1     M         0.564   0.573   0.590   0.928   0.920   0.891   0.568   0.582   0.609
2     S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
3     S        -1.519  -1.514  -1.181  -1.914  -1.927  -1.421  -1.832  -1.837  -1.376
4     S        -2.504  -2.149  -2.202  -2.769  -2.270  -2.296  -2.472  -2.048  -2.022
5     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
6     K         0.564   0.573   0.590   0.490   0.530   0.555   0.568   0.582   0.609
7     R         0.564   0.573   0.590   0.787   0.772   0.783   0.568   0.582   0.609
8     I         0.564   0.573   0.590   0.441   0.474   0.517   0.568   0.582   0.609
9     A        -2.271  -1.864  -2.197  -1.933  -1.397  -2.023  -2.152  -1.658  -2.016
10    K        -0.623  -0.717  -1.154  -0.433  -0.527  -1.146  -0.552  -0.674  -1.333
11    E         0.564   0.573   0.590   0.827   0.833   0.814   0.568   0.582   0.609
12    L         0.564   0.573   0.590   0.348   0.372   0.446   0.568   0.582   0.609
13    S        -2.504  -2.315  -2.207  -2.652  -2.438  -2.174  -2.472  -2.266  -2.028
14    D         0.564   0.573   0.590   0.398   0.423   0.484   0.568   0.582   0.609
15    L         0.564   0.573   0.590   0.348   0.372   0.446   0.568   0.582   0.609
16    E        -0.623  -0.435  -1.150  -0.254  -0.069  -1.013  -0.552  -0.323  -1.327
17    R        -0.623  -0.717  -1.154  -0.179  -0.330  -1.097  -0.552  -0.674  -1.333
18    D         0.564   0.573   0.590   0.398   0.423   0.484   0.568   0.582   0.609
19    P         0.564   0.573   0.590   0.218   0.250   0.346   0.568   0.582   0.609
20    P         0.564   0.573   0.590   0.218   0.250   0.346   0.568   0.582   0.609
21    T        -1.519  -1.270  -1.167  -1.860  -1.484  -1.352  -1.832  -1.456  -1.354
22    S         0.564   0.573   0.590   0.362   0.389   0.457   0.568   0.582   0.609
23    C         0.564   0.573   0.590   0.888   0.887   0.861   0.568   0.582   0.609
24    S         0.564   0.573   0.590   0.362   0.389   0.457   0.568   0.582   0.609
25    A         0.564   0.573   0.590   0.469   0.503   0.539   0.568   0.582   0.609
26    G         0.564   0.573   0.590   0.664   0.670   0.689   0.568   0.582   0.609
27    P         0.564   0.573   0.590   0.218   0.250   0.346   0.568   0.582   0.609
28    V        -0.623  -0.724  -1.153  -0.147  -0.286  -0.918  -0.552  -0.684  -1.331
29    G         0.564   0.573   0.590   0.664   0.670   0.689   0.568   0.582   0.609
30    D        -1.752  -2.110  -2.202  -1.393  -1.823  -1.910  -1.512  -1.923  -2.022
31    D         0.564   0.573   0.590   0.398   0.423   0.484   0.568   0.582   0.609
32    L        -0.623  -0.461  -1.151  -0.578  -0.404  -1.244  -0.552  -0.355  -1.328
33    Y        -1.519  -1.514  -1.181  -1.470  -1.510  -1.074  -1.832  -1.837  -1.376
34    H         0.564   0.573   0.590   0.841   0.844   0.825   0.568   0.582   0.609
35    W         0.564   0.573   0.590   0.888   0.887   0.861   0.568   0.582   0.609
36    Q         0.564   0.573   0.590   0.915   0.912   0.881   0.568   0.582   0.609
37    A         0.564   0.573   0.590   0.469   0.503   0.539   0.568   0.582   0.609
38    S        -1.519  -1.514  -1.181  -1.860  -1.874  -1.362  -1.832  -1.837  -1.376
