1     M         0.719   0.737   0.772   0.995   1.010   1.041   0.755   0.783   0.830
2     A        -0.200  -0.352  -0.468  -0.250  -0.462  -0.638  -0.288  -0.533  -0.750
3     S        -0.428  -0.271  -0.446  -0.566  -0.331  -0.590  -0.653  -0.401  -0.711
4     L         0.719   0.737   0.772   0.470   0.498   0.592   0.755   0.783   0.830
5     P         0.719   0.737   0.772   0.520   0.549   0.635   0.755   0.783   0.830
6     K         0.719   0.737   0.772   0.654   0.689   0.749   0.755   0.783   0.830
7     R         0.719   0.737   0.772   0.841   0.863   0.909   0.755   0.783   0.830
8     I         0.719   0.737   0.772   0.693   0.719   0.783   0.755   0.783   0.830
9     I        -0.782  -0.843  -1.182  -0.617  -0.707  -1.180  -0.770  -0.849  -1.271
10    K         0.719   0.737   0.772   0.654   0.689   0.749   0.755   0.783   0.830
11    E         0.719   0.737   0.772   0.698   0.737   0.787   0.755   0.783   0.830
12    T        -0.050  -0.287  -0.439   0.134  -0.210  -0.505  -0.066  -0.427  -0.698
13    E         0.719   0.737   0.772   0.698   0.737   0.787   0.755   0.783   0.830
14    K        -0.782  -0.916  -1.185  -0.505  -0.724  -1.174  -0.770  -0.967  -1.276
15    L         0.719   0.737   0.772   0.470   0.498   0.592   0.755   0.783   0.830
16    V        -0.782  -1.065  -1.196  -0.472  -0.879  -1.065  -0.770  -1.145  -1.290
17    S        -1.471  -1.710  -1.738  -1.156  -1.541  -1.680  -1.357  -1.631  -1.588
18    D        -0.428  -0.455  -0.473  -0.536  -0.589  -0.658  -0.653  -0.705  -0.759
19    P         0.719   0.737   0.772   0.520   0.549   0.635   0.755   0.783   0.830
20    V        -0.050  -0.287  -0.439   0.111  -0.252  -0.582  -0.066  -0.427  -0.698
21    P         0.719   0.737   0.772   0.520   0.549   0.635   0.755   0.783   0.830
22    G         0.719   0.737   0.772   0.907   0.925   0.966   0.755   0.783   0.830
23    I         0.719   0.737   0.772   0.693   0.719   0.783   0.755   0.783   0.830
24    T        -1.755  -1.844  -1.745  -1.586  -1.750  -1.604  -1.709  -1.803  -1.595
25    A         0.719   0.737   0.772   0.615   0.648   0.716   0.755   0.783   0.830
26    E        -1.975  -1.962  -1.752  -2.106  -2.113  -1.750  -1.944  -1.907  -1.601
27    P         0.719   0.737   0.772   0.520   0.549   0.635   0.755   0.783   0.830
28    H        -1.117  -1.215  -1.207  -0.795  -0.942  -1.009  -1.239  -1.339  -1.303
29    D        -0.428  -0.358  -0.472  -0.539  -0.425  -0.656  -0.653  -0.543  -0.757
30    D        -0.050   0.048  -0.419   0.020   0.148  -0.554  -0.066   0.070  -0.665
31    N         0.719   0.737   0.772   0.851   0.879   0.918   0.755   0.783   0.830
32    L         0.719   0.737   0.772   0.470   0.498   0.592   0.755   0.783   0.830
33    R         0.719   0.737   0.772   0.841   0.863   0.909   0.755   0.783   0.830
34    Y         0.719   0.737   0.772   0.893   0.920   0.954   0.755   0.783   0.830
35    F         0.719   0.737   0.772   0.968   0.988   1.017   0.755   0.783   0.830
36    Q        -1.975  -1.972  -1.747  -2.050  -2.059  -1.716  -1.944  -1.907  -1.596
37    V        -0.050  -0.287  -0.439   0.134  -0.210  -0.505  -0.066  -0.427  -0.698
38    T        -0.050  -0.118  -0.429   0.135   0.041  -0.484  -0.066  -0.167  -0.682
39    I        -0.050  -0.287  -0.439   0.054  -0.256  -0.460  -0.066  -0.427  -0.698
