1     M         0.846   0.848   0.856   0.950   0.960   0.961   0.867   0.868   0.876
2     A        -2.003  -1.987  -1.916  -1.874  -1.847  -1.733  -1.753  -1.731  -1.629
3     V        -2.003  -1.987  -1.916  -1.936  -1.900  -1.792  -1.753  -1.731  -1.629
4     E        -0.805  -0.779  -0.869  -0.791  -0.752  -0.906  -0.880  -0.840  -0.966
5     -        -0.951  -0.946  -0.893  -1.042  -1.032  -0.939  -1.098  -1.087  -1.003
6     -         0.846   0.848   0.856   0.949   0.952   0.960   0.867   0.868   0.876
7     -         0.846   0.848   0.856   0.786   0.789   0.804   0.867   0.868   0.876
8     -        -0.951  -0.946  -0.893  -1.002  -0.993  -0.901  -1.098  -1.087  -1.003
9     -        -0.951  -0.946  -0.893  -1.136  -1.126  -1.029  -1.098  -1.087  -1.003
10    -         0.846   0.848   0.856   0.786   0.789   0.804   0.867   0.868   0.876
11    -        -0.951  -0.946  -0.893  -0.698  -0.689  -0.611  -1.098  -1.087  -1.003
12    -        -0.951  -0.946  -0.893  -1.042  -1.032  -0.939  -1.098  -1.087  -1.003
13    -        -0.951  -0.946  -0.893  -1.042  -1.032  -0.939  -1.098  -1.087  -1.003
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    -        -0.951  -0.946  -0.893  -1.274  -1.263  -1.161  -1.098  -1.087  -1.003
17    -         0.846   0.848   0.856   0.949   0.952   0.960   0.867   0.868   0.876
18    -        -0.951  -0.946  -0.893  -1.302  -1.291  -1.187  -1.098  -1.087  -1.003
19    -        -0.951  -0.946  -0.893  -1.190  -1.180  -1.081  -1.098  -1.087  -1.003
20    -        -0.951  -0.946  -0.893  -1.232  -1.222  -1.120  -1.098  -1.087  -1.003
21    -         0.846   0.848   0.856   0.579   0.583   0.607   0.867   0.868   0.876
22    -        -0.951  -0.946  -0.893  -0.989  -0.979  -0.889  -1.098  -1.087  -1.003
23    -        -0.951  -0.946  -0.893  -1.176  -1.166  -1.068  -1.098  -1.087  -1.003
24    -        -0.951  -0.946  -0.893  -1.082  -1.072  -0.977  -1.098  -1.087  -1.003
25    -        -0.951  -0.946  -0.893  -1.274  -1.263  -1.161  -1.098  -1.087  -1.003
26    -        -0.951  -0.946  -0.893  -0.963  -0.953  -0.864  -1.098  -1.087  -1.003
27    E        -0.805  -0.858  -0.870  -0.820  -0.909  -0.922  -0.880  -0.956  -0.969
28    G         0.846   0.848   0.856   0.963   0.965   0.973   0.867   0.868   0.876
29    G        -0.805  -0.858  -0.870  -0.493  -0.586  -0.628  -0.880  -0.956  -0.969
30    C        -0.805  -0.858  -0.870  -0.855  -0.915  -0.889  -0.880  -0.956  -0.969
31    V         0.846   0.848   0.856   0.987   0.983   0.997   0.867   0.868   0.876
32    T         0.846   0.848   0.856   0.913   0.918   0.925   0.867   0.868   0.876
33    K         0.846   0.848   0.856   0.900   0.897   0.913   0.867   0.868   0.876
34    R         0.846   0.848   0.856   1.123   1.124   1.126   0.867   0.868   0.876
35    L         0.846   0.848   0.856   0.550   0.549   0.579   0.867   0.868   0.876
36    Q        -0.805  -0.779  -0.869  -0.564  -0.521  -0.654  -0.880  -0.840  -0.966
37    N        -0.805  -0.779  -0.869  -0.939  -0.888  -1.073  -0.880  -0.840  -0.966