39    I         0.564   0.573   0.590   0.441   0.474   0.517   0.568   0.582   0.609
40    M         0.564   0.573   0.590   0.928   0.920   0.891   0.568   0.582   0.609
41    G         0.564   0.573   0.590   0.664   0.670   0.689   0.568   0.582   0.609
42    P         0.564   0.573   0.590   0.218   0.250   0.346   0.568   0.582   0.609
43    A        -2.504  -2.599  -2.210  -2.855  -2.953  -2.407  -2.472  -2.510  -2.031
44    D         0.564   0.573   0.590   0.398   0.423   0.484   0.568   0.582   0.609
45    S         0.564   0.573   0.590   0.362   0.389   0.457   0.568   0.582   0.609
46    P         0.564   0.573   0.590   0.218   0.250   0.346   0.568   0.582   0.609
47    Y         0.564   0.573   0.590   0.692   0.707   0.710   0.568   0.582   0.609
48    A        -1.752  -2.110  -2.202  -1.461  -1.965  -2.225  -1.512  -1.923  -2.022
49    G         0.564   0.573   0.590   0.664   0.670   0.689   0.568   0.582   0.609
50    G         0.564   0.573   0.590   0.664   0.670   0.689   0.568   0.582   0.609
51    V         0.564   0.573   0.590   0.760   0.756   0.762   0.568   0.582   0.609
52    F         0.564   0.573   0.590   0.760   0.758   0.762   0.568   0.582   0.609
53    F         0.564   0.573   0.590   0.760   0.758   0.762   0.568   0.582   0.609
54    L         0.564   0.573   0.590   0.348   0.372   0.446   0.568   0.582   0.609
55    S        -0.623  -0.724  -1.153  -0.568  -0.683  -1.250  -0.552  -0.684  -1.331
56    I         0.564   0.573   0.590   0.441   0.474   0.517   0.568   0.582   0.609
57    H        -0.623  -0.724  -1.153  -0.067  -0.201  -0.869  -0.552  -0.684  -1.331
58    F         0.564   0.573   0.590   0.760   0.758   0.762   0.568   0.582   0.609
59    P         0.564   0.573   0.590   0.218   0.250   0.346   0.568   0.582   0.609
60    T         0.564   0.573   0.590   0.567   0.574   0.614   0.568   0.582   0.609
61    D         0.564   0.573   0.590   0.398   0.423   0.484   0.568   0.582   0.609
62    Y         0.564   0.573   0.590   0.692   0.707   0.710   0.568   0.582   0.609
63    P         0.564   0.573   0.590   0.218   0.250   0.346   0.568   0.582   0.609
64    F         0.564   0.573   0.590   0.760   0.758   0.762   0.568   0.582   0.609
65    K         0.564   0.573   0.590   0.490   0.530   0.555   0.568   0.582   0.609
66    P         0.564   0.573   0.590   0.218   0.250   0.346   0.568   0.582   0.609
67    P         0.564   0.573   0.590   0.218   0.250   0.346   0.568   0.582   0.609
68    K         0.564   0.573   0.590   0.490   0.530   0.555   0.568   0.582   0.609
69    I        -1.519  -1.514  -1.181  -1.687  -1.676  -1.207  -1.832  -1.837  -1.376
70    S        -3.255  -3.293  -2.945  -3.092  -3.134  -2.695  -2.793  -2.768  -2.363
71    F         0.564   0.573   0.590   0.760   0.758   0.762   0.568   0.582   0.609
72    T         0.564   0.573   0.590   0.567   0.574   0.614   0.568   0.582   0.609
73    T         0.564   0.573   0.590   0.567   0.574   0.614   0.568   0.582   0.609
74    K        -1.519  -1.514  -1.181  -1.629  -1.624  -1.165  -1.832  -1.837  -1.376
75    I         0.564   0.573   0.590   0.441   0.474   0.517   0.568   0.582   0.609
76    Y         0.564   0.573   0.590   0.692   0.707   0.710   0.568   0.582   0.609
