1     M         1.494   1.508   1.585   1.747   1.767   1.886   1.663   1.684   1.813
2     S         0.655   0.723   0.507   0.667   0.743   0.474   0.650   0.757   0.378
3     T        -0.983  -0.987  -0.963  -0.967  -0.971  -0.927  -0.970  -0.968  -0.905
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    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
24    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
25    -         0.447   0.532   0.433   0.545   0.687   0.487   0.296   0.443   0.242
26    -        -1.088  -1.061  -0.982  -0.855  -0.785  -0.695  -1.071  -1.037  -0.924
27    -        -1.088  -1.061  -0.982  -1.191  -1.143  -1.028  -1.071  -1.037  -0.924
28    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
29    I        -0.983  -0.985  -0.956  -0.901  -0.907  -0.833  -0.970  -0.967  -0.899
30    P        -0.390  -0.438  -0.408  -0.338  -0.429  -0.406  -0.565  -0.618  -0.567
31    S        -0.122  -0.151  -0.322  -0.131  -0.187  -0.459  -0.160  -0.204  -0.442
32    E        -0.983  -0.987  -0.963  -1.080  -1.096  -1.073  -0.970  -0.968  -0.905
33    I        -0.390  -0.338  -0.386  -0.546  -0.475  -0.503  -0.565  -0.498  -0.536
34    I         0.308   0.274   0.318   0.230   0.172   0.247   0.043  -0.027   0.020
35    N        -0.390  -0.341  -0.365  -0.600  -0.531  -0.560  -0.565  -0.498  -0.509
36    W         1.494   1.508   1.585   1.773   1.796   1.912   1.663   1.684   1.813
37    T        -1.413  -1.411  -1.380  -1.260  -1.250  -1.248  -1.172  -1.164  -1.094
38    I        -0.390  -0.438  -0.408  -0.359  -0.415  -0.354  -0.565  -0.618  -0.567
39    L         0.203   0.220   0.306  -0.079  -0.033   0.097  -0.160  -0.133  -0.003
40    N         0.203   0.220   0.306  -0.038  -0.029   0.117  -0.160  -0.133  -0.003
41    E         0.655   0.569   0.461   0.634   0.527   0.357   0.650   0.506   0.293
42    I         0.655   0.704   0.500   0.654   0.724   0.399   0.650   0.727   0.365
43    I        -0.122  -0.200  -0.313   0.103  -0.031  -0.251  -0.160  -0.270  -0.429
44    S        -0.820  -0.862  -0.927  -0.707  -0.776  -0.833  -0.767  -0.814  -0.866
45    M         1.494   1.508   1.585   1.747   1.767   1.886   1.663   1.684   1.813
46    D         1.494   1.508   1.585   1.334   1.352   1.477   1.663   1.684   1.813
47    D         0.655   0.660   0.500   0.589   0.603   0.337   0.650   0.657   0.365
48    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
49    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
50    D         1.494   1.508   1.585   1.334   1.352   1.477   1.663   1.684   1.813
51    D         0.308   0.328   0.365  -0.019   0.011   0.056   0.043   0.075   0.112
52    S        -1.413  -1.398  -1.383  -1.192  -1.170  -1.097  -1.172  -1.153  -1.097
53    D         0.203   0.218   0.302  -0.063  -0.054   0.089  -0.160  -0.137  -0.011
54    F         1.494   1.508   1.585   1.586   1.616   1.726   1.663   1.684   1.813
55    S         1.494   1.508   1.585   1.408   1.415   1.550   1.663   1.684   1.813
56    K         0.655   0.719   0.491   0.685   0.778   0.453   0.650   0.751   0.348
57    G        -0.390  -0.431  -0.394  -0.411  -0.465  -0.370  -0.565  -0.607  -0.548
58    L         0.655   0.569   0.461   0.545   0.428   0.251   0.650   0.506   0.293
59    I        -0.820  -0.762  -0.899  -0.724  -0.632  -0.844  -0.767  -0.694  -0.834
60    I        -0.390  -0.378  -0.401  -0.541  -0.543  -0.559  -0.565  -0.559  -0.561
61    Q        -0.820  -0.862  -0.927  -0.613  -0.692  -0.785  -0.767  -0.814  -0.866
62    F         0.308   0.299   0.323   0.366   0.357   0.384   0.043   0.020   0.030
63    I        -0.983  -0.987  -0.963  -0.798  -0.793  -0.737  -0.970  -0.968  -0.905
64    D        -0.390  -0.403  -0.389  -0.697  -0.728  -0.697  -0.565  -0.581  -0.545
65    Q         1.494   1.508   1.585   1.559   1.584   1.699   1.663   1.684   1.813
