1     M         0.645   0.654   0.705   0.903   0.909   0.926   0.669   0.682   0.750
2     G         0.645   0.654   0.705   0.540   0.550   0.658   0.669   0.682   0.750
3     L        -1.074  -1.070  -1.647  -1.252  -1.247  -1.903  -0.939  -0.937  -1.605
4     Y        -2.797  -2.798  -2.304  -2.762  -2.758  -2.018  -2.642  -2.624  -1.944
5     A        -3.402  -3.421  -2.790  -3.419  -3.478  -2.628  -2.926  -2.892  -2.125
6     S         0.645   0.654   0.705   0.753   0.793   0.816   0.669   0.682   0.750
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    K        -0.229  -0.163  -0.755  -0.007   0.073  -0.776  -0.182  -0.099  -0.970
11    L         0.645   0.654   0.705   0.203   0.224   0.409   0.669   0.682   0.750
12    F         0.645   0.654   0.705   0.824   0.838   0.868   0.669   0.682   0.750
13    S        -2.638  -2.627  -2.300  -2.464  -2.430  -2.042  -2.453  -2.429  -1.940
14    N        -2.192  -2.131  -1.683  -2.521  -2.431  -1.716  -2.358  -2.275  -1.646
15    L         0.645   0.654   0.705   0.203   0.224   0.409   0.669   0.682   0.750
16    F        -1.074  -1.289  -1.649  -0.690  -0.985  -1.753  -0.939  -1.203  -1.608
17    G        -0.229  -0.163  -0.755  -0.183  -0.110  -0.902  -0.182  -0.099  -0.970
18    N        -3.311  -3.176  -2.787  -3.085  -2.909  -2.322  -2.832  -2.689  -2.123
19    K        -0.701  -0.696  -0.783  -0.644  -0.647  -0.863  -0.845  -0.845  -1.016
20    E         0.645   0.654   0.705   0.575   0.589   0.684   0.669   0.682   0.750
21    M         0.645   0.654   0.705   0.903   0.909   0.926   0.669   0.682   0.750
22    R         0.645   0.654   0.705   0.673   0.678   0.756   0.669   0.682   0.750
23    I         0.645   0.654   0.705   0.600   0.614   0.703   0.669   0.682   0.750
24    L         0.645   0.654   0.705   0.203   0.224   0.409   0.669   0.682   0.750
25    M         0.645   0.654   0.705   0.903   0.909   0.926   0.669   0.682   0.750
26    V         0.645   0.654   0.705   0.656   0.658   0.744   0.669   0.682   0.750
27    G         0.645   0.654   0.705   0.540   0.550   0.658   0.669   0.682   0.750
28    L         0.645   0.654   0.705   0.203   0.224   0.409   0.669   0.682   0.750
29    D         0.645   0.654   0.705   0.711   0.716   0.784   0.669   0.682   0.750
30    G        -0.998  -0.972  -0.792  -1.219  -1.185  -0.961  -1.318  -1.285  -1.031
31    A         0.645   0.654   0.705   0.681   0.704   0.763   0.669   0.682   0.750
32    G         0.645   0.654   0.705   0.540   0.550   0.658   0.669   0.682   0.750
33    K         0.645   0.654   0.705   0.711   0.726   0.784   0.669   0.682   0.750
34    T         0.645   0.654   0.705   0.587   0.607   0.693   0.669   0.682   0.750
35    T         0.645   0.654   0.705   0.587   0.607   0.693   0.669   0.682   0.750
36    V        -0.998  -0.972  -0.792  -1.249  -1.225  -0.954  -1.318  -1.285  -1.031
37    L         0.645   0.654   0.705   0.203   0.224   0.409   0.669   0.682   0.750
38    Y         0.645   0.654   0.705   0.882   0.885   0.911   0.669   0.682   0.750
39    K         0.645   0.654   0.705   0.711   0.726   0.784   0.669   0.682   0.750
