1     M         1.335   1.340   1.380   1.540   1.554   1.599   1.405   1.412   1.463
2     S        -1.173  -1.166  -1.073  -0.883  -0.871  -0.738  -1.147  -1.134  -0.997
3     G        -1.173  -1.166  -1.073  -0.867  -0.855  -0.723  -1.147  -1.134  -0.997
4     T        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
5     G        -0.118  -0.098  -0.109   0.159   0.192   0.157  -0.296  -0.263  -0.285
6     L        -1.173  -1.166  -1.073  -1.393  -1.385  -1.230  -1.147  -1.134  -0.997
7     S        -1.173  -1.166  -1.073  -1.012  -1.007  -0.863  -1.147  -1.134  -0.997
8     L        -1.173  -1.166  -1.073  -1.383  -1.381  -1.221  -1.147  -1.134  -0.997
9     F        -0.118  -0.123  -0.116  -0.181  -0.186  -0.171  -0.296  -0.304  -0.298
10    V        -0.118  -0.115  -0.114  -0.187  -0.182  -0.176  -0.296  -0.290  -0.294
11    T        -1.173  -1.166  -1.073  -1.113  -1.101  -0.961  -1.147  -1.134  -0.997
12    G        -1.173  -1.166  -1.073  -0.851  -0.838  -0.708  -1.147  -1.134  -0.997
13    L        -0.118  -0.098  -0.109  -0.792  -0.764  -0.744  -0.296  -0.263  -0.285
14    I        -0.118  -0.115  -0.114  -0.792  -0.790  -0.751  -0.296  -0.290  -0.294
15    L        -0.118  -0.098  -0.109  -0.792  -0.764  -0.744  -0.296  -0.263  -0.285
16    N        -0.118  -0.098  -0.109   0.027   0.058   0.039  -0.296  -0.263  -0.285
17    C        -1.173  -1.166  -1.073  -1.218  -1.199  -1.062  -1.147  -1.134  -0.997
18    L        -1.173  -1.166  -1.073  -1.470  -1.466  -1.305  -1.147  -1.134  -0.997
19    N         1.335   1.340   1.380   1.406   1.421   1.469   1.405   1.412   1.463
20    S        -1.173  -1.166  -1.073  -1.254  -1.236  -1.097  -1.147  -1.134  -0.997
21    I        -1.173  -1.166  -1.073  -1.696  -1.700  -1.523  -1.147  -1.134  -0.997
22    C        -0.118  -0.115  -0.114  -0.612  -0.608  -0.542  -0.296  -0.290  -0.294
23    Q         1.335   1.340   1.380   1.619   1.635   1.675   1.405   1.412   1.463
24    I        -0.118  -0.098  -0.109  -0.187  -0.156  -0.168  -0.296  -0.263  -0.285
25    Y        -0.118  -0.115  -0.114  -0.181  -0.174  -0.168  -0.296  -0.290  -0.294
26    F        -0.118  -0.123  -0.116  -0.123  -0.128  -0.104  -0.296  -0.304  -0.298
27    T        -0.118  -0.123  -0.116   0.027   0.020   0.015  -0.296  -0.304  -0.298
28    I         1.335   1.340   1.380   1.225   1.240   1.295   1.405   1.412   1.463
29    L         0.051   0.040  -0.074   0.142   0.139  -0.176  -0.030  -0.046  -0.229
30    Y         0.051  -0.012  -0.085   0.205   0.100  -0.052  -0.030  -0.127  -0.248
31    G         0.051   0.040  -0.074   0.384   0.439   0.201  -0.030  -0.046  -0.229
32    D         1.335   1.340   1.380   1.497   1.478   1.557   1.405   1.412   1.463
33    L         1.335   1.340   1.380   0.687   0.679   0.776   1.405   1.412   1.463
34    E         1.335   1.340   1.380   1.518   1.492   1.577   1.405   1.412   1.463
35    A        -1.038  -1.083  -1.042  -0.618  -0.657  -0.643  -0.987  -1.037  -0.962
36    D         1.335   1.340   1.380   1.497   1.478   1.557   1.405   1.412   1.463