66    A         0.308   0.328   0.365   0.320   0.345   0.403   0.043   0.075   0.112
67    Q        -1.413  -1.434  -1.371  -1.362  -1.412  -1.348  -1.172  -1.185  -1.086
68    T        -0.552  -0.538  -0.438  -0.752  -0.736  -0.581  -0.767  -0.746  -0.606
69    T         1.494   1.508   1.585   1.635   1.671   1.775   1.663   1.684   1.813
70    F         1.494   1.508   1.585   1.586   1.616   1.726   1.663   1.684   1.813
71    A        -1.844  -1.821  -1.733  -1.872  -1.858  -1.703  -1.375  -1.349  -1.228
72    Q         0.203   0.218   0.304  -0.050  -0.015   0.115  -0.160  -0.137  -0.007
73    M         0.203   0.218   0.302   0.138   0.166   0.294  -0.160  -0.137  -0.011
74    Q        -0.122  -0.073  -0.282  -0.191  -0.120  -0.436  -0.160  -0.090  -0.384
75    R        -1.413  -1.372  -1.349  -1.231  -1.159  -1.139  -1.172  -1.127  -1.066
76    Q        -1.844  -1.821  -1.733  -1.465  -1.432  -1.299  -1.375  -1.349  -1.228
77    L         0.655   0.719   0.491   0.545   0.636   0.301   0.650   0.751   0.348
78    D        -0.820  -0.842  -0.907  -0.824  -0.870  -0.989  -0.767  -0.792  -0.844
79    G        -0.983  -0.979  -0.932  -0.965  -0.973  -0.886  -0.970  -0.958  -0.875
80    E        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
81    K        -0.122  -0.148  -0.307  -0.063  -0.083  -0.346  -0.160  -0.200  -0.421
82    N         0.655   0.569   0.461   0.757   0.630   0.427   0.650   0.506   0.293
83    L         0.655   0.704   0.500   0.571   0.643   0.364   0.650   0.727   0.365
84    T        -1.413  -1.426  -1.358  -1.508  -1.535  -1.419  -1.172  -1.178  -1.075
85    E        -0.983  -0.987  -0.963  -1.157  -1.167  -1.123  -0.970  -0.968  -0.905
86    L         0.655   0.704   0.500   0.545   0.617   0.316   0.650   0.727   0.365
87    D        -0.390  -0.329  -0.383  -0.607  -0.533  -0.569  -0.565  -0.483  -0.532
88    N        -0.983  -0.927  -0.937  -0.962  -0.908  -0.879  -0.970  -0.909  -0.879
89    L         0.655   0.649   0.505   0.534   0.528   0.306   0.650   0.639   0.375
90    G         1.494   1.508   1.585   1.597   1.617   1.737   1.663   1.684   1.813
91    H         1.494   1.508   1.585   1.763   1.781   1.902   1.663   1.684   1.813
92    F         0.655   0.704   0.500   0.860   0.931   0.661   0.650   0.727   0.365
93    L         1.494   1.508   1.585   1.322   1.349   1.465   1.663   1.684   1.813
94    K         1.494   1.508   1.585   1.442   1.472   1.584   1.663   1.684   1.813
95    G         1.494   1.508   1.585   1.597   1.617   1.737   1.663   1.684   1.813
96    S         1.494   1.508   1.585   1.408   1.415   1.550   1.663   1.684   1.813
97    S         0.308   0.328   0.365   0.130   0.144   0.212   0.043   0.075   0.112
98    A         1.494   1.508   1.585   1.559   1.577   1.699   1.663   1.684   1.813
99    A         0.308   0.298   0.315   0.200   0.160   0.155   0.043   0.018   0.014
100   L         1.494   1.508   1.585   1.322   1.349   1.465   1.663   1.684   1.813
101   G         1.494   1.508   1.585   1.597   1.617   1.737   1.663   1.684   1.813
102   L         1.494   1.508   1.585   1.322   1.349   1.465   1.663   1.684   1.813
103   Q        -0.820  -0.862  -0.927  -0.678  -0.749  -0.879  -0.767  -0.814  -0.866
104   R         0.203   0.220   0.306   0.087   0.109   0.236  -0.160  -0.133  -0.003
105   I         0.655   0.569   0.461   0.725   0.613   0.466   0.650   0.506   0.293
106   A        -0.390  -0.438  -0.408  -0.445  -0.525  -0.468  -0.565  -0.618  -0.567
107   W        -0.820  -0.862  -0.927  -0.521  -0.613  -0.777  -0.767  -0.814  -0.866
108   V        -0.983  -0.985  -0.956  -0.845  -0.871  -0.811  -0.970  -0.967  -0.899
109   C         1.494   1.508   1.585   1.799   1.821   1.938   1.663   1.684   1.813
110   E         1.494   1.508   1.585   1.391   1.420   1.533   1.663   1.684   1.813
