1     M         0.847   0.852   0.907   1.183   1.179   1.210   0.876   0.886   0.967
2     S         0.847   0.852   0.907   0.936   0.937   1.009   0.876   0.886   0.967
3     V        -2.025  -1.941  -1.658  -1.843  -1.755  -1.428  -1.925  -1.850  -1.455
4     -         0.847   0.852   0.907   1.007   1.008   1.067   0.876   0.886   0.967
5     E        -0.488  -0.485  -0.356  -0.395  -0.406  -0.269  -0.758  -0.766  -0.610
6     P        -1.215  -1.257  -1.103  -1.466  -1.496  -1.213  -1.380  -1.407  -1.159
7     V         0.136  -0.014  -0.303   0.117  -0.060  -0.525   0.176  -0.031  -0.518
8     V         0.847   0.852   0.907   0.700   0.716   0.817   0.876   0.886   0.967
9     V         0.136  -0.014  -0.303   0.156  -0.005  -0.382   0.176  -0.031  -0.518
10    I         0.847   0.852   0.907   1.068   1.064   1.117   0.876   0.886   0.967
11    D         0.847   0.852   0.907   1.146   1.147   1.180   0.876   0.886   0.967
12    G        -0.624  -0.590  -0.381  -0.962  -0.913  -0.633  -0.991  -0.947  -0.653
13    K         0.847   0.852   0.907   0.488   0.510   0.645   0.876   0.886   0.967
14    G         0.847   0.852   0.907   0.885   0.892   0.968   0.876   0.886   0.967
15    H         0.847   0.852   0.907   1.129   1.127   1.166   0.876   0.886   0.967
16    L         0.847   0.852   0.907   0.728   0.736   0.839   0.876   0.886   0.967
17    V        -0.906  -0.947  -1.080  -0.875  -0.892  -1.097  -0.913  -0.951  -1.127
18    G         0.847   0.852   0.907   0.885   0.892   0.968   0.876   0.886   0.967
19    R         0.847   0.852   0.907   0.764   0.767   0.869   0.876   0.886   0.967
20    L         0.847   0.852   0.907   0.728   0.736   0.839   0.876   0.886   0.967
21    A         0.847   0.852   0.907   0.590   0.607   0.728   0.876   0.886   0.967
22    S         0.847   0.852   0.907   0.936   0.937   1.009   0.876   0.886   0.967
23    V        -1.533  -1.478  -1.134  -1.515  -1.434  -1.015  -1.691  -1.633  -1.194
24    V         0.847   0.852   0.907   0.700   0.716   0.817   0.876   0.886   0.967
25    A         0.136   0.239  -0.288   0.031   0.148  -0.496   0.176   0.305  -0.493
26    K         0.847   0.852   0.907   0.488   0.510   0.645   0.876   0.886   0.967
27    Q         0.847   0.852   0.907   1.094   1.093   1.138   0.876   0.886   0.967
28    L        -0.247  -0.213  -0.345  -0.275  -0.237  -0.422  -0.369  -0.326  -0.591
29    L         0.847   0.852   0.907   0.728   0.736   0.839   0.876   0.886   0.967
30    N        -1.533  -1.613  -1.637  -1.038  -1.161  -1.357  -1.380  -1.453  -1.434
31    G         0.847   0.852   0.907   0.885   0.892   0.968   0.876   0.886   0.967
32    Q         0.847   0.852   0.907   1.094   1.093   1.138   0.876   0.886   0.967
33    K         0.136   0.089  -0.297  -0.051  -0.088  -0.512   0.176   0.110  -0.509
34    I        -0.624  -0.589  -0.380  -0.741  -0.699  -0.450  -0.991  -0.946  -0.651
35    V         0.136   0.204  -0.291   0.157   0.236  -0.364   0.176   0.261  -0.498
36    V         0.847   0.852   0.907   0.700   0.716   0.817   0.876   0.886   0.967
37    V         0.847   0.852   0.907   0.700   0.716   0.817   0.876   0.886   0.967
38    R         0.847   0.852   0.907   0.764   0.767   0.869   0.876   0.886   0.967
39    A        -0.488  -0.387  -0.348  -0.350  -0.181  -0.306  -0.758  -0.602  -0.595
40    E         0.847   0.852   0.907   0.960   0.965   1.028   0.876   0.886   0.967
41    E        -0.668  -0.632  -0.383  -1.039  -0.990  -0.596  -1.069  -1.023  -0.656