40    L         0.645   0.654   0.705   0.203   0.224   0.409   0.669   0.682   0.750
41    K         0.645   0.654   0.705   0.711   0.726   0.784   0.669   0.682   0.750
42    L         0.645   0.654   0.705   0.203   0.224   0.409   0.669   0.682   0.750
43    G         0.645   0.654   0.705   0.540   0.550   0.658   0.669   0.682   0.750
44    E         0.645   0.654   0.705   0.575   0.589   0.684   0.669   0.682   0.750
45    V        -1.165  -1.136  -0.803  -1.564  -1.537  -0.973  -1.602  -1.564  -1.050
46    I        -0.701  -0.712  -0.767  -0.716  -0.754  -0.898  -0.845  -0.868  -0.990
47    T         0.645   0.654   0.705   0.587   0.607   0.693   0.669   0.682   0.750
48    T         0.645   0.654   0.705   0.587   0.607   0.693   0.669   0.682   0.750
49    I         0.645   0.654   0.705   0.600   0.614   0.703   0.669   0.682   0.750
50    P         0.645   0.654   0.705   0.956   0.964   0.965   0.669   0.682   0.750
51    T         0.645   0.654   0.705   0.587   0.607   0.693   0.669   0.682   0.750
52    I         0.645   0.654   0.705   0.600   0.614   0.703   0.669   0.682   0.750
53    G         0.645   0.654   0.705   0.540   0.550   0.658   0.669   0.682   0.750
54    F         0.645   0.654   0.705   0.824   0.838   0.868   0.669   0.682   0.750
55    N         0.645   0.654   0.705   0.677   0.691   0.759   0.669   0.682   0.750
56    V         0.645   0.654   0.705   0.656   0.658   0.744   0.669   0.682   0.750
57    E         0.645   0.654   0.705   0.575   0.589   0.684   0.669   0.682   0.750
58    T         0.645   0.654   0.705   0.587   0.607   0.693   0.669   0.682   0.750
59    V         0.645   0.654   0.705   0.656   0.658   0.744   0.669   0.682   0.750
60    Q        -1.512  -1.323  -1.648  -1.435  -1.231  -1.618  -1.507  -1.321  -1.607
61    Y         0.645   0.654   0.705   0.882   0.885   0.911   0.669   0.682   0.750
62    K        -0.229  -0.183  -0.756  -0.016   0.039  -0.811  -0.182  -0.124  -0.971
63    N         0.645   0.654   0.705   0.677   0.691   0.759   0.669   0.682   0.750
64    I        -0.229  -0.410  -0.762  -0.129  -0.354  -0.899  -0.182  -0.426  -0.981
65    S        -1.074  -1.291  -1.653  -0.690  -0.945  -1.574  -0.939  -1.205  -1.612
66    F         0.645   0.654   0.705   0.824   0.838   0.868   0.669   0.682   0.750
67    T         0.645   0.654   0.705   0.587   0.607   0.693   0.669   0.682   0.750
68    V         0.645   0.654   0.705   0.656   0.658   0.744   0.669   0.682   0.750
69    W         0.645   0.654   0.705   0.944   0.948   0.956   0.669   0.682   0.750
70    D         0.645   0.654   0.705   0.711   0.716   0.784   0.669   0.682   0.750
71    V        -0.229  -0.410  -0.762  -0.079  -0.317  -0.887  -0.182  -0.426  -0.981
72    G         0.645   0.654   0.705   0.540   0.550   0.658   0.669   0.682   0.750
73    G         0.645   0.654   0.705   0.540   0.550   0.658   0.669   0.682   0.750
74    Q         0.645   0.654   0.705   0.812   0.837   0.859   0.669   0.682   0.750
75    D         0.645   0.654   0.705   0.711   0.716   0.784   0.669   0.682   0.750
76    R        -0.998  -1.054  -0.801  -1.138  -1.267  -0.898  -1.318  -1.423  -1.045