111   R         0.655   0.569   0.461   0.912   0.793   0.595   0.650   0.506   0.293
112   I         1.494   1.508   1.585   1.459   1.479   1.600   1.663   1.684   1.813
113   Q         1.494   1.508   1.585   1.559   1.584   1.699   1.663   1.684   1.813
114   N         0.655   0.569   0.461   0.841   0.736   0.594   0.650   0.506   0.293
115   L        -0.390  -0.431  -0.394  -0.345  -0.393  -0.351  -0.565  -0.607  -0.548
116   G         1.494   1.508   1.585   1.597   1.617   1.737   1.663   1.684   1.813
117   R        -0.983  -0.987  -0.963  -0.650  -0.663  -0.631  -0.970  -0.968  -0.905
118   K         0.655   0.569   0.461   0.727   0.628   0.487   0.650   0.506   0.293
119   M        -1.844  -1.821  -1.733  -1.426  -1.418  -1.261  -1.375  -1.349  -1.228
120   E        -0.390  -0.438  -0.408  -0.567  -0.641  -0.609  -0.565  -0.618  -0.567
121   H        -1.413  -1.398  -1.383  -1.207  -1.191  -1.175  -1.172  -1.153  -1.097
122   F        -0.983  -1.010  -0.956  -1.096  -1.124  -1.004  -0.970  -0.989  -0.899
123   F         0.203   0.217   0.302   0.083   0.104   0.236  -0.160  -0.139  -0.011
124   P         0.203   0.217   0.302   0.253   0.272   0.407  -0.160  -0.139  -0.011
125   N        -1.088  -1.075  -0.982  -1.199  -1.177  -1.036  -1.071  -1.051  -0.924
126   K        -0.443  -0.413  -0.433  -0.631  -0.589  -0.599  -0.615  -0.573  -0.599
127   T        -0.443  -0.445  -0.429  -0.505  -0.505  -0.550  -0.615  -0.617  -0.593
128   E         0.447   0.449   0.385   0.209   0.215   0.070   0.296   0.297   0.150
129   L        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
130   V        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
131   N        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
132   T        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
133   L        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
134   S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
135   D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
136   K        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
137   S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
138   I        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
139   I        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
140   N        -1.088  -1.055  -0.982  -1.210  -1.143  -1.047  -1.071  -1.031  -0.924
141   G        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
142   I        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
143   N        -1.088  -1.068  -0.982  -1.120  -1.101  -0.957  -1.071  -1.045  -0.924
144   I         0.447   0.413   0.413   0.413   0.363   0.367   0.296   0.232   0.203
145   D        -1.413  -1.398  -1.383  -1.207  -1.161  -1.166  -1.172  -1.153  -1.097
146   E         0.240   0.276   0.331  -0.175  -0.108  -0.037  -0.087  -0.024   0.045
147   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
148   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
149   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
150   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
151   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
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   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
155   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
156   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
157   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
158   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
159   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
160   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
161   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
162   D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
163   D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
164   E        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