37    Y         1.335   1.340   1.380   1.454   1.455   1.516   1.405   1.412   1.463
38    I         1.335   1.340   1.380   1.248   1.309   1.317   1.405   1.412   1.463
39    N         1.335   1.340   1.380   1.379   1.395   1.444   1.405   1.412   1.463
40    S         0.051   0.040  -0.074   0.450   0.436   0.251  -0.030  -0.046  -0.229
41    I         1.335   1.340   1.380   1.248   1.309   1.317   1.405   1.412   1.463
42    E        -0.247  -0.238  -0.164  -0.101  -0.140   0.020  -0.509  -0.492  -0.376
43    L         1.335   1.340   1.380   0.687   0.679   0.776   1.405   1.412   1.463
44    C         1.335   1.340   1.380   1.570   1.605   1.628   1.405   1.412   1.463
45    K         0.051   0.040  -0.074   0.222   0.193   0.039  -0.030  -0.046  -0.229
46    R        -0.247  -0.241  -0.167  -0.072  -0.116   0.047  -0.509  -0.498  -0.381
47    V         0.051   0.040  -0.074  -0.456  -0.488  -0.568  -0.030  -0.046  -0.229
48    N         1.335   1.340   1.380   1.379   1.395   1.444   1.405   1.412   1.463
49    R        -1.829  -1.813  -1.715  -1.221  -1.252  -1.065  -1.465  -1.445  -1.304
50    L        -1.038  -0.966  -1.015  -1.257  -1.233  -1.135  -0.987  -0.896  -0.930
51    S        -1.038  -0.981  -1.020  -0.795  -0.658  -0.783  -0.987  -0.916  -0.936
52    V        -1.829  -1.813  -1.715  -1.823  -1.745  -1.646  -1.465  -1.445  -1.304
53    P         1.335   1.340   1.380   1.601   1.595   1.658   1.405   1.412   1.463
54    E         1.335   1.340   1.380   1.518   1.492   1.577   1.405   1.412   1.463
55    A        -1.038  -1.015  -1.023  -0.832  -0.780  -0.807  -0.987  -0.959  -0.939
56    I        -1.038  -0.966  -1.015  -0.878  -0.734  -0.826  -0.987  -0.896  -0.930
57    L        -1.038  -1.070  -1.044  -1.388  -1.385  -1.284  -0.987  -1.022  -0.964
58    Q         0.051   0.040  -0.074   0.459   0.426   0.283  -0.030  -0.046  -0.229
59    A         0.051  -0.012  -0.085   0.208   0.135   0.013  -0.030  -0.127  -0.248
60    F        -1.038  -1.070  -1.044  -1.327  -1.395  -1.379  -0.987  -1.022  -0.964
61    I        -1.038  -1.070  -1.044  -1.214  -1.225  -1.264  -0.987  -1.022  -0.964
62    S         0.051   0.040  -0.074   0.341   0.359   0.154  -0.030  -0.046  -0.229
63    A        -1.038  -1.070  -1.044  -1.209  -1.286  -1.297  -0.987  -1.022  -0.964
64    L         0.051   0.063  -0.077  -0.456  -0.459  -0.572  -0.030  -0.012  -0.235
65    F         0.051  -0.012  -0.085  -0.222  -0.321  -0.543  -0.030  -0.127  -0.248
66    L         1.335   1.340   1.380   0.687   0.679   0.776   1.405   1.412   1.463
67    F        -1.038  -0.981  -1.020  -1.514  -1.461  -1.421  -0.987  -0.916  -0.936
68    N        -1.038  -1.070  -1.044  -0.714  -0.733  -0.704  -0.987  -1.022  -0.964
69    G         0.051  -0.012  -0.085   0.394   0.317   0.173  -0.030  -0.127  -0.248
70    Y        -1.038  -1.070  -1.044  -0.657  -0.753  -0.658  -0.987  -1.022  -0.964
71    W         1.335   1.340   1.380   1.673   1.681   1.727   1.405   1.412   1.463