42    L         0.136   0.204  -0.291   0.198   0.266  -0.299   0.176   0.261  -0.498
43    N         0.847   0.852   0.907   1.106   1.103   1.147   0.876   0.886   0.967
44    I         0.847   0.852   0.907   1.068   1.064   1.117   0.876   0.886   0.967
45    S         0.847   0.852   0.907   0.936   0.937   1.009   0.876   0.886   0.967
46    G         0.136   0.089  -0.297   0.345   0.291  -0.230   0.176   0.110  -0.509
47    E        -0.488  -0.485  -0.356  -0.381  -0.391  -0.252  -0.758  -0.766  -0.610
48    F         0.847   0.852   0.907   1.007   1.008   1.067   0.876   0.886   0.967
49    F         0.847   0.852   0.907   1.007   1.008   1.067   0.876   0.886   0.967
50    R         0.847   0.852   0.907   0.764   0.767   0.869   0.876   0.886   0.967
51    N        -0.550  -0.705  -1.069  -0.049  -0.264  -0.958  -0.446  -0.643  -1.114
52    K         0.847   0.852   0.907   0.488   0.510   0.645   0.876   0.886   0.967
53    L         0.847   0.852   0.907   0.728   0.736   0.839   0.876   0.886   0.967
54    K         0.847   0.852   0.907   0.488   0.510   0.645   0.876   0.886   0.967
55    Y         0.847   0.852   0.907   1.013   1.016   1.072   0.876   0.886   0.967
56    H        -1.116  -1.147  -1.106  -0.948  -1.026  -1.111  -1.224  -1.265  -1.160
57    D        -1.215  -1.269  -1.113  -1.208  -1.309  -1.092  -1.380  -1.424  -1.170
58    F        -0.247  -0.144  -0.322  -0.011   0.118  -0.216  -0.369  -0.221  -0.552
59    L         0.847   0.852   0.907   0.728   0.736   0.839   0.876   0.886   0.967
60    R         0.847   0.852   0.907   0.764   0.767   0.869   0.876   0.886   0.967
61    K         0.847   0.852   0.907   0.488   0.510   0.645   0.876   0.886   0.967
62    A         0.136   0.022  -0.302   0.061  -0.053  -0.411   0.176   0.019  -0.517
63    T        -0.488  -0.485  -0.356  -0.243  -0.256  -0.137  -0.758  -0.766  -0.610
64    A        -0.488  -0.387  -0.348  -0.783  -0.612  -0.630  -0.758  -0.602  -0.595
65    F        -0.624  -0.570  -0.374  -0.619  -0.545  -0.307  -0.991  -0.913  -0.640
66    N         0.847   0.852   0.907   1.106   1.103   1.147   0.876   0.886   0.967
67    K        -1.215  -1.225  -1.113  -1.495  -1.461  -1.267  -1.380  -1.386  -1.169
68    T        -1.116  -1.026  -1.098  -0.921  -0.831  -1.069  -1.224  -1.147  -1.151
69    R        -0.906  -0.848  -1.078  -0.905  -0.801  -1.180  -0.913  -0.831  -1.125
70    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
71    G         0.847   0.852   0.907   0.885   0.892   0.968   0.876   0.886   0.967
72    P        -0.488  -0.485  -0.356  -0.537  -0.558  -0.468  -0.758  -0.766  -0.610
73    F         0.847   0.852   0.907   1.007   1.008   1.067   0.876   0.886   0.967
74    H         0.847   0.852   0.907   1.129   1.127   1.166   0.876   0.886   0.967
75    F         0.847   0.852   0.907   1.007   1.008   1.067   0.876   0.886   0.967
76    R         0.847   0.852   0.907   0.764   0.767   0.869   0.876   0.886   0.967
77    A         0.847   0.852   0.907   0.590   0.607   0.728   0.876   0.886   0.967
78    P         0.847   0.852   0.907   1.019   1.019   1.076   0.876   0.886   0.967
79    S         0.847   0.852   0.907   0.936   0.937   1.009   0.876   0.886   0.967
80    R         0.847   0.852   0.907   0.764   0.767   0.869   0.876   0.886   0.967
81    I         0.847   0.852   0.907   1.068   1.064   1.117   0.876   0.886   0.967
82    F         0.136   0.239  -0.288   0.426   0.532  -0.266   0.176   0.305  -0.493
