1     M         1.383   1.418   1.501   1.617   1.670   1.798   1.498   1.547   1.681
2     N        -0.581  -0.527  -0.498  -0.700  -0.631  -0.535  -0.783  -0.688  -0.625
3     Q        -1.261  -1.212  -1.090  -1.090  -1.023  -0.839  -1.239  -1.158  -0.993
4     L        -1.115  -0.972  -1.039  -1.319  -1.158  -1.205  -1.087  -0.936  -0.944
5     G        -2.423  -2.320  -2.169  -2.277  -2.130  -1.928  -1.695  -1.592  -1.400
6     A        -1.223  -1.193  -1.099  -1.143  -1.148  -0.993  -1.184  -1.139  -1.000
7     L         0.067   0.076   0.194  -0.316  -0.270  -0.045  -0.290  -0.288  -0.116
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    A        -1.115  -1.185  -1.061  -1.344  -1.509  -1.300  -1.087  -1.128  -0.963
11    Q        -0.486  -0.576  -0.520  -0.403  -0.588  -0.506  -0.631  -0.746  -0.654
12    V        -1.115  -0.951  -1.028  -1.390  -1.138  -1.262  -1.087  -0.897  -0.930
13    S        -0.874  -0.970  -1.021  -0.772  -0.897  -0.928  -0.783  -0.893  -0.918
14    R        -1.648  -1.635  -1.505  -1.591  -1.538  -1.340  -1.391  -1.351  -1.171
15    F        -0.727  -0.719  -0.570  -1.148  -1.159  -0.936  -0.935  -0.915  -0.715
16    T        -0.581  -0.448  -0.500  -0.748  -0.587  -0.603  -0.783  -0.628  -0.632
17    Q        -1.115  -1.021  -1.035  -0.889  -0.763  -0.783  -1.087  -0.953  -0.935
18    N        -0.581  -0.624  -0.512  -0.492  -0.525  -0.365  -0.783  -0.800  -0.643
19    F         0.047   0.107   0.204  -0.466  -0.342  -0.223  -0.326  -0.228  -0.097
20    S         0.047   0.078   0.195  -0.277  -0.224  -0.031  -0.326  -0.283  -0.114
21    M        -1.648  -1.569  -1.494  -1.628  -1.500  -1.396  -1.391  -1.302  -1.163
22    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
23    E         0.502   0.593   0.337   0.732   0.856   0.512   0.463   0.602   0.150
24    N         0.138   0.246   0.243   0.196   0.366   0.328  -0.158   0.025  -0.024
25    I        -0.314  -0.464  -0.495  -0.378  -0.651  -0.780  -0.364  -0.568  -0.614
26    K        -0.314  -0.464  -0.495   0.043  -0.162  -0.234  -0.364  -0.568  -0.614
27    S        -0.314  -0.464  -0.495  -0.352  -0.561  -0.606  -0.364  -0.568  -0.614
28    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
29    E        -1.502  -1.526  -1.482  -1.065  -1.151  -1.046  -1.239  -1.249  -1.151
30    F        -1.502  -1.572  -1.502  -1.378  -1.487  -1.393  -1.239  -1.289  -1.167
31    Q        -1.648  -1.484  -1.491  -1.471  -1.267  -1.239  -1.391  -1.225  -1.160
32    S        -0.174  -0.090  -0.392  -0.178  -0.068  -0.464  -0.174  -0.059  -0.471
33    L        -1.115  -1.140  -1.059  -1.395  -1.401  -1.241  -1.087  -1.095  -0.963
34    Q        -0.486  -0.467  -0.506  -0.296  -0.328  -0.339  -0.631  -0.635  -0.637
35    S        -0.581  -0.633  -0.510  -0.723  -0.737  -0.556  -0.783  -0.813  -0.642
36    K        -1.115  -1.092  -1.045  -0.775  -0.735  -0.670  -1.087  -1.036  -0.946
37    L        -0.581  -0.502  -0.504  -1.035  -0.913  -0.884  -0.783  -0.682  -0.637
38    A        -0.581  -0.468  -0.498  -0.793  -0.665  -0.657  -0.783  -0.636  -0.628