77    H         0.564   0.573   0.590   0.841   0.844   0.825   0.568   0.582   0.609
78    P         0.564   0.573   0.590   0.218   0.250   0.346   0.568   0.582   0.609
79    N         0.564   0.573   0.590   0.733   0.732   0.741   0.568   0.582   0.609
80    I        -0.623  -0.925  -1.159  -0.486  -0.844  -1.197  -0.552  -0.954  -1.342
81    N         0.564   0.573   0.590   0.733   0.732   0.741   0.568   0.582   0.609
82    A        -3.389  -3.290  -2.946  -3.334  -3.229  -2.725  -2.953  -2.810  -2.364
83    N         0.564   0.573   0.590   0.733   0.732   0.741   0.568   0.582   0.609
84    G         0.564   0.573   0.590   0.664   0.670   0.689   0.568   0.582   0.609
85    N        -1.519  -1.514  -1.181  -1.639  -1.759  -1.276  -1.832  -1.837  -1.376
86    I         0.564   0.573   0.590   0.441   0.474   0.517   0.568   0.582   0.609
87    C         0.564   0.573   0.590   0.888   0.887   0.861   0.568   0.582   0.609
88    L         0.564   0.573   0.590   0.348   0.372   0.446   0.568   0.582   0.609
89    D         0.564   0.573   0.590   0.398   0.423   0.484   0.568   0.582   0.609
90    I         0.564   0.573   0.590   0.441   0.474   0.517   0.568   0.582   0.609
91    L         0.564   0.573   0.590   0.348   0.372   0.446   0.568   0.582   0.609
92    K        -1.207  -1.287  -1.172  -1.165  -1.294  -1.168  -1.352  -1.481  -1.362
93    D        -0.623  -0.925  -1.159  -0.518  -0.874  -1.190  -0.552  -0.954  -1.342
94    Q        -0.623  -0.925  -1.159  -0.019  -0.421  -0.918  -0.552  -0.954  -1.342
95    W         0.564   0.573   0.590   0.888   0.887   0.861   0.568   0.582   0.609
96    S         0.564   0.573   0.590   0.362   0.389   0.457   0.568   0.582   0.609
97    P         0.564   0.573   0.590   0.218   0.250   0.346   0.568   0.582   0.609
98    A         0.564   0.573   0.590   0.469   0.503   0.539   0.568   0.582   0.609
99    L         0.564   0.573   0.590   0.348   0.372   0.446   0.568   0.582   0.609
100   T         0.564   0.573   0.590   0.567   0.574   0.614   0.568   0.582   0.609
101   L        -1.207  -0.903  -1.155  -1.356  -0.908  -1.391  -1.352  -0.924  -1.336
102   S         0.564   0.573   0.590   0.362   0.389   0.457   0.568   0.582   0.609
103   K         0.564   0.573   0.590   0.490   0.530   0.555   0.568   0.582   0.609
104   V         0.564   0.573   0.590   0.760   0.756   0.762   0.568   0.582   0.609
105   L         0.564   0.573   0.590   0.348   0.372   0.446   0.568   0.582   0.609
106   L         0.564   0.573   0.590   0.348   0.372   0.446   0.568   0.582   0.609
107   S         0.564   0.573   0.590   0.362   0.389   0.457   0.568   0.582   0.609
108   I         0.564   0.573   0.590   0.441   0.474   0.517   0.568   0.582   0.609
109   C         0.564   0.573   0.590   0.888   0.887   0.861   0.568   0.582   0.609
110   S         0.564   0.573   0.590   0.362   0.389   0.457   0.568   0.582   0.609
111   L        -1.207  -1.382  -1.179  -1.253  -1.504  -1.178  -1.352  -1.627  -1.373
112   L         0.564   0.573   0.590   0.348   0.372   0.446   0.568   0.582   0.609
113   T         0.564   0.573   0.590   0.567   0.574   0.614   0.568   0.582   0.609
