1     M         2.136   2.154   2.218   2.303   2.329   2.426   2.412   2.433   2.548
2     E        -0.547  -0.587  -0.597  -0.398  -0.475  -0.515  -0.491  -0.540  -0.544
3     Q        -0.741  -0.779  -0.716  -0.808  -0.846  -0.747  -0.723  -0.764  -0.682
4     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
5     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
6     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
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    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
11    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
12    N        -0.109  -0.080  -0.048  -0.112  -0.051  -0.033  -0.309  -0.270  -0.232
13    K        -0.109  -0.080  -0.048  -0.413  -0.354  -0.308  -0.309  -0.270  -0.232
14    D        -0.109  -0.076  -0.042  -0.203  -0.126  -0.121  -0.309  -0.264  -0.224
15    P         0.639   0.674   0.747   0.192   0.314   0.403   0.235   0.295   0.397
16    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
17    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
18    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
19    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
20    Q         0.682   0.721   0.778   0.555   0.624   0.697   0.322   0.388   0.459
21    M        -0.547  -0.380  -0.604  -0.198   0.035  -0.283  -0.491  -0.279  -0.552
22    I        -1.234  -1.182  -1.203  -1.144  -1.070  -1.053  -0.975  -0.919  -0.915
23    S        -0.736  -0.744  -0.716  -0.602  -0.615  -0.533  -0.733  -0.733  -0.684
24    K        -0.736  -0.737  -0.709  -0.952  -0.913  -0.933  -0.733  -0.726  -0.677
25    H        -0.736  -0.780  -0.679  -0.507  -0.616  -0.454  -0.733  -0.766  -0.646
26    S        -0.048   0.000  -0.041   0.060   0.111   0.083  -0.249  -0.197  -0.237
27    S        -1.234  -1.182  -1.203  -0.844  -0.750  -0.807  -0.975  -0.919  -0.915
28    R        -0.048  -0.132  -0.070  -0.095  -0.230  -0.136  -0.249  -0.351  -0.270
29    L         0.761   0.742   0.771   0.586   0.553   0.588   0.477   0.430   0.445
30    P         2.136   2.154   2.218   2.269   2.292   2.392   2.412   2.433   2.548
31    I        -0.736  -0.725  -0.683  -0.625  -0.618  -0.547  -0.733  -0.709  -0.650
32    W         2.136   2.154   2.218   2.430   2.458   2.551   2.412   2.433   2.548
33    V        -0.547  -0.644  -0.661  -0.152  -0.289  -0.305  -0.491  -0.605  -0.619
34    L         1.163   1.161   1.032   1.183   1.190   1.013   1.203   1.192   0.948
35    S        -0.237  -0.212  -0.123  -0.206  -0.165  -0.045  -0.491  -0.454  -0.341
36    P         1.163   1.258   1.040   1.369   1.494   1.183   1.203   1.353   0.963
37    R        -0.048   0.058  -0.030  -0.358  -0.215  -0.296  -0.249  -0.093  -0.213
38    E         2.136   2.154   2.218   1.886   1.908   2.012   2.412   2.433   2.548
39    E         2.136   2.154   2.218   1.886   1.908   2.012   2.412   2.433   2.548
40    Q         0.262   0.212   0.097   0.081   0.016  -0.143   0.235   0.151  -0.019
41    Q        -0.547  -0.501  -0.599  -0.619  -0.562  -0.689  -0.491  -0.431  -0.546
42    A        -0.048  -0.069  -0.061  -0.070  -0.100  -0.062  -0.249  -0.283  -0.264
43    R         0.761   0.766   0.819   0.730   0.729   0.813   0.477   0.476   0.541
44    K        -0.547  -0.380  -0.604  -0.685  -0.440  -0.778  -0.491  -0.279  -0.552
45    N        -0.048  -0.132  -0.070  -0.127  -0.289  -0.201  -0.249  -0.351  -0.270
46    L        -0.048  -0.132  -0.070   0.019  -0.069   0.023  -0.249  -0.351  -0.270
47    K         0.639   0.671   0.741   0.141   0.224   0.321   0.235   0.289   0.384
48    T        -0.547  -0.528  -0.615  -0.649  -0.639  -0.715  -0.491  -0.472  -0.565
49    E        -1.733  -1.695  -1.618  -1.679  -1.658  -1.515  -1.217  -1.173  -1.081
50    T         0.761   0.805   0.792   0.655   0.721   0.696   0.477   0.552   0.488
51    Y        -0.048  -0.132  -0.070   0.157   0.030   0.114  -0.249  -0.351  -0.270
52    K        -0.736  -0.775  -0.687  -0.952  -0.958  -0.829  -0.733  -0.762  -0.653
53    K        -1.234  -1.182  -1.203  -1.214  -1.139  -1.203  -0.975  -0.919  -0.915
54    C         2.136   2.154   2.218   2.286   2.319   2.409   2.412   2.433   2.548
55    A        -0.048  -0.012  -0.035  -0.063  -0.034  -0.051  -0.249  -0.211  -0.229
56    N         0.262   0.212   0.097   0.183   0.099  -0.044   0.235   0.151  -0.019
57    F        -0.736  -0.740  -0.713  -0.555  -0.574  -0.494  -0.733  -0.729  -0.681
58    V        -0.048  -0.132  -0.070   0.022  -0.113  -0.030  -0.249  -0.351  -0.270
59    Q        -0.547  -0.452  -0.554  -0.787  -0.634  -0.801  -0.491  -0.370  -0.493