39    T        -1.648  -1.575  -1.501  -1.547  -1.419  -1.304  -1.391  -1.301  -1.168
40    L        -0.174  -0.181  -0.414  -0.398  -0.418  -0.743  -0.174  -0.201  -0.502
41    R         0.213   0.151   0.217   0.358   0.239   0.331  -0.022  -0.147  -0.073
42    T        -0.581  -0.464  -0.502  -0.675  -0.545  -0.537  -0.783  -0.642  -0.633
43    P        -0.486  -0.553  -0.506  -0.439  -0.582  -0.571  -0.631  -0.711  -0.637
44    Q        -0.874  -1.048  -1.045  -0.561  -0.852  -0.910  -0.783  -0.975  -0.943
45    E         0.213   0.276   0.247   0.328   0.421   0.369  -0.022   0.078  -0.016
46    F         1.383   1.418   1.501   1.298   1.357   1.492   1.498   1.547   1.681
47    F         0.581   0.435   0.355   0.533   0.317   0.135   0.586   0.351   0.183
48    N         0.213   0.355   0.283   0.395   0.620   0.468  -0.022   0.216   0.051
49    F        -0.486  -0.584  -0.506  -0.624  -0.773  -0.669  -0.631  -0.740  -0.636
50    K         0.047   0.070   0.194   0.083   0.105   0.291  -0.326  -0.298  -0.116
51    K         0.581   0.725   0.391   0.870   1.034   0.620   0.586   0.797   0.245
52    I         0.047   0.094   0.198  -0.458  -0.387  -0.235  -0.326  -0.254  -0.108
53    S         1.383   1.418   1.501   1.194   1.244   1.393   1.498   1.547   1.681
54    K         0.581   0.435   0.355   0.891   0.713   0.578   0.586   0.351   0.183
55    P         1.383   1.418   1.501   1.550   1.602   1.734   1.498   1.547   1.681
56    Q        -1.502  -1.585  -1.504  -1.024  -1.155  -1.049  -1.239  -1.301  -1.169
57    N         0.581   0.586   0.382   0.767   0.794   0.492   0.586   0.591   0.230
58    F         0.581   0.586   0.382   0.645   0.669   0.428   0.586   0.591   0.230
59    G        -0.486  -0.553  -0.506  -0.604  -0.733  -0.666  -0.631  -0.711  -0.637
60    E         1.383   1.418   1.501   1.490   1.544   1.677   1.498   1.547   1.681
61    V        -1.261  -1.211  -1.088  -1.269  -1.166  -0.982  -1.239  -1.157  -0.991
62    Q         1.383   1.418   1.501   1.541   1.600   1.726   1.498   1.547   1.681
63    S        -0.174  -0.114  -0.396  -0.160  -0.084  -0.440  -0.174  -0.090  -0.478
64    R         1.383   1.418   1.501   1.546   1.582   1.730   1.498   1.547   1.681
65    V         0.047   0.071   0.194  -0.240  -0.224  -0.024  -0.326  -0.296  -0.116
66    A        -1.261  -1.149  -1.085  -1.378  -1.233  -1.112  -1.239  -1.114  -0.989
67    Y         0.213   0.151   0.217   0.285   0.145   0.201  -0.022  -0.147  -0.073
68    N         1.383   1.418   1.501   1.460   1.522   1.648   1.498   1.547   1.681
69    L         0.581   0.435   0.355   0.304   0.117  -0.013   0.586   0.351   0.183
70    K        -0.874  -0.824  -0.997  -0.690  -0.670  -0.887  -0.783  -0.729  -0.891
71    Y        -0.174  -0.372  -0.445   0.265   0.000  -0.095  -0.174  -0.442  -0.545
72    F         1.383   1.418   1.501   1.298   1.357   1.492   1.498   1.547   1.681
73    S         1.383   1.418   1.501   1.194   1.244   1.393   1.498   1.547   1.681
74    S        -0.486  -0.362  -0.472  -0.627  -0.449  -0.578  -0.631  -0.456  -0.589