77    I         0.645   0.654   0.705   0.600   0.614   0.703   0.669   0.682   0.750
78    R         0.645   0.654   0.705   0.673   0.678   0.756   0.669   0.682   0.750
79    S        -0.701  -0.712  -0.767  -0.385  -0.409  -0.647  -0.845  -0.868  -0.990
80    L         0.645   0.654   0.705   0.203   0.224   0.409   0.669   0.682   0.750
81    W         0.645   0.654   0.705   0.944   0.948   0.956   0.669   0.682   0.750
82    R         0.645   0.654   0.705   0.673   0.678   0.756   0.669   0.682   0.750
83    H        -1.219  -1.164  -0.802  -1.184  -1.108  -0.610  -1.696  -1.614  -1.048
84    Y         0.645   0.654   0.705   0.882   0.885   0.911   0.669   0.682   0.750
85    Y        -0.998  -1.054  -0.801  -0.949  -1.066  -0.730  -1.318  -1.423  -1.045
86    R        -0.998  -0.972  -0.792  -1.044  -1.008  -0.821  -1.318  -1.285  -1.031
87    N         0.645   0.654   0.705   0.677   0.691   0.759   0.669   0.682   0.750
88    T         0.645   0.654   0.705   0.587   0.607   0.693   0.669   0.682   0.750
89    E        -0.998  -0.972  -0.792  -1.082  -1.044  -0.867  -1.318  -1.285  -1.031
90    G         0.645   0.654   0.705   0.540   0.550   0.658   0.669   0.682   0.750
91    V        -0.998  -1.054  -0.801  -1.249  -1.378  -0.969  -1.318  -1.423  -1.045
92    I         0.645   0.654   0.705   0.600   0.614   0.703   0.669   0.682   0.750
93    F        -0.229  -0.410  -0.762   0.120  -0.094  -0.664  -0.182  -0.426  -0.981
94    V         0.645   0.654   0.705   0.656   0.658   0.744   0.669   0.682   0.750
95    I        -0.229  -0.246  -0.751  -0.079  -0.111  -0.868  -0.182  -0.205  -0.964
96    D         0.645   0.654   0.705   0.711   0.716   0.784   0.669   0.682   0.750
97    S         0.645   0.654   0.705   0.753   0.793   0.816   0.669   0.682   0.750
98    N         0.645   0.654   0.705   0.677   0.691   0.759   0.669   0.682   0.750
99    D         0.645   0.654   0.705   0.711   0.716   0.784   0.669   0.682   0.750
100   R         0.645   0.654   0.705   0.673   0.678   0.756   0.669   0.682   0.750
101   S        -2.284  -2.210  -2.291  -2.024  -1.947  -2.119  -2.075  -2.003  -1.932
102   R         0.645   0.654   0.705   0.673   0.678   0.756   0.669   0.682   0.750
103   I        -0.229  -0.276  -0.758  -0.129  -0.184  -0.893  -0.182  -0.244  -0.975
104   G        -3.916  -3.920  -3.190  -3.713  -3.712  -2.678  -3.115  -3.076  -2.248
105   E        -0.229  -0.410  -0.762  -0.148  -0.369  -0.892  -0.182  -0.426  -0.981
106   A         0.645   0.654   0.705   0.681   0.704   0.763   0.669   0.682   0.750
107   R        -0.229  -0.183  -0.756  -0.011   0.032  -0.678  -0.182  -0.124  -0.971
108   E         0.645   0.654   0.705   0.575   0.589   0.684   0.669   0.682   0.750
109   V        -0.998  -0.972  -0.792  -1.273  -1.248  -0.969  -1.318  -1.285  -1.031
110   M        -0.701  -0.712  -0.767  -1.085  -1.098  -1.044  -0.845  -0.868  -0.990
111   Q         0.645   0.654   0.705   0.812   0.837   0.859   0.669   0.682   0.750
112   R        -1.770  -1.596  -1.656  -1.756  -1.461  -1.557  -1.885  -1.616  -1.616
113   M        -0.229  -0.410  -0.762   0.126  -0.126  -0.892  -0.182  -0.426  -0.981