83    Y        -0.906  -0.950  -1.084  -0.504  -0.553  -0.805  -0.913  -0.955  -1.132
84    K         0.847   0.852   0.907   0.488   0.510   0.645   0.876   0.886   0.967
85    A         0.847   0.852   0.907   0.590   0.607   0.728   0.876   0.886   0.967
86    L        -0.906  -0.753  -1.072  -0.862  -0.667  -1.124  -0.913  -0.723  -1.118
87    R         0.847   0.852   0.907   0.764   0.767   0.869   0.876   0.886   0.967
88    G         0.847   0.852   0.907   0.885   0.892   0.968   0.876   0.886   0.967
89    M         0.847   0.852   0.907   1.183   1.179   1.210   0.876   0.886   0.967
90    V        -1.707  -1.604  -1.640  -1.444  -1.358  -1.401  -1.614  -1.527  -1.437
91    S        -0.488  -0.387  -0.348  -0.403  -0.256  -0.289  -0.758  -0.602  -0.595
92    H         0.847   0.852   0.907   1.129   1.127   1.166   0.876   0.886   0.967
93    K         0.847   0.852   0.907   0.488   0.510   0.645   0.876   0.886   0.967
94    T         0.847   0.852   0.907   1.074   1.077   1.121   0.876   0.886   0.967
95    A         0.136  -0.014  -0.303   0.047  -0.111  -0.459   0.176  -0.031  -0.518
96    R         0.847   0.852   0.907   0.764   0.767   0.869   0.876   0.886   0.967
97    G         0.847   0.852   0.907   0.885   0.892   0.968   0.876   0.886   0.967
98    K        -1.533  -1.664  -1.641  -1.572  -1.730  -1.653  -1.380  -1.506  -1.438
99    A         0.136  -0.014  -0.303   0.047  -0.113  -0.462   0.176  -0.031  -0.518
100   A         0.847   0.852   0.907   0.590   0.607   0.728   0.876   0.886   0.967
101   L         0.847   0.852   0.907   0.728   0.736   0.839   0.876   0.886   0.967
102   E         0.136  -0.014  -0.303   0.353   0.155  -0.424   0.176  -0.031  -0.518
103   R        -0.906  -0.950  -1.084  -0.727  -0.776  -0.930  -0.913  -0.955  -1.132
104   L         0.847   0.852   0.907   0.728   0.736   0.839   0.876   0.886   0.967
105   K        -0.488  -0.485  -0.356  -0.832  -0.821  -0.582  -0.758  -0.766  -0.610
106   V        -0.488  -0.485  -0.356  -0.846  -0.849  -0.696  -0.758  -0.766  -0.610
107   F        -0.906  -0.950  -1.084  -0.664  -0.719  -1.096  -0.913  -0.955  -1.132
108   E         0.847   0.852   0.907   0.960   0.965   1.028   0.876   0.886   0.967
109   G         0.847   0.852   0.907   0.885   0.892   0.968   0.876   0.886   0.967
110   I        -0.668  -0.630  -0.381  -0.879  -0.817  -0.455  -1.069  -1.019  -0.653
111   P         0.847   0.852   0.907   1.019   1.019   1.076   0.876   0.886   0.967
112   P         0.847   0.852   0.907   1.019   1.019   1.076   0.876   0.886   0.967
113   P         0.847   0.852   0.907   1.019   1.019   1.076   0.876   0.886   0.967
114   Y        -0.488  -0.485  -0.356  -0.381  -0.395  -0.276  -0.758  -0.766  -0.610
115   D         0.847   0.852   0.907   1.146   1.147   1.180   0.876   0.886   0.967
116   K         0.847   0.852   0.907   0.488   0.510   0.645   0.876   0.886   0.967
117   K        -0.488  -0.485  -0.356  -0.832  -0.821  -0.582  -0.758  -0.766  -0.610
118   K         0.847   0.852   0.907   0.488   0.510   0.645   0.876   0.886   0.967
119   R         0.136   0.022  -0.302   0.156   0.004  -0.572   0.176   0.019  -0.517
120   V        -0.906  -1.115  -1.103  -0.828  -1.104  -1.096  -0.913  -1.184  -1.158
121   V         0.847   0.852   0.907   0.700   0.716   0.817   0.876   0.886   0.967
122   V         0.847   0.852   0.907   0.700   0.716   0.817   0.876   0.886   0.967