40    E        -1.471  -1.443  -1.719  -1.259  -1.220  -1.622  -1.357  -1.324  -1.569
41    G         0.719   0.737   0.772   0.907   0.925   0.966   0.755   0.783   0.830
42    P         0.719   0.737   0.772   0.520   0.549   0.635   0.755   0.783   0.830
43    E        -2.329  -2.214  -2.148  -2.029  -1.891  -1.810  -2.061  -1.954  -1.756
44    Q        -0.428  -0.362  -0.470  -0.277  -0.174  -0.414  -0.653  -0.550  -0.753
45    S         0.719   0.737   0.772   0.865   0.901   0.930   0.755   0.783   0.830
46    P        -0.050  -0.287  -0.439  -0.176  -0.521  -0.769  -0.066  -0.427  -0.698
47    Y         0.719   0.737   0.772   0.893   0.920   0.954   0.755   0.783   0.830
48    E        -0.428  -0.304  -0.453  -0.567  -0.361  -0.663  -0.653  -0.455  -0.724
49    D        -1.975  -1.748  -1.745  -1.938  -1.577  -1.629  -1.944  -1.684  -1.595
50    G         0.719   0.737   0.772   0.907   0.925   0.966   0.755   0.783   0.830
51    I        -2.462  -2.351  -2.157  -2.566  -2.419  -2.125  -2.178  -2.062  -1.763
52    F         0.719   0.737   0.772   0.968   0.988   1.017   0.755   0.783   0.830
53    E        -1.471  -1.485  -1.723  -1.259  -1.289  -1.567  -1.357  -1.396  -1.573
54    L         0.719   0.737   0.772   0.470   0.498   0.592   0.755   0.783   0.830
55    E         0.719   0.737   0.772   0.698   0.737   0.787   0.755   0.783   0.830
56    L         0.719   0.737   0.772   0.470   0.498   0.592   0.755   0.783   0.830
57    Y        -0.695  -0.626  -0.488  -0.710  -0.600  -0.400  -1.122  -1.007  -0.784
58    L         0.719   0.737   0.772   0.470   0.498   0.592   0.755   0.783   0.830
59    P         0.719   0.737   0.772   0.520   0.549   0.635   0.755   0.783   0.830
60    D        -0.428  -0.328  -0.466  -0.536  -0.376  -0.643  -0.653  -0.494  -0.745
61    D        -0.050  -0.287  -0.439   0.020  -0.310  -0.590  -0.066  -0.427  -0.698
62    Y         0.719   0.737   0.772   0.893   0.920   0.954   0.755   0.783   0.830
63    P         0.719   0.737   0.772   0.520   0.549   0.635   0.755   0.783   0.830
64    M         0.719   0.737   0.772   0.995   1.010   1.041   0.755   0.783   0.830
65    E        -2.329  -2.410  -2.163  -2.018  -2.114  -1.755  -2.061  -2.103  -1.767
66    A        -0.631  -0.655  -0.494  -1.083  -1.181  -0.870  -1.005  -1.060  -0.795
67    P         0.719   0.737   0.772   0.520   0.549   0.635   0.755   0.783   0.830
68    K        -0.050  -0.287  -0.439  -0.007  -0.320  -0.556  -0.066  -0.427  -0.698
69    V        -0.050  -0.118  -0.429   0.134   0.038  -0.486  -0.066  -0.167  -0.682
70    R         0.719   0.737   0.772   0.841   0.863   0.909   0.755   0.783   0.830
71    F         0.719   0.737   0.772   0.968   0.988   1.017   0.755   0.783   0.830
72    L         0.719   0.737   0.772   0.470   0.498   0.592   0.755   0.783   0.830
73    T         0.719   0.737   0.772   0.818   0.843   0.889   0.755   0.783   0.830
74    K         0.719   0.737   0.772   0.654   0.689   0.749   0.755   0.783   0.830
75    I         0.719   0.737   0.772   0.693   0.719   0.783   0.755   0.783   0.830
76    Y         0.719   0.737   0.772   0.893   0.920   0.954   0.755   0.783   0.830
77    H         0.719   0.737   0.772   1.023   1.045   1.064   0.755   0.783   0.830
78    P         0.719   0.737   0.772   0.520   0.549   0.635   0.755   0.783   0.830
79    N         0.719   0.737   0.772   0.851   0.879   0.918   0.755   0.783   0.830