72    F        -1.038  -1.070  -1.044  -1.382  -1.433  -1.448  -0.987  -1.022  -0.964
73    V         0.051  -0.012  -0.085   0.057  -0.071  -0.285  -0.030  -0.127  -0.248
74    F         0.051   0.063  -0.077  -0.222  -0.175  -0.523  -0.030  -0.012  -0.235
75    L         1.335   1.340   1.380   0.687   0.679   0.776   1.405   1.412   1.463
76    L         0.051  -0.012  -0.085  -0.494  -0.595  -0.637  -0.030  -0.127  -0.248
77    N         1.335   1.340   1.380   1.379   1.395   1.444   1.405   1.412   1.463
78    V        -1.038  -1.039  -1.034  -1.421  -1.434  -1.323  -0.987  -0.984  -0.952
79    P         1.335   1.340   1.380   1.601   1.595   1.658   1.405   1.412   1.463
80    V        -1.038  -1.039  -1.034  -1.479  -1.472  -1.388  -0.987  -0.984  -0.952
81    L         0.051   0.063  -0.077  -0.561  -0.553  -0.729  -0.030  -0.012  -0.235
82    A         0.051  -0.012  -0.085   0.198   0.120  -0.003  -0.030  -0.127  -0.248
83    Y        -0.247  -0.241  -0.167  -0.372  -0.350  -0.240  -0.509  -0.498  -0.381
84    N         0.051  -0.012  -0.085   0.256   0.163   0.073  -0.030  -0.127  -0.248
85    A         0.051   0.151  -0.043   0.198   0.344   0.062  -0.030   0.119  -0.179
86    S        -1.038  -1.039  -1.034  -0.697  -0.685  -0.672  -0.987  -0.984  -0.952
87    K         0.051  -0.012  -0.085   0.361   0.240   0.180  -0.030  -0.127  -0.248
88    V        -1.038  -0.966  -1.015  -0.911  -0.753  -0.903  -0.987  -0.896  -0.930
89    Y        -1.038  -1.015  -1.023  -1.116  -1.050  -1.157  -0.987  -0.959  -0.939
90    K        -1.829  -1.813  -1.715  -1.306  -1.314  -1.147  -1.465  -1.445  -1.304
91    K         0.051   0.063  -0.077   0.277   0.248   0.066  -0.030  -0.012  -0.235
92    T         0.051   0.151  -0.043   0.297   0.452   0.142  -0.030   0.119  -0.179
93    H         1.335   1.340   1.380   1.570   1.555   1.628   1.405   1.412   1.463
94    L         0.051  -0.012  -0.085  -0.535  -0.627  -0.702  -0.030  -0.127  -0.248
95    L         1.335   1.340   1.380   0.687   0.679   0.776   1.405   1.412   1.463
96    D         1.335   1.340   1.380   1.497   1.478   1.557   1.405   1.412   1.463
97    A         1.335   1.340   1.380   1.358   1.381   1.423   1.405   1.412   1.463
98    T         1.335   1.340   1.380   1.486   1.513   1.547   1.405   1.412   1.463
99    D         0.051   0.040  -0.074   0.364   0.302   0.171  -0.030  -0.046  -0.229
100   I         1.335   1.340   1.380   1.248   1.309   1.317   1.405   1.412   1.463
101   F         1.335   1.340   1.380   1.181   1.228   1.253   1.405   1.412   1.463
102   R         1.335   1.340   1.380   1.591   1.578   1.648   1.405   1.412   1.463
103   K        -1.038  -1.083  -1.042  -0.601  -0.662  -0.598  -0.987  -1.037  -0.962
104   L         1.335   1.340   1.380   0.687   0.679   0.776   1.405   1.412   1.463
105   G        -1.038  -0.966  -1.015  -0.593  -0.461  -0.567  -0.987  -0.896  -0.930
106   R        -0.247  -0.235  -0.163  -0.072  -0.099   0.056  -0.509  -0.488  -0.375
107   C         0.051   0.040  -0.074   0.437   0.403   0.249  -0.030  -0.046  -0.229