123   P         0.847   0.852   0.907   1.019   1.019   1.076   0.876   0.886   0.967
124   Q        -1.116  -1.029  -1.098  -0.985  -0.916  -1.032  -1.224  -1.150  -1.150
125   A         0.847   0.852   0.907   0.590   0.607   0.728   0.876   0.886   0.967
126   L         0.847   0.852   0.907   0.728   0.736   0.839   0.876   0.886   0.967
127   R         0.847   0.852   0.907   0.764   0.767   0.869   0.876   0.886   0.967
128   V         0.136   0.204  -0.291   0.156   0.234  -0.366   0.176   0.261  -0.498
129   L         0.847   0.852   0.907   0.728   0.736   0.839   0.876   0.886   0.967
130   R         0.847   0.852   0.907   0.764   0.767   0.869   0.876   0.886   0.967
131   L         0.847   0.852   0.907   0.728   0.736   0.839   0.876   0.886   0.967
132   K         0.136   0.022  -0.302  -0.053  -0.164  -0.523   0.176   0.019  -0.517
133   P         0.847   0.852   0.907   1.019   1.019   1.076   0.876   0.886   0.967
134   G         0.136  -0.014  -0.303   0.327   0.149  -0.302   0.176  -0.031  -0.518
135   R         0.847   0.852   0.907   0.764   0.767   0.869   0.876   0.886   0.967
136   K         0.847   0.852   0.907   0.488   0.510   0.645   0.876   0.886   0.967
137   Y         0.136   0.022  -0.302   0.462   0.326  -0.181   0.176   0.019  -0.517
138   T        -0.668  -0.616  -0.375  -0.512  -0.436  -0.149  -1.069  -0.994  -0.642
139   T         0.847   0.852   0.907   1.074   1.077   1.121   0.876   0.886   0.967
140   L        -1.116  -1.152  -1.095  -1.275  -1.271  -1.177  -1.224  -1.237  -1.147
141   G         0.136   0.236  -0.288   0.289   0.400  -0.409   0.176   0.300  -0.493
142   K        -0.624  -0.532  -0.364  -1.130  -0.945  -0.720  -0.991  -0.847  -0.623
143   L         0.136   0.089  -0.297   0.142   0.085  -0.506   0.176   0.110  -0.509
144   S         0.847   0.852   0.907   0.936   0.937   1.009   0.876   0.886   0.967
145   T        -1.116  -1.069  -1.093  -0.890  -0.817  -0.851  -1.224  -1.146  -1.144
146   S        -1.404  -1.246  -1.110  -1.451  -1.201  -1.133  -1.536  -1.345  -1.164
147   V         0.136   0.089  -0.297   0.149   0.104  -0.400   0.176   0.110  -0.509
148   G         0.847   0.852   0.907   0.885   0.892   0.968   0.876   0.886   0.967
149   W         0.847   0.852   0.907   1.228   1.226   1.247   0.876   0.886   0.967
150   K         0.847   0.852   0.907   0.488   0.510   0.645   0.876   0.886   0.967
151   Y         0.847   0.852   0.907   1.013   1.016   1.072   0.876   0.886   0.967
152   E        -1.836  -1.875  -2.054  -1.252  -1.361  -1.692  -1.458  -1.513  -1.604
153   D        -0.906  -0.938  -1.082  -0.416  -0.445  -0.770  -0.913  -0.939  -1.130
154   V        -0.488  -0.485  -0.356  -0.646  -0.645  -0.454  -0.758  -0.766  -0.610
155   V         0.847   0.852   0.907   0.700   0.716   0.817   0.876   0.886   0.967
156   A        -1.707  -1.602  -1.633  -1.716  -1.618  -1.489  -1.614  -1.545  -1.433
157   K        -0.550  -0.705  -1.069  -0.626  -0.804  -1.240  -0.446  -0.643  -1.114
158   L         0.847   0.852   0.907   0.728   0.736   0.839   0.876   0.886   0.967
159   E         0.847   0.852   0.907   0.960   0.965   1.028   0.876   0.886   0.967
160   A         0.136   0.194  -0.291   0.364   0.426  -0.359   0.176   0.247  -0.498
161   K        -0.624  -0.621  -0.383  -1.213  -1.206  -0.785  -0.991  -1.002  -0.656
162   R         0.847   0.852   0.907   0.764   0.767   0.869   0.876   0.886   0.967
163   K         0.847   0.852   0.907   0.488   0.510   0.645   0.876   0.886   0.967