75    N         1.383   1.418   1.501   1.460   1.522   1.648   1.498   1.547   1.681
76    Y         1.383   1.418   1.501   1.575   1.627   1.758   1.498   1.547   1.681
77    G        -1.648  -1.566  -1.503  -1.703  -1.640  -1.533  -1.391  -1.296  -1.169
78    L        -1.648  -1.654  -1.508  -1.830  -1.790  -1.559  -1.391  -1.364  -1.174
79    I         0.581   0.525   0.368   0.596   0.518   0.291   0.586   0.496   0.205
80    I        -0.486  -0.447  -0.498  -0.619  -0.596  -0.653  -0.631  -0.590  -0.625
81    G        -1.502  -1.496  -1.479  -1.498  -1.495  -1.563  -1.239  -1.224  -1.148
82    C        -1.648  -1.499  -1.494  -1.299  -1.098  -1.148  -1.391  -1.232  -1.162
83    L         1.383   1.418   1.501   1.027   1.090   1.233   1.498   1.547   1.681
84    S        -0.174  -0.372  -0.445  -0.143  -0.408  -0.473  -0.174  -0.442  -0.545
85    I         0.581   0.586   0.382   0.542   0.543   0.196   0.586   0.591   0.230
86    Y         1.383   1.418   1.501   1.575   1.627   1.758   1.498   1.547   1.681
87    T        -0.581  -0.527  -0.498  -0.635  -0.545  -0.522  -0.783  -0.688  -0.625
88    L         1.383   1.418   1.501   1.027   1.090   1.233   1.498   1.547   1.681
89    L         0.213   0.182   0.219  -0.241  -0.298  -0.238  -0.022  -0.090  -0.069
90    T         0.581   0.435   0.355   0.785   0.616   0.484   0.586   0.351   0.183
91    N         1.383   1.418   1.501   1.460   1.522   1.648   1.498   1.547   1.681
92    L        -1.261  -1.182  -1.086  -1.371  -1.153  -1.037  -1.239  -1.129  -0.989
93    L         0.581   0.525   0.368   0.376   0.333   0.169   0.586   0.496   0.205
94    L         1.383   1.418   1.501   1.027   1.090   1.233   1.498   1.547   1.681
95    L         1.383   1.418   1.501   1.027   1.090   1.233   1.498   1.547   1.681
96    F        -0.174  -0.181  -0.414  -0.098  -0.131  -0.453  -0.174  -0.201  -0.502
97    V         0.581   0.525   0.368   0.692   0.635   0.438   0.586   0.496   0.205
98    I         0.581   0.673   0.383   0.615   0.728   0.355   0.586   0.722   0.231
99    V        -1.115  -1.021  -1.057  -1.053  -0.962  -0.944  -1.087  -0.988  -0.961
100   L        -0.174  -0.203  -0.415  -0.186  -0.232  -0.626  -0.174  -0.227  -0.503
101   V         0.581   0.435   0.355   0.645   0.450   0.313   0.586   0.351   0.183
102   V        -0.486  -0.383  -0.476  -0.649  -0.479  -0.693  -0.631  -0.488  -0.595
103   A        -1.261  -1.149  -1.085  -1.546  -1.380  -1.272  -1.239  -1.118  -0.990
104   G         1.383   1.418   1.501   1.355   1.409   1.547   1.498   1.547   1.681
105   I        -1.648  -1.628  -1.503  -1.755  -1.710  -1.493  -1.391  -1.347  -1.170
106   V        -1.502  -1.303  -1.450  -1.080  -0.784  -1.055  -1.239  -1.026  -1.122
107   G         0.581   0.525   0.368   0.635   0.567   0.314   0.586   0.496   0.205
108   I         1.383   1.418   1.501   1.306   1.349   1.501   1.498   1.547   1.681
109   N        -1.115  -1.185  -1.071  -1.038  -1.141  -1.001  -1.087  -1.136  -0.975
110   K         0.581   0.586   0.382   0.851   0.876   0.536   0.586   0.591   0.230
111   L         1.383   1.418   1.501   1.027   1.090   1.233   1.498   1.547   1.681
