146   L        -0.564  -0.218  -0.823  -0.185   0.227  -0.602  -0.532  -0.094  -0.847
147   F         1.038   1.082   1.155   1.173   1.223   1.317   1.083   1.143   1.248
148   P        -1.839  -1.776  -1.487  -1.886  -1.922  -1.501  -1.774  -1.650  -1.275
149   E         0.218   0.039  -0.074   0.409   0.198   0.005   0.213  -0.056  -0.270
150   Q        -2.737  -2.291  -2.251  -2.247  -1.695  -1.662  -2.147  -1.761  -1.553
151   Q        -1.982  -2.106  -1.912  -1.605  -1.912  -1.751  -1.650  -1.740  -1.445
152   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
153   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
154   -        -0.052  -0.154  -0.120   0.071  -0.083  -0.069  -0.189  -0.368  -0.350
155   T        -1.300  -1.025  -1.412  -1.328  -0.965  -1.375  -1.153  -0.834  -1.201
156   K         0.218   0.061  -0.074  -0.021  -0.176  -0.325   0.213  -0.023  -0.270
157   E        -0.564  -0.576  -0.857  -0.303  -0.363  -0.775  -0.532  -0.562  -0.890
158   I        -1.227  -1.223  -0.950  -1.302  -1.408  -1.049  -1.401  -1.380  -1.006
159   K        -0.564  -0.884  -0.891  -0.718  -1.111  -1.088  -0.532  -0.939  -0.933
160   T        -0.564  -0.554  -0.854  -0.510  -0.549  -0.875  -0.532  -0.544  -0.886
161   E         0.218   0.039  -0.074   0.387   0.162  -0.054   0.213  -0.056  -0.270
162   R         1.038   1.082   1.155   1.026   1.082   1.194   1.083   1.143   1.248
163   V        -0.187  -0.187  -0.153  -0.322  -0.314  -0.249  -0.408  -0.423  -0.407
164   E        -0.403  -0.188  -0.131  -0.745  -0.427  -0.317  -0.780  -0.426  -0.368
165   D         1.038   1.082   1.155   1.214   1.255   1.351   1.083   1.143   1.248
166   Q         1.038   1.082   1.155   1.210   1.264   1.348   1.083   1.143   1.248
167   K         1.038   1.082   1.155   0.649   0.729   0.878   1.083   1.143   1.248
168   V        -2.359  -2.065  -1.903  -2.256  -1.897  -1.656  -2.023  -1.706  -1.438
169   V        -0.187  -0.200  -0.155  -0.322  -0.333  -0.251  -0.408  -0.446  -0.411
170   D         1.038   1.082   1.155   1.214   1.255   1.351   1.083   1.143   1.248
171   K        -0.472  -0.376  -0.173  -1.167  -1.014  -0.639  -0.905  -0.755  -0.442
172   A        -0.564  -0.558  -0.854  -0.597  -0.665  -1.077  -0.532  -0.542  -0.887
173   L         1.038   1.082   1.155   0.819   0.908   1.020   1.083   1.143   1.248
174   L        -0.187  -0.272  -0.163  -0.360  -0.461  -0.284  -0.408  -0.570  -0.425
175   A        -0.923  -0.833  -0.877  -1.033  -0.898  -0.938  -1.029  -0.872  -0.916
176   E        -0.923  -1.060  -0.917  -0.804  -1.020  -0.865  -1.029  -1.181  -0.968
177   I         1.038   1.082   1.155   1.243   1.271   1.375   1.083   1.143   1.248
178   K         1.038   1.082   1.155   0.649   0.729   0.878   1.083   1.143   1.248
179   K         0.218   0.061  -0.074  -0.076  -0.272  -0.477   0.213  -0.023  -0.270
180   T        -0.564  -0.884  -0.891  -0.212  -0.661  -0.757  -0.532  -0.939  -0.933
181   P         0.218   0.039  -0.074   0.398   0.167  -0.041   0.213  -0.056  -0.270
182   L        -0.564  -0.884  -0.891  -0.507  -0.867  -0.877  -0.532  -0.939  -0.933
183   L         0.218   0.061  -0.074   0.176   0.036  -0.124   0.213  -0.023  -0.270
184   K         0.218   0.039  -0.074  -0.076  -0.304  -0.477   0.213  -0.056  -0.270
185   Q        -0.564  -0.884  -0.891  -0.158  -0.600  -0.712  -0.532  -0.939  -0.933
186   Y         1.038   1.082   1.155   1.255   1.297   1.386   1.083   1.143   1.248
187   L         1.038   1.082   1.155   0.819   0.908   1.020   1.083   1.143   1.248
188   S        -0.187   0.072  -0.103  -0.401  -0.053  -0.281  -0.408  -0.006  -0.320
189   A        -0.187  -0.272  -0.163  -0.401  -0.569  -0.373  -0.408  -0.570  -0.425
190   S        -0.564  -0.451  -0.843  -0.267  -0.123  -0.651  -0.532  -0.388  -0.872
191   F         1.038   1.082   1.155   1.173   1.223   1.317   1.083   1.143   1.248
192   S        -0.564  -0.884  -0.891  -0.328  -0.782  -0.865  -0.532  -0.939  -0.933
193   L         1.038   1.082   1.155   0.819   0.908   1.020   1.083   1.143   1.248
194   K        -0.564  -0.884  -0.891  -0.728  -1.129  -1.115  -0.532  -0.939  -0.933
195   N        -0.923  -0.997  -0.907  -0.778  -0.910  -0.912  -1.029  -1.090  -0.956
196   G         1.038   1.082   1.155   1.161   1.197   1.307   1.083   1.143   1.248
197   D         1.038   1.082   1.155   1.214   1.255   1.351   1.083   1.143   1.248
198   K        -0.403  -0.306  -0.164  -0.945  -0.775  -0.523  -0.780  -0.630  -0.426
199   P         1.038   1.082   1.155   1.085   1.136   1.244   1.083   1.143   1.248
200   H         1.038   1.082   1.155   1.364   1.402   1.477   1.083   1.143   1.248
201   L         0.218   0.039  -0.074   0.132  -0.058  -0.244   0.213  -0.056  -0.270
202   L        -0.187  -0.322  -0.172  -0.318  -0.459  -0.210  -0.408  -0.657  -0.440
203   K         0.218   0.399  -0.044  -0.021   0.214  -0.284   0.213   0.460  -0.219
204   F         0.218   0.039  -0.074   0.528   0.319   0.143   0.213  -0.056  -0.270
* 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/P05739
Output conservation file - output/P05739
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