164   V        -1.533  -1.618  -1.634  -1.520  -1.648  -1.712  -1.380  -1.485  -1.432
165   S        -1.821  -1.613  -1.636  -1.975  -1.701  -1.655  -1.691  -1.466  -1.434
166   S        -0.550  -0.597  -1.062  -0.161  -0.239  -0.887  -0.446  -0.517  -1.105
167   A         0.847   0.852   0.907   0.590   0.607   0.728   0.876   0.886   0.967
168   E        -0.668  -0.616  -0.375  -1.039  -0.985  -0.603  -1.069  -0.994  -0.642
169   Y        -0.488  -0.485  -0.356  -0.381  -0.395  -0.276  -0.758  -0.766  -0.610
170   Y         0.847   0.852   0.907   1.013   1.016   1.072   0.876   0.886   0.967
171   A        -1.707  -1.723  -1.648  -1.705  -1.715  -1.594  -1.614  -1.634  -1.445
172   K        -1.116  -1.199  -1.110  -1.600  -1.711  -1.538  -1.224  -1.318  -1.165
173   K         0.847   0.852   0.907   0.488   0.510   0.645   0.876   0.886   0.967
174   R        -2.065  -1.991  -1.655  -2.439  -2.320  -1.808  -1.925  -1.859  -1.452
175   A         0.136   0.022  -0.302   0.003  -0.127  -0.619   0.176   0.019  -0.517
176   F        -2.859  -2.847  -2.418  -2.788  -2.770  -2.178  -2.236  -2.209  -1.732
177   T        -2.556  -2.478  -2.082  -2.175  -2.113  -1.664  -2.158  -2.083  -1.626
178   K        -0.550  -0.595  -1.059  -0.697  -0.748  -1.449  -0.446  -0.514  -1.102
179   K        -1.209  -1.380  -1.620  -1.154  -1.339  -1.589  -0.991  -1.196  -1.418
180   V        -1.950  -1.954  -1.662  -1.936  -1.931  -1.528  -1.847  -1.844  -1.459
181   A        -2.355  -2.354  -2.062  -2.207  -2.202  -1.856  -2.005  -1.994  -1.611
182   S        -1.707  -1.828  -1.646  -1.801  -1.946  -1.670  -1.614  -1.706  -1.444
183   A         0.136   0.207  -0.288   0.051   0.132  -0.426   0.176   0.265  -0.493
184   N        -1.209  -1.117  -1.605  -1.094  -0.991  -1.434  -0.991  -0.902  -1.403
185   A        -1.836  -1.940  -2.044  -1.653  -1.816  -1.958  -1.458  -1.578  -1.596
186   T        -2.253  -2.299  -2.057  -2.205  -2.287  -1.897  -1.925  -1.954  -1.608
187   A        -1.348  -1.353  -1.121  -1.456  -1.471  -1.105  -1.506  -1.500  -1.178
188   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
189   A        -0.461  -0.501  -0.377  -0.866  -0.948  -0.761  -0.712  -0.794  -0.646
190   E        -1.675  -1.787  -1.658  -1.232  -1.397  -1.287  -1.506  -1.646  -1.454
191   S        -0.906  -0.908  -1.080  -0.573  -0.566  -0.828  -0.913  -0.902  -1.128
192   D        -2.442  -2.426  -2.074  -2.062  -2.102  -1.714  -2.080  -2.057  -1.620
193   V        -1.215  -1.249  -1.105  -1.561  -1.555  -1.270  -1.380  -1.394  -1.161
194   A        -1.116  -1.053  -1.098  -1.215  -1.147  -1.122  -1.224  -1.172  -1.150
195   K        -1.950  -1.827  -1.650  -2.056  -1.897  -1.556  -1.847  -1.742  -1.449
196   Q        -1.230  -1.234  -1.119  -1.557  -1.598  -1.380  -1.302  -1.324  -1.175
197   L         0.847   0.852   0.907   0.728   0.736   0.839   0.876   0.886   0.967
198   A        -0.550  -0.601  -1.059  -0.582  -0.660  -1.339  -0.446  -0.521  -1.101
199   A        -2.671  -2.610  -2.404  -2.423  -2.397  -2.023  -2.080  -2.041  -1.724
200   L        -0.624  -0.570  -0.374  -0.779  -0.694  -0.456  -0.991  -0.913  -0.640
201   G         0.847   0.852   0.907   0.885   0.892   0.968   0.876   0.886   0.967
202   Y         0.847   0.852   0.907   1.013   1.016   1.072   0.876   0.886   0.967
* 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/P26784
Output conservation file - output/P26784
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