80    I        -0.428  -0.574  -0.487  -0.506  -0.774  -0.623  -0.653  -0.914  -0.783
81    D         0.719   0.737   0.772   0.703   0.737   0.791   0.755   0.783   0.830
82    R        -0.695  -0.635  -0.491  -0.971  -0.895  -0.639  -1.122  -1.023  -0.789
83    L         0.719   0.737   0.772   0.470   0.498   0.592   0.755   0.783   0.830
84    G         0.719   0.737   0.772   0.907   0.925   0.966   0.755   0.783   0.830
85    R         0.719   0.737   0.772   0.841   0.863   0.909   0.755   0.783   0.830
86    I         0.719   0.737   0.772   0.693   0.719   0.783   0.755   0.783   0.830
87    C         0.719   0.737   0.772   1.050   1.075   1.088   0.755   0.783   0.830
88    L         0.719   0.737   0.772   0.470   0.498   0.592   0.755   0.783   0.830
89    D        -0.050  -0.287  -0.439   0.044  -0.268  -0.513  -0.066  -0.427  -0.698
90    V        -0.050  -0.287  -0.439   0.152  -0.179  -0.449  -0.066  -0.427  -0.698
91    L         0.719   0.737   0.772   0.470   0.498   0.592   0.755   0.783   0.830
92    K         0.719   0.737   0.772   0.654   0.689   0.749   0.755   0.783   0.830
93    T        -2.462  -2.454  -2.161  -2.372  -2.389  -1.941  -2.178  -2.139  -1.766
94    N        -0.050  -0.287  -0.439   0.169  -0.171  -0.476  -0.066  -0.427  -0.698
95    W         0.719   0.737   0.772   0.986   1.010   1.033   0.755   0.783   0.830
96    S         0.719   0.737   0.772   0.865   0.901   0.930   0.755   0.783   0.830
97    P         0.719   0.737   0.772   0.520   0.549   0.635   0.755   0.783   0.830
98    A         0.719   0.737   0.772   0.615   0.648   0.716   0.755   0.783   0.830
99    L         0.719   0.737   0.772   0.470   0.498   0.592   0.755   0.783   0.830
100   Q         0.719   0.737   0.772   0.917   0.953   0.974   0.755   0.783   0.830
101   I         0.719   0.737   0.772   0.693   0.719   0.783   0.755   0.783   0.830
102   R         0.719   0.737   0.772   0.841   0.863   0.909   0.755   0.783   0.830
103   T         0.719   0.737   0.772   0.818   0.843   0.889   0.755   0.783   0.830
104   V        -0.695  -0.655  -0.494  -0.960  -0.911  -0.630  -1.122  -1.061  -0.796
105   L         0.719   0.737   0.772   0.470   0.498   0.592   0.755   0.783   0.830
106   L         0.719   0.737   0.772   0.470   0.498   0.592   0.755   0.783   0.830
107   S         0.719   0.737   0.772   0.865   0.901   0.930   0.755   0.783   0.830
108   I        -0.428  -0.288  -0.462  -0.506  -0.302  -0.582  -0.653  -0.429  -0.739
109   Q         0.719   0.737   0.772   0.917   0.953   0.974   0.755   0.783   0.830
110   A         0.719   0.737   0.772   0.615   0.648   0.716   0.755   0.783   0.830
111   L         0.719   0.737   0.772   0.470   0.498   0.592   0.755   0.783   0.830
112   L        -0.050  -0.287  -0.439  -0.168  -0.472  -0.623  -0.066  -0.427  -0.698
113   A        -0.631  -0.490  -0.469  -0.770  -0.511  -0.544  -1.005  -0.766  -0.752
114   S        -0.631  -0.490  -0.469  -0.896  -0.669  -0.625  -1.005  -0.766  -0.752
115   P         0.719   0.737   0.772   0.520   0.549   0.635   0.755   0.783   0.830
116   N         0.719   0.737   0.772   0.851   0.879   0.918   0.755   0.783   0.830
117   P         0.719   0.737   0.772   0.520   0.549   0.635   0.755   0.783   0.830
118   N        -0.631  -0.490  -0.469  -0.827  -0.595  -0.570  -1.005  -0.766  -0.752