108   K         1.335   1.340   1.380   1.465   1.430   1.526   1.405   1.412   1.463
109   I        -1.829  -1.813  -1.715  -1.279  -1.265  -1.121  -1.465  -1.445  -1.304
110   E         0.051  -0.012  -0.085   0.364   0.226   0.153  -0.030  -0.127  -0.248
111   C        -1.038  -1.083  -1.042  -0.640  -0.656  -0.653  -0.987  -1.037  -0.962
112   F         1.335   1.340   1.380   1.181   1.228   1.253   1.405   1.412   1.463
113   L         0.051   0.040  -0.074  -0.153  -0.135  -0.451  -0.030  -0.046  -0.229
114   K         1.335   1.340   1.380   1.465   1.430   1.526   1.405   1.412   1.463
115   L         0.051  -0.012  -0.085  -0.456  -0.554  -0.580  -0.030  -0.127  -0.248
116   G        -1.038  -1.070  -1.044  -0.649  -0.664  -0.679  -0.987  -1.022  -0.964
117   F         0.051   0.063  -0.077   0.067   0.123  -0.082  -0.030  -0.012  -0.235
118   Y         0.051   0.151  -0.043   0.327   0.438   0.198  -0.030   0.119  -0.179
119   L         1.335   1.340   1.380   0.687   0.679   0.776   1.405   1.412   1.463
120   L        -1.038  -1.070  -1.044  -1.479  -1.506  -1.391  -0.987  -1.022  -0.964
121   I        -1.038  -1.039  -1.034  -0.837  -0.788  -0.878  -0.987  -0.984  -0.952
122   F         1.335   1.340   1.380   1.181   1.228   1.253   1.405   1.412   1.463
123   F         1.335   1.340   1.380   1.181   1.228   1.253   1.405   1.412   1.463
124   F        -1.038  -1.070  -1.044  -1.262  -1.277  -1.299  -0.987  -1.022  -0.964
125   Y        -1.038  -1.015  -1.023  -1.147  -1.152  -1.193  -0.987  -0.959  -0.939
126   F         0.051   0.040  -0.074  -0.561  -0.586  -0.724  -0.030  -0.046  -0.229
127   Y         1.335   1.340   1.380   1.454   1.455   1.516   1.405   1.412   1.463
128   R        -0.247  -0.238  -0.164   0.002   0.012   0.120  -0.509  -0.492  -0.376
129   M         1.335   1.340   1.380   1.539   1.578   1.597   1.405   1.412   1.463
130   V        -0.247  -0.235  -0.163  -0.324  -0.259  -0.183  -0.509  -0.488  -0.375
131   T        -1.038  -1.039  -1.034  -0.666  -0.640  -0.677  -0.987  -0.984  -0.952
132   A         0.051  -0.012  -0.085   0.218   0.164   0.029  -0.030  -0.127  -0.248
133   L         1.335   1.340   1.380   0.687   0.679   0.776   1.405   1.412   1.463
134   L        -1.038  -1.039  -1.034  -1.214  -1.192  -1.243  -0.987  -0.984  -0.952
135   E        -1.829  -1.813  -1.715  -1.200  -1.187  -1.045  -1.465  -1.445  -1.304
136   N        -1.038  -0.981  -1.020  -0.670  -0.639  -0.655  -0.987  -0.916  -0.936
137   D         0.051  -0.012  -0.085   0.351   0.217   0.146  -0.030  -0.127  -0.248
138   A        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
139   N        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
140   L        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
141   I        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
142   S        -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/P38312
Output conservation file - output/P38312
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