38    E         0.846   0.848   0.856   0.887   0.884   0.901   0.867   0.868   0.876
39    L         0.846   0.848   0.856   0.550   0.549   0.579   0.867   0.868   0.876
40    L        -0.805  -0.858  -0.870  -0.855  -0.963  -1.021  -0.880  -0.956  -0.969
41    Q        -0.805  -0.779  -0.869  -0.785  -0.730  -0.940  -0.880  -0.840  -0.966
42    L         0.846   0.848   0.856   0.550   0.549   0.579   0.867   0.868   0.876
43    L        -0.805  -0.858  -0.870  -0.855  -0.963  -1.021  -0.880  -0.956  -0.969
44    S        -0.805  -0.858  -0.870  -0.820  -0.918  -0.974  -0.880  -0.956  -0.969
45    S         0.846   0.848   0.856   0.629   0.637   0.655   0.867   0.868   0.876
46    T        -2.003  -1.987  -1.916  -1.944  -1.907  -1.800  -1.753  -1.731  -1.629
47    T         0.846   0.848   0.856   0.913   0.918   0.925   0.867   0.868   0.876
48    E        -0.805  -0.858  -0.870  -0.843  -0.933  -0.942  -0.880  -0.956  -0.969
49    S        -0.805  -0.858  -0.870  -0.808  -0.913  -0.964  -0.880  -0.956  -0.969
50    I         0.846   0.848   0.856   0.938   0.940   0.949   0.867   0.868   0.876
51    S         0.846   0.848   0.856   0.629   0.637   0.655   0.867   0.868   0.876
52    A         0.846   0.848   0.856   0.862   0.869   0.877   0.867   0.868   0.876
53    F         0.846   0.848   0.856   1.062   1.063   1.067   0.867   0.868   0.876
54    P         0.846   0.848   0.856   0.798   0.801   0.816   0.867   0.868   0.876
55    V        -0.805  -0.779  -0.869  -0.699  -0.661  -0.827  -0.880  -0.840  -0.966
56    D        -0.805  -0.858  -0.870  -1.030  -1.110  -1.114  -0.880  -0.956  -0.969
57    D         0.846   0.848   0.856   0.824   0.828   0.840   0.867   0.868   0.876
58    N        -2.003  -1.987  -1.916  -2.097  -2.061  -1.946  -1.753  -1.731  -1.629
59    D        -0.805  -0.779  -0.869  -0.849  -0.804  -0.957  -0.880  -0.840  -0.966
60    L         0.846   0.848   0.856   0.550   0.549   0.579   0.867   0.868   0.876
61    T        -0.805  -0.858  -0.870  -1.061  -1.138  -1.121  -0.880  -0.956  -0.969
62    Y        -2.003  -1.987  -1.916  -1.701  -1.673  -1.568  -1.753  -1.731  -1.629
63    W         0.846   0.848   0.856   1.098   1.100   1.102   0.867   0.868   0.876
64    V        -2.003  -1.987  -1.916  -1.820  -1.790  -1.682  -1.753  -1.731  -1.629
65    G         0.846   0.848   0.856   0.963   0.965   0.973   0.867   0.868   0.876
66    Y        -0.805  -0.858  -0.870  -0.693  -0.776  -0.793  -0.880  -0.956  -0.969
67    I        -0.805  -0.748  -0.864  -0.867  -0.763  -1.015  -0.880  -0.797  -0.960
68    T         0.846   0.848   0.856   0.913   0.918   0.925   0.867   0.868   0.876
69    G         0.846   0.848   0.856   0.963   0.965   0.973   0.867   0.868   0.876
70    P         0.846   0.848   0.856   0.798   0.801   0.816   0.867   0.868   0.876
71    K        -2.003  -1.987  -1.916  -2.032  -2.004  -1.884  -1.753  -1.731  -1.629
72    D        -0.805  -0.748  -0.864  -0.785  -0.698  -0.867  -0.880  -0.797  -0.960
73    T         0.846   0.848   0.856   0.913   0.918   0.925   0.867   0.868   0.876