112   K        -1.648  -1.616  -1.502  -1.240  -1.187  -1.036  -1.391  -1.336  -1.169
113   G         1.383   1.418   1.501   1.355   1.409   1.547   1.498   1.547   1.681
114   E        -1.648  -1.602  -1.497  -1.406  -1.365  -1.199  -1.391  -1.321  -1.165
115   E         0.581   0.725   0.391   0.940   1.119   0.669   0.586   0.797   0.245
116   L         1.383   1.418   1.501   1.027   1.090   1.233   1.498   1.547   1.681
117   V        -1.115  -1.206  -1.074  -0.988  -1.078  -0.890  -1.087  -1.153  -0.977
118   T        -0.581  -0.568  -0.505  -0.900  -0.898  -0.796  -0.783  -0.735  -0.634
119   P        -0.486  -0.612  -0.520  -0.404  -0.644  -0.542  -0.631  -0.781  -0.654
120   F        -0.874  -0.989  -1.029  -0.656  -0.781  -0.832  -0.783  -0.913  -0.927
121   G        -0.874  -1.048  -1.045  -0.574  -0.796  -0.764  -0.783  -0.975  -0.943
122   S        -1.115  -1.187  -1.074  -1.131  -1.217  -1.018  -1.087  -1.138  -0.977
123   F        -0.174  -0.322  -0.436  -0.186  -0.413  -0.668  -0.174  -0.376  -0.533
124   K        -1.115  -1.149  -1.073  -0.911  -0.996  -0.902  -1.087  -1.107  -0.976
125   T        -0.174  -0.322  -0.436   0.045  -0.149  -0.393  -0.174  -0.376  -0.533
126   N        -0.874  -0.824  -0.997  -0.787  -0.722  -0.923  -0.783  -0.729  -0.891
127   Q         0.581   0.435   0.355   0.847   0.664   0.520   0.586   0.351   0.183
128   L         1.383   1.418   1.501   1.027   1.090   1.233   1.498   1.547   1.681
129   Y         1.383   1.418   1.501   1.575   1.627   1.758   1.498   1.547   1.681
130   T         0.581   0.435   0.355   0.754   0.574   0.412   0.586   0.351   0.183
131   G         0.581   0.435   0.355   0.637   0.434   0.295   0.586   0.351   0.183
132   L         1.383   1.418   1.501   1.027   1.090   1.233   1.498   1.547   1.681
133   V        -1.648  -1.685  -1.515  -1.649  -1.632  -1.377  -1.391  -1.387  -1.180
134   C        -0.486  -0.507  -0.497  -0.261  -0.298  -0.346  -0.631  -0.640  -0.622
135   V         0.581   0.699   0.391   0.637   0.794   0.356   0.586   0.760   0.245
136   A         0.581   0.435   0.355   0.667   0.434   0.260   0.586   0.351   0.183
137   V         0.047   0.072   0.197  -0.240  -0.227  -0.020  -0.326  -0.294  -0.111
138   P         1.383   1.418   1.501   1.550   1.602   1.734   1.498   1.547   1.681
139   I         0.213   0.253   0.235  -0.241  -0.177  -0.213  -0.022   0.037  -0.039
140   G         1.383   1.418   1.501   1.355   1.409   1.547   1.498   1.547   1.681
141   F         0.213   0.131   0.209  -0.084  -0.284  -0.209  -0.022  -0.185  -0.089
142   L         0.047   0.072   0.197  -0.525  -0.447  -0.249  -0.326  -0.294  -0.111
143   A         0.581   0.525   0.368   0.693   0.607   0.345   0.586   0.496   0.205
144   S         1.383   1.418   1.501   1.194   1.244   1.393   1.498   1.547   1.681
145   P         1.383   1.418   1.501   1.550   1.602   1.734   1.498   1.547   1.681
146   I         0.213   0.241   0.234   0.028   0.058   0.018  -0.022   0.017  -0.040
147   S        -0.174  -0.372  -0.445  -0.253  -0.545  -0.697  -0.174  -0.442  -0.545