114   L         0.645   0.654   0.705   0.203   0.224   0.409   0.669   0.682   0.750
115   N         0.645   0.654   0.705   0.677   0.691   0.759   0.669   0.682   0.750
116   E        -0.229  -0.410  -0.762  -0.148  -0.369  -0.892  -0.182  -0.426  -0.981
117   D         0.645   0.654   0.705   0.711   0.716   0.784   0.669   0.682   0.750
118   E         0.645   0.654   0.705   0.575   0.589   0.684   0.669   0.682   0.750
119   L        -0.229  -0.172  -0.756  -0.535  -0.461  -1.169  -0.182  -0.111  -0.971
120   R        -0.229  -0.273  -0.754  -0.050  -0.109  -0.817  -0.182  -0.241  -0.969
121   N        -0.998  -0.972  -0.792  -1.136  -1.115  -0.878  -1.318  -1.285  -1.031
122   A         0.645   0.654   0.705   0.681   0.704   0.763   0.669   0.682   0.750
123   V        -1.892  -1.808  -1.669  -2.439  -2.329  -1.847  -2.075  -1.979  -1.632
124   W        -0.701  -0.712  -0.767  -1.074  -1.087  -1.025  -0.845  -0.868  -0.990
125   L         0.645   0.654   0.705   0.203   0.224   0.409   0.669   0.682   0.750
126   V         0.645   0.654   0.705   0.656   0.658   0.744   0.669   0.682   0.750
127   F        -0.701  -0.591  -0.777  -0.643  -0.473  -0.986  -0.845  -0.686  -1.006
128   A         0.645   0.654   0.705   0.681   0.704   0.763   0.669   0.682   0.750
129   N         0.645   0.654   0.705   0.677   0.691   0.759   0.669   0.682   0.750
130   K         0.645   0.654   0.705   0.711   0.726   0.784   0.669   0.682   0.750
131   Q         0.645   0.654   0.705   0.812   0.837   0.859   0.669   0.682   0.750
132   D         0.645   0.654   0.705   0.711   0.716   0.784   0.669   0.682   0.750
133   L         0.645   0.654   0.705   0.203   0.224   0.409   0.669   0.682   0.750
134   P         0.645   0.654   0.705   0.956   0.964   0.965   0.669   0.682   0.750
135   E        -0.998  -0.972  -0.792  -1.209  -1.182  -0.947  -1.318  -1.285  -1.031
136   A         0.645   0.654   0.705   0.681   0.704   0.763   0.669   0.682   0.750
137   M         0.645   0.654   0.705   0.903   0.909   0.926   0.669   0.682   0.750
138   S        -2.284  -2.389  -2.297  -1.990  -2.147  -1.995  -2.075  -2.182  -1.937
139   A         0.645   0.654   0.705   0.681   0.704   0.763   0.669   0.682   0.750
140   A         0.645   0.654   0.705   0.681   0.704   0.763   0.669   0.682   0.750
141   E         0.645   0.654   0.705   0.575   0.589   0.684   0.669   0.682   0.750
142   I         0.645   0.654   0.705   0.600   0.614   0.703   0.669   0.682   0.750
143   T         0.645   0.654   0.705   0.587   0.607   0.693   0.669   0.682   0.750
144   E        -0.701  -0.698  -0.785  -0.769  -0.773  -0.931  -0.845  -0.847  -1.019
145   K         0.645   0.654   0.705   0.711   0.726   0.784   0.669   0.682   0.750
146   L        -0.229  -0.273  -0.754  -0.498  -0.539  -1.031  -0.182  -0.241  -0.969
147   G        -0.229  -0.163  -0.755  -0.187  -0.113  -0.917  -0.182  -0.099  -0.970
148   L         0.645   0.654   0.705   0.203   0.224   0.409   0.669   0.682   0.750
149   H        -0.701  -0.833  -0.794  -0.294  -0.518  -0.649  -0.845  -1.059  -1.034
150   S         0.645   0.654   0.705   0.753   0.793   0.816   0.669   0.682   0.750