74    P        -2.003  -1.987  -1.916  -1.812  -1.807  -1.675  -1.753  -1.731  -1.629
75    Y         0.846   0.848   0.856   0.987   0.986   0.997   0.867   0.868   0.876
76    S        -0.805  -0.858  -0.870  -0.879  -0.987  -1.025  -0.880  -0.956  -0.969
77    G        -0.805  -0.748  -0.864  -0.722  -0.627  -0.838  -0.880  -0.797  -0.960
78    L         0.846   0.848   0.856   0.550   0.549   0.579   0.867   0.868   0.876
79    K        -0.805  -0.748  -0.864  -0.739  -0.653  -0.837  -0.880  -0.797  -0.960
80    F         0.846   0.848   0.856   1.062   1.063   1.067   0.867   0.868   0.876
81    K         0.846   0.848   0.856   0.900   0.897   0.913   0.867   0.868   0.876
82    V        -0.805  -0.858  -0.870  -0.670  -0.759  -0.774  -0.880  -0.956  -0.969
83    S         0.846   0.848   0.856   0.629   0.637   0.655   0.867   0.868   0.876
84    L        -0.805  -0.779  -0.869  -1.042  -1.004  -1.095  -0.880  -0.840  -0.966
85    K        -2.003  -1.987  -1.916  -2.048  -2.013  -1.899  -1.753  -1.731  -1.629
86    F         0.846   0.848   0.856   1.062   1.063   1.067   0.867   0.868   0.876
87    P         0.846   0.848   0.856   0.798   0.801   0.816   0.867   0.868   0.876
88    Q        -0.805  -0.779  -0.869  -0.682  -0.631  -0.805  -0.880  -0.840  -0.966
89    N         0.846   0.848   0.856   0.824   0.830   0.840   0.867   0.868   0.876
90    Y         0.846   0.848   0.856   0.987   0.986   0.997   0.867   0.868   0.876
91    P         0.846   0.848   0.856   0.798   0.801   0.816   0.867   0.868   0.876
92    F        -0.805  -0.858  -0.870  -0.592  -0.677  -0.692  -0.880  -0.956  -0.969
93    H        -2.003  -1.987  -1.916  -1.858  -1.807  -1.718  -1.753  -1.731  -1.629
94    P        -0.805  -0.748  -0.864  -0.855  -0.764  -0.947  -0.880  -0.797  -0.960
95    P         0.846   0.848   0.856   0.798   0.801   0.816   0.867   0.868   0.876
96    M        -0.805  -0.858  -0.870  -0.710  -0.790  -0.815  -0.880  -0.956  -0.969
97    I         0.846   0.848   0.856   0.938   0.940   0.949   0.867   0.868   0.876
98    K        -0.805  -0.779  -0.869  -0.727  -0.691  -0.830  -0.880  -0.840  -0.966
99    F         0.846   0.848   0.856   1.062   1.063   1.067   0.867   0.868   0.876
100   L        -2.003  -1.987  -1.916  -2.040  -2.041  -1.891  -1.753  -1.731  -1.629
101   S         0.846   0.848   0.856   0.629   0.637   0.655   0.867   0.868   0.876
102   P         0.846   0.848   0.856   0.798   0.801   0.816   0.867   0.868   0.876
103   M         0.846   0.848   0.856   0.950   0.960   0.961   0.867   0.868   0.876
104   W         0.846   0.848   0.856   1.098   1.100   1.102   0.867   0.868   0.876
105   H         0.846   0.848   0.856   1.147   1.149   1.149   0.867   0.868   0.876
106   P         0.846   0.848   0.856   0.798   0.801   0.816   0.867   0.868   0.876
107   N         0.846   0.848   0.856   0.824   0.830   0.840   0.867   0.868   0.876
108   V         0.846   0.848   0.856   0.987   0.983   0.997   0.867   0.868   0.876