148   T         1.383   1.418   1.501   1.464   1.535   1.652   1.498   1.547   1.681
149   L        -1.261  -1.247  -1.090  -1.414  -1.370  -1.136  -1.239  -1.192  -0.993
150   L        -0.581  -0.636  -0.510  -0.779  -0.824  -0.639  -0.783  -0.818  -0.643
151   W         1.383   1.418   1.501   1.688   1.738   1.866   1.498   1.547   1.681
152   L         0.581   0.586   0.382   0.306   0.327   0.035   0.586   0.591   0.230
153   I         0.213   0.151   0.217   0.050  -0.081   0.018  -0.022  -0.147  -0.073
154   G         1.383   1.418   1.501   1.355   1.409   1.547   1.498   1.547   1.681
155   A         0.213   0.263   0.246   0.108   0.174   0.093  -0.022   0.055  -0.018
156   S         1.383   1.418   1.501   1.194   1.244   1.393   1.498   1.547   1.681
157   A        -1.502  -1.359  -1.460  -1.301  -1.075  -1.261  -1.239  -1.091  -1.131
158   V        -0.174  -0.245  -0.420  -0.129  -0.240  -0.588  -0.174  -0.266  -0.511
159   S        -1.502  -1.557  -1.488  -1.305  -1.366  -1.371  -1.239  -1.278  -1.156
160   V         0.213   0.192   0.227   0.078   0.023   0.050  -0.022  -0.072  -0.053
161   F        -1.115  -1.080  -1.052  -1.395  -1.336  -1.316  -1.087  -1.029  -0.955
162   G        -0.174   0.036  -0.385  -0.070   0.214  -0.409  -0.174   0.110  -0.462
163   H         1.383   1.418   1.501   1.692   1.741   1.870   1.498   1.547   1.681
164   A         1.383   1.418   1.501   1.430   1.473   1.619   1.498   1.547   1.681
165   S         0.047   0.113   0.209  -0.247  -0.137   0.003  -0.326  -0.218  -0.087
166   L         0.213   0.211   0.226  -0.244  -0.245  -0.233  -0.022  -0.038  -0.056
167   M        -0.174  -0.322  -0.436   0.135  -0.100  -0.386  -0.174  -0.376  -0.533
168   E         0.581   0.525   0.368   0.825   0.766   0.558   0.586   0.496   0.205
169   K         0.581   0.435   0.355   0.891   0.718   0.580   0.586   0.351   0.183
170   P         1.383   1.418   1.501   1.550   1.602   1.734   1.498   1.547   1.681
171   I         0.581   0.435   0.355   0.596   0.389   0.269   0.586   0.351   0.183
172   E         0.581   0.525   0.368   0.825   0.766   0.558   0.586   0.496   0.205
173   T        -0.486  -0.576  -0.520  -0.488  -0.658  -0.585  -0.631  -0.746  -0.654
174   V         0.047   0.072   0.197  -0.163  -0.131   0.072  -0.326  -0.294  -0.111
175   F         1.383   1.418   1.501   1.298   1.357   1.492   1.498   1.547   1.681
176   D        -0.595  -0.569  -0.511  -0.504  -0.480  -0.414  -0.778  -0.717  -0.638
177   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
178   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
179   E         0.581   0.525   0.368   0.779   0.711   0.458   0.586   0.496   0.205
180   E         0.581   0.435   0.355   0.810   0.629   0.505   0.586   0.351   0.183
181   T        -0.314  -0.460  -0.479  -0.079  -0.277  -0.340  -0.364  -0.564  -0.592
182   V         1.383   1.418   1.501   1.355   1.410   1.547   1.498   1.547   1.681
* 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/P53633
Output conservation file - output/P53633
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