114   D         0.564   0.573   0.590   0.398   0.423   0.484   0.568   0.582   0.609
115   A        -1.519  -1.514  -1.181  -1.953  -2.033  -1.509  -1.832  -1.837  -1.376
116   N         0.564   0.573   0.590   0.733   0.732   0.741   0.568   0.582   0.609
117   P         0.564   0.573   0.590   0.218   0.250   0.346   0.568   0.582   0.609
118   D         0.564   0.573   0.590   0.398   0.423   0.484   0.568   0.582   0.609
119   D         0.564   0.573   0.590   0.398   0.423   0.484   0.568   0.582   0.609
120   P         0.564   0.573   0.590   0.218   0.250   0.346   0.568   0.582   0.609
121   L         0.564   0.573   0.590   0.348   0.372   0.446   0.568   0.582   0.609
122   V         0.564   0.573   0.590   0.760   0.756   0.762   0.568   0.582   0.609
123   P         0.564   0.573   0.590   0.218   0.250   0.346   0.568   0.582   0.609
124   E        -0.623  -0.925  -1.159  -0.151  -0.571  -1.126  -0.552  -0.954  -1.342
125   I         0.564   0.573   0.590   0.441   0.474   0.517   0.568   0.582   0.609
126   A        -0.623  -0.925  -1.159  -0.472  -0.836  -1.226  -0.552  -0.954  -1.342
127   H         0.564   0.573   0.590   0.841   0.844   0.825   0.568   0.582   0.609
128   I        -2.710  -2.718  -2.217  -2.790  -2.851  -2.183  -2.632  -2.624  -2.037
129   Y         0.564   0.573   0.590   0.692   0.707   0.710   0.568   0.582   0.609
130   K         0.564   0.573   0.590   0.490   0.530   0.555   0.568   0.582   0.609
131   T        -2.271  -2.258  -2.205  -1.890  -1.897  -1.865  -2.152  -2.091  -2.025
132   D         0.564   0.573   0.590   0.398   0.423   0.484   0.568   0.582   0.609
133   R         0.564   0.573   0.590   0.787   0.772   0.783   0.568   0.582   0.609
134   P        -2.816  -2.496  -2.933  -2.474  -2.098  -2.913  -2.312  -1.993  -2.353
135   K        -1.519  -1.514  -1.181  -1.629  -1.624  -1.165  -1.832  -1.837  -1.376
136   Y         0.564   0.573   0.590   0.692   0.707   0.710   0.568   0.582   0.609
137   E        -0.623  -0.925  -1.159  -0.151  -0.571  -1.126  -0.552  -0.954  -1.342
138   A        -1.752  -1.660  -2.194  -1.498  -1.402  -2.309  -1.512  -1.414  -2.013
139   T        -0.623  -0.717  -1.154  -0.417  -0.552  -1.298  -0.552  -0.674  -1.333
140   A         0.564   0.573   0.590   0.469   0.503   0.539   0.568   0.582   0.609
141   R        -1.519  -1.442  -1.181  -1.526  -1.458  -1.165  -1.832  -1.722  -1.376
142   E         0.564   0.573   0.590   0.827   0.833   0.814   0.568   0.582   0.609
143   W         0.564   0.573   0.590   0.888   0.887   0.861   0.568   0.582   0.609
144   T         0.564   0.573   0.590   0.567   0.574   0.614   0.568   0.582   0.609
145   K        -1.207  -1.287  -1.172  -1.165  -1.294  -1.168  -1.352  -1.481  -1.362
146   K         0.564   0.573   0.590   0.490   0.530   0.555   0.568   0.582   0.609
147   Y         0.564   0.573   0.590   0.692   0.707   0.710   0.568   0.582   0.609
148   A         0.564   0.573   0.590   0.469   0.503   0.539   0.568   0.582   0.609
149   V        -1.519  -1.473  -1.182  -1.575  -1.567  -1.208  -1.832  -1.770  -1.376
* 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/P15731
Output conservation file - output/P15731
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