165   E        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
166   I        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
167   K        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
168   I        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
169   Q        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
170   V        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
171   D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
172   D         0.447   0.497   0.393   0.303   0.377   0.224   0.296   0.381   0.165
173   K        -1.088  -1.075  -0.982  -1.322  -1.296  -1.158  -1.071  -1.051  -0.924
174   D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
175   E        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
176   N         0.655   0.660   0.500   0.577   0.583   0.365   0.650   0.657   0.365
177   S        -0.983  -0.948  -0.926  -1.251  -1.202  -1.158  -0.970  -0.929  -0.870
178   I        -1.413  -1.398  -1.383  -1.238  -1.207  -1.212  -1.172  -1.153  -1.097
179   Y        -0.390  -0.438  -0.408  -0.051  -0.105  -0.044  -0.565  -0.618  -0.567
180   L         0.203   0.218   0.302  -0.176  -0.157  -0.023  -0.160  -0.137  -0.011
181   I        -1.844  -1.821  -1.733  -1.633  -1.621  -1.466  -1.375  -1.349  -1.228
182   L         0.655   0.569   0.461   0.566   0.456   0.292   0.650   0.506   0.293
183   I         0.655   0.569   0.461   0.725   0.613   0.466   0.650   0.506   0.293
184   A        -1.413  -1.398  -1.383  -1.298  -1.253  -1.220  -1.172  -1.153  -1.097
185   K        -0.983  -0.987  -0.963  -1.082  -1.072  -1.003  -0.970  -0.968  -0.905
186   A        -0.122  -0.151  -0.322   0.054   0.011  -0.263  -0.160  -0.204  -0.442
187   L         1.494   1.508   1.585   1.322   1.349   1.465   1.663   1.684   1.813
188   N        -0.983  -0.987  -0.928  -1.030  -1.052  -0.966  -0.970  -0.968  -0.872
189   Q        -0.390  -0.338  -0.386  -0.493  -0.403  -0.507  -0.565  -0.498  -0.536
190   S         0.655   0.660   0.500   0.771   0.773   0.525   0.650   0.657   0.365
191   R         0.655   0.569   0.461   0.912   0.793   0.595   0.650   0.506   0.293
192   L        -1.413  -1.398  -1.383  -1.533  -1.502  -1.479  -1.172  -1.153  -1.097
193   E        -0.390  -0.438  -0.408  -0.544  -0.621  -0.585  -0.565  -0.618  -0.567
194   F         0.655   0.569   0.461   0.860   0.758   0.602   0.650   0.506   0.293
195   K        -0.983  -0.994  -0.946  -1.111  -1.121  -1.029  -0.970  -0.974  -0.888
196   L        -1.413  -1.411  -1.380  -1.554  -1.551  -1.496  -1.172  -1.164  -1.094
197   A         0.308   0.328   0.365   0.200   0.221   0.267   0.043   0.075   0.112
198   R         0.308   0.298   0.315   0.339   0.316   0.286   0.043   0.018   0.014
199   I        -1.413  -1.406  -1.355  -1.275  -1.279  -1.222  -1.172  -1.160  -1.072
200   E        -0.820  -0.862  -0.927  -0.654  -0.697  -0.748  -0.767  -0.814  -0.866
201   L         1.494   1.508   1.585   1.322   1.349   1.465   1.663   1.684   1.813
202   S        -0.820  -0.762  -0.899  -0.802  -0.739  -0.927  -0.767  -0.694  -0.834
203   K        -1.413  -1.365  -1.345  -1.378  -1.291  -1.291  -1.172  -1.120  -1.062
204   Y         0.655   0.569   0.461   0.965   0.851   0.673   0.650   0.506   0.293
205   Y         0.308   0.293   0.314   0.427   0.396   0.392   0.043   0.008   0.012
206   N        -1.413  -1.434  -1.371  -1.429  -1.452  -1.373  -1.172  -1.185  -1.086
207   T        -0.276  -0.404  -0.389  -0.186  -0.424  -0.428  -0.378  -0.560  -0.536
208   N        -0.443  -0.401  -0.397  -0.569  -0.508  -0.498  -0.615  -0.555  -0.549
209   L         0.203   0.221   0.307  -0.092  -0.050   0.090  -0.160  -0.130  -0.001
* 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/Q07688
Output conservation file - output/Q07688
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