119   D         0.719   0.737   0.772   0.703   0.737   0.791   0.755   0.783   0.830
120   P         0.719   0.737   0.772   0.520   0.549   0.635   0.755   0.783   0.830
121   L         0.719   0.737   0.772   0.470   0.498   0.592   0.755   0.783   0.830
122   A        -0.050  -0.287  -0.439  -0.068  -0.398  -0.655  -0.066  -0.427  -0.698
123   N        -0.050  -0.118  -0.429   0.144   0.044  -0.535  -0.066  -0.167  -0.682
124   D         0.719   0.737   0.772   0.703   0.737   0.791   0.755   0.783   0.830
125   V         0.719   0.737   0.772   0.818   0.843   0.889   0.755   0.783   0.830
126   A         0.719   0.737   0.772   0.615   0.648   0.716   0.755   0.783   0.830
127   E        -1.402  -1.419  -1.233  -1.554  -1.622  -1.301  -1.591  -1.616  -1.336
128   D        -2.109  -2.216  -2.154  -1.949  -2.165  -2.081  -1.826  -1.933  -1.760
129   W         0.719   0.737   0.772   0.986   1.010   1.033   0.755   0.783   0.830
130   I        -0.631  -0.490  -0.469  -0.955  -0.705  -0.687  -1.005  -0.766  -0.752
131   K        -1.268  -1.177  -1.214  -1.476  -1.363  -1.312  -1.474  -1.376  -1.313
132   N        -1.268  -1.166  -1.209  -1.308  -1.195  -1.126  -1.474  -1.371  -1.308
133   E        -0.050  -0.118  -0.429  -0.010  -0.098  -0.655  -0.066  -0.167  -0.682
134   Q        -2.682  -2.617  -2.490  -2.577  -2.564  -2.330  -2.178  -2.122  -1.872
135   G        -2.815  -2.778  -2.493  -2.612  -2.542  -2.146  -2.296  -2.241  -1.874
136   A         0.719   0.737   0.772   0.615   0.648   0.716   0.755   0.783   0.830
137   K        -1.117  -1.051  -1.191  -1.181  -1.060  -1.289  -1.239  -1.126  -1.284
138   A        -1.402  -1.246  -1.216  -1.606  -1.367  -1.301  -1.591  -1.381  -1.314
139   K        -2.329  -2.269  -2.152  -2.124  -2.057  -1.842  -2.061  -1.991  -1.759
140   A         0.719   0.737   0.772   0.615   0.648   0.716   0.755   0.783   0.830
141   R        -0.695  -0.620  -0.486  -0.971  -0.824  -0.612  -1.122  -0.997  -0.781
142   E        -0.050  -0.033  -0.423   0.016   0.048  -0.563  -0.066  -0.043  -0.671
143   W         0.719   0.737   0.772   0.986   1.010   1.033   0.755   0.783   0.830
144   T         0.719   0.737   0.772   0.818   0.843   0.889   0.755   0.783   0.830
145   K        -1.755  -1.635  -1.729  -1.784  -1.581  -1.685  -1.709  -1.552  -1.580
146   L        -1.975  -1.871  -1.747  -2.193  -2.012  -1.818  -1.944  -1.815  -1.597
147   Y         0.719   0.737   0.772   0.893   0.920   0.954   0.755   0.783   0.830
148   A         0.719   0.737   0.772   0.615   0.648   0.716   0.755   0.783   0.830
149   K        -2.109  -2.181  -2.152  -1.965  -2.138  -2.053  -1.826  -1.903  -1.759
150   K        -1.998  -1.870  -1.750  -2.232  -2.071  -1.822  -1.948  -1.798  -1.599
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   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
163   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
164   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
165   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
166   -        -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   P        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
169   E        -1.993  -1.913  -1.752  -1.994  -1.893  -1.657  -1.957  -1.862  -1.601
* 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/P52490
Output conservation file - output/P52490
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