109   D         0.846   0.848   0.856   0.824   0.828   0.840   0.867   0.868   0.876
110   K        -0.805  -0.858  -0.870  -0.699  -0.786  -0.816  -0.880  -0.956  -0.969
111   S         0.846   0.848   0.856   0.629   0.637   0.655   0.867   0.868   0.876
112   G         0.846   0.848   0.856   0.963   0.965   0.973   0.867   0.868   0.876
113   N         0.846   0.848   0.856   0.824   0.830   0.840   0.867   0.868   0.876
114   I         0.846   0.848   0.856   0.938   0.940   0.949   0.867   0.868   0.876
115   C         0.846   0.848   0.856   1.183   1.182   1.183   0.867   0.868   0.876
116   L         0.846   0.848   0.856   0.550   0.549   0.579   0.867   0.868   0.876
117   D         0.846   0.848   0.856   0.824   0.828   0.840   0.867   0.868   0.876
118   I         0.846   0.848   0.856   0.938   0.940   0.949   0.867   0.868   0.876
119   L         0.846   0.848   0.856   0.550   0.549   0.579   0.867   0.868   0.876
120   K         0.846   0.848   0.856   0.900   0.897   0.913   0.867   0.868   0.876
121   E        -0.805  -0.779  -0.869  -0.791  -0.752  -0.906  -0.880  -0.840  -0.966
122   K         0.846   0.848   0.856   0.900   0.897   0.913   0.867   0.868   0.876
123   W         0.846   0.848   0.856   1.098   1.100   1.102   0.867   0.868   0.876
124   S         0.846   0.848   0.856   0.629   0.637   0.655   0.867   0.868   0.876
125   A         0.846   0.848   0.856   0.862   0.869   0.877   0.867   0.868   0.876
126   V         0.846   0.848   0.856   0.987   0.983   0.997   0.867   0.868   0.876
127   Y         0.846   0.848   0.856   0.987   0.986   0.997   0.867   0.868   0.876
128   N         0.846   0.848   0.856   0.824   0.830   0.840   0.867   0.868   0.876
129   V         0.846   0.848   0.856   0.987   0.983   0.997   0.867   0.868   0.876
130   E        -0.805  -0.858  -0.870  -0.670  -0.760  -0.794  -0.880  -0.956  -0.969
131   T         0.846   0.848   0.856   0.913   0.918   0.925   0.867   0.868   0.876
132   I         0.846   0.848   0.856   0.938   0.940   0.949   0.867   0.868   0.876
133   L         0.846   0.848   0.856   0.550   0.549   0.579   0.867   0.868   0.876
134   L         0.846   0.848   0.856   0.550   0.549   0.579   0.867   0.868   0.876
135   S         0.846   0.848   0.856   0.629   0.637   0.655   0.867   0.868   0.876
136   L         0.846   0.848   0.856   0.550   0.549   0.579   0.867   0.868   0.876
137   Q         0.846   0.848   0.856   0.987   0.996   0.997   0.867   0.868   0.876
138   S         0.846   0.848   0.856   0.629   0.637   0.655   0.867   0.868   0.876
139   L         0.846   0.848   0.856   0.550   0.549   0.579   0.867   0.868   0.876
140   L        -0.805  -0.748  -0.864  -0.987  -0.915  -1.021  -0.880  -0.797  -0.960
141   G         0.846   0.848   0.856   0.963   0.965   0.973   0.867   0.868   0.876
142   E         0.846   0.848   0.856   0.887   0.884   0.901   0.867   0.868   0.876
143   P         0.846   0.848   0.856   0.798   0.801   0.816   0.867   0.868   0.876
144   N         0.846   0.848   0.856   0.824   0.830   0.840   0.867   0.868   0.876