151   I        -1.165  -1.150  -0.803  -1.824  -1.848  -1.217  -1.602  -1.589  -1.050
152   R         0.645   0.654   0.705   0.673   0.678   0.756   0.669   0.682   0.750
153   N        -1.770  -1.736  -1.664  -1.646  -1.624  -1.449  -1.885  -1.858  -1.626
154   R         0.645   0.654   0.705   0.673   0.678   0.756   0.669   0.682   0.750
155   P        -1.074  -1.080  -1.648  -0.468  -0.480  -1.393  -0.939  -0.948  -1.607
156   W         0.645   0.654   0.705   0.944   0.948   0.956   0.669   0.682   0.750
157   F        -0.998  -1.007  -0.797  -0.919  -0.962  -0.719  -1.318  -1.345  -1.039
158   I         0.645   0.654   0.705   0.600   0.614   0.703   0.669   0.682   0.750
159   Q         0.645   0.654   0.705   0.812   0.837   0.859   0.669   0.682   0.750
160   S        -0.701  -0.667  -0.790  -0.653  -0.595  -0.856  -0.845  -0.800  -1.027
161   T         0.645   0.654   0.705   0.587   0.607   0.693   0.669   0.682   0.750
162   C         0.645   0.654   0.705   1.074   1.076   1.052   0.669   0.682   0.750
163   A         0.645   0.654   0.705   0.681   0.704   0.763   0.669   0.682   0.750
164   T         0.645   0.654   0.705   0.587   0.607   0.693   0.669   0.682   0.750
165   S        -1.165  -1.096  -0.800  -1.472  -1.329  -0.914  -1.602  -1.494  -1.043
166   G         0.645   0.654   0.705   0.540   0.550   0.658   0.669   0.682   0.750
167   E        -0.998  -0.972  -0.792  -1.177  -1.157  -0.927  -1.318  -1.285  -1.031
168   G         0.645   0.654   0.705   0.540   0.550   0.658   0.669   0.682   0.750
169   L        -0.229  -0.410  -0.762  -0.535  -0.753  -1.178  -0.182  -0.426  -0.981
170   Y        -0.229  -0.276  -0.758   0.171   0.109  -0.646  -0.182  -0.244  -0.975
171   E         0.645   0.654   0.705   0.575   0.589   0.684   0.669   0.682   0.750
172   G         0.645   0.654   0.705   0.540   0.550   0.658   0.669   0.682   0.750
173   L         0.645   0.654   0.705   0.203   0.224   0.409   0.669   0.682   0.750
174   E        -0.229  -0.276  -0.758  -0.148  -0.202  -0.886  -0.182  -0.244  -0.975
175   W         0.645   0.654   0.705   0.944   0.948   0.956   0.669   0.682   0.750
176   L         0.645   0.654   0.705   0.203   0.224   0.409   0.669   0.682   0.750
177   S        -0.229  -0.410  -0.762   0.024  -0.176  -0.803  -0.182  -0.426  -0.981
178   N        -1.165  -1.134  -0.802  -1.563  -1.519  -0.967  -1.602  -1.561  -1.048
179   N        -2.657  -2.638  -2.776  -2.187  -2.174  -2.457  -2.169  -2.146  -2.115
180   L        -0.229  -0.273  -0.754  -0.528  -0.574  -1.142  -0.182  -0.241  -0.969
181   K        -1.074  -1.128  -1.640  -0.745  -0.812  -1.616  -0.939  -1.005  -1.597
182   N        -0.701  -0.752  -0.789  -0.668  -0.755  -0.876  -0.845  -0.930  -1.026
183   Q        -3.193  -3.140  -2.786  -2.863  -2.779  -2.411  -2.718  -2.630  -2.122
184   S        -2.242  -2.214  -2.292  -1.855  -1.857  -2.028  -1.992  -1.975  -1.933
185   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
* 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/P19146
Output conservation file - output/P19146
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