145   N         0.846   0.848   0.856   0.824   0.830   0.840   0.867   0.868   0.876
146   R        -2.003  -1.987  -1.916  -1.745  -1.706  -1.610  -1.753  -1.731  -1.629
147   S         0.846   0.848   0.856   0.629   0.637   0.655   0.867   0.868   0.876
148   P         0.846   0.848   0.856   0.798   0.801   0.816   0.867   0.868   0.876
149   L         0.846   0.848   0.856   0.550   0.549   0.579   0.867   0.868   0.876
150   N         0.846   0.848   0.856   0.824   0.830   0.840   0.867   0.868   0.876
151   A         0.846   0.848   0.856   0.862   0.869   0.877   0.867   0.868   0.876
152   V        -0.805  -0.858  -0.870  -0.625  -0.710  -0.736  -0.880  -0.956  -0.969
153   A         0.846   0.848   0.856   0.862   0.869   0.877   0.867   0.868   0.876
154   A         0.846   0.848   0.856   0.862   0.869   0.877   0.867   0.868   0.876
155   E        -0.805  -0.748  -0.864  -0.716  -0.633  -0.803  -0.880  -0.797  -0.960
156   L         0.846   0.848   0.856   0.550   0.549   0.579   0.867   0.868   0.876
157   W         0.846   0.848   0.856   1.098   1.100   1.102   0.867   0.868   0.876
158   D        -0.805  -0.779  -0.869  -0.939  -0.889  -1.073  -0.880  -0.840  -0.966
159   A        -2.003  -1.987  -1.916  -1.874  -1.850  -1.733  -1.753  -1.731  -1.629
160   D         0.846   0.848   0.856   0.824   0.828   0.840   0.867   0.868   0.876
161   M        -0.805  -0.779  -0.869  -0.744  -0.694  -0.872  -0.880  -0.840  -0.966
162   E        -2.003  -1.987  -1.916  -1.889  -1.865  -1.748  -1.753  -1.731  -1.629
163   E         0.846   0.848   0.856   0.887   0.884   0.901   0.867   0.868   0.876
164   Y         0.846   0.848   0.856   0.987   0.986   0.997   0.867   0.868   0.876
165   R        -0.805  -0.858  -0.870  -0.642  -0.722  -0.722  -0.880  -0.956  -0.969
166   K        -0.805  -0.858  -0.870  -0.542  -0.641  -0.682  -0.880  -0.956  -0.969
167   K        -0.805  -0.858  -0.870  -1.067  -1.150  -1.129  -0.880  -0.956  -0.969
168   V        -0.805  -0.858  -0.870  -1.024  -1.102  -1.073  -0.880  -0.956  -0.969
169   L        -0.805  -0.858  -0.870  -0.855  -0.963  -1.021  -0.880  -0.956  -0.969
170   A        -0.805  -0.858  -0.870  -0.682  -0.768  -0.809  -0.880  -0.956  -0.969
171   C        -0.805  -0.858  -0.870  -0.417  -0.499  -0.520  -0.880  -0.956  -0.969
172   Y         0.846   0.848   0.856   0.987   0.986   0.997   0.867   0.868   0.876
173   E        -0.805  -0.779  -0.869  -0.756  -0.722  -0.862  -0.880  -0.840  -0.966
174   E        -0.805  -0.748  -0.864  -0.773  -0.686  -0.876  -0.880  -0.797  -0.960
175   I        -0.805  -0.748  -0.864  -0.756  -0.661  -0.873  -0.880  -0.797  -0.960
176   D         0.846   0.848   0.856   0.824   0.828   0.840   0.867   0.868   0.876
177   D        -0.805  -0.779  -0.869  -0.820  -0.780  -0.919  -0.880  -0.840  -0.966
178   Y        -2.003  -1.987  -1.916  -1.790  -1.765  -1.653  -1.753  -1.731  -1.629
* 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/P52492
Output conservation file - output/P52492
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