60    A        -0.048  -0.132  -0.070  -0.336  -0.461  -0.362  -0.249  -0.351  -0.270
61    M        -0.048  -0.132  -0.070   0.180   0.072   0.165  -0.249  -0.351  -0.270
62    A        -0.736  -0.744  -0.716  -0.611  -0.610  -0.568  -0.733  -0.733  -0.684
63    D         0.639   0.657   0.734   0.264   0.288   0.409   0.235   0.261   0.371
64    C         2.136   2.154   2.218   2.286   2.319   2.409   2.412   2.433   2.548
65    A        -0.237  -0.205  -0.124  -0.283  -0.215  -0.103  -0.491  -0.445  -0.343
66    K         0.761   0.766   0.819   0.341   0.353   0.428   0.477   0.476   0.541
67    A        -1.234  -1.182  -1.203  -0.883  -0.778  -0.839  -0.975  -0.919  -0.915
68    N        -0.736  -0.744  -0.716  -0.451  -0.474  -0.406  -0.733  -0.733  -0.684
69    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
70    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
71    G        -0.547  -0.644  -0.661  -0.090  -0.235  -0.295  -0.491  -0.605  -0.619
72    M        -0.048  -0.018  -0.032  -0.093  -0.061  -0.050  -0.249  -0.225  -0.226
73    K        -0.547  -0.644  -0.661  -0.771  -0.902  -0.934  -0.491  -0.605  -0.619
74    V        -1.733  -1.695  -1.618  -1.279  -1.215  -1.120  -1.217  -1.173  -1.081
75    F        -0.547  -0.644  -0.661  -0.150  -0.328  -0.358  -0.491  -0.605  -0.619
76    P        -0.547  -0.644  -0.661  -0.273  -0.418  -0.483  -0.491  -0.605  -0.619
77    T        -0.048   0.011  -0.025  -0.312  -0.242  -0.242  -0.249  -0.176  -0.206
78    C         2.136   2.154   2.218   2.286   2.319   2.409   2.412   2.433   2.548
79    D        -0.736  -0.744  -0.716  -0.631  -0.645  -0.600  -0.733  -0.733  -0.684
80    K        -1.234  -1.218  -1.158  -1.331  -1.269  -1.207  -0.975  -0.953  -0.873
81    Q        -1.234  -1.257  -1.201  -1.079  -1.156  -1.052  -0.975  -0.987  -0.913
82    R        -0.048  -0.132  -0.070  -0.173  -0.333  -0.252  -0.249  -0.351  -0.270
83    D        -0.736  -0.725  -0.683  -0.783  -0.781  -0.721  -0.733  -0.709  -0.650
84    E        -0.547  -0.536  -0.604  -0.619  -0.615  -0.696  -0.491  -0.481  -0.552
85    M         0.262   0.254   0.094   0.559   0.544   0.285   0.235   0.222  -0.023
86    K        -1.234  -1.252  -1.198  -1.188  -1.191  -1.162  -0.975  -0.983  -0.910
87    S        -1.733  -1.695  -1.618  -1.665  -1.625  -1.501  -1.217  -1.173  -1.081
88    C         2.136   2.154   2.218   2.286   2.319   2.409   2.412   2.433   2.548
89    L        -0.736  -0.744  -0.716  -0.616  -0.610  -0.559  -0.733  -0.733  -0.684
90    L         0.639   0.671   0.741   0.277   0.337   0.437   0.235   0.289   0.384
91    F        -0.736  -0.722  -0.683  -0.619  -0.605  -0.578  -0.733  -0.706  -0.649
92    Y         1.163   1.030   0.993   1.494   1.333   1.277   1.203   0.966   0.875
93    Q         1.163   1.030   0.993   1.302   1.137   1.060   1.203   0.966   0.875
94    T         0.761   0.800   0.792   0.643   0.718   0.630   0.477   0.542   0.488
95    D        -0.547  -0.644  -0.661  -0.350  -0.500  -0.560  -0.491  -0.605  -0.619
96    E         0.262   0.399   0.150   0.250   0.418   0.122   0.235   0.433   0.059
97    K        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
98    Y         0.262   0.202   0.090   0.604   0.514   0.336   0.235   0.137  -0.029
99    L         1.163   1.030   0.993   1.201   1.035   0.985   1.203   0.966   0.875
100   D         2.136   2.154   2.218   2.208   2.238   2.332   2.412   2.433   2.548
101   G        -0.736  -0.648  -0.683  -0.507  -0.409  -0.421  -0.733  -0.638  -0.649
102   E         0.262   0.202   0.090   0.139   0.034  -0.119   0.235   0.137  -0.029
103   R         1.163   1.161   1.032   1.185   1.177   0.959   1.203   1.192   0.948
104   D         2.136   2.154   2.218   2.208   2.238   2.332   2.412   2.433   2.548
105   K        -0.736  -0.775  -0.687  -1.090  -1.149  -0.986  -0.733  -0.762  -0.653
106   I        -0.048  -0.069  -0.061   0.097   0.064   0.068  -0.249  -0.283  -0.264
107   V         0.761   0.766   0.819   0.785   0.789   0.861   0.477   0.476   0.541
108   L        -0.736  -0.657  -0.687  -1.079  -0.938  -0.987  -0.733  -0.647  -0.653
109   E        -0.048  -0.011  -0.036  -0.544  -0.520  -0.534  -0.249  -0.209  -0.230
110   K         1.163   1.258   1.040   0.906   1.039   0.741   1.203   1.353   0.963
111   I        -0.048  -0.074  -0.062  -0.061  -0.128  -0.126  -0.249  -0.288  -0.265
112   N        -0.547  -0.528  -0.615  -0.619  -0.603  -0.711  -0.491  -0.472  -0.565
113   K        -0.048  -0.094  -0.031  -0.434  -0.497  -0.400  -0.249  -0.291  -0.216
114   L        -0.547  -0.644  -0.661  -0.552  -0.697  -0.758  -0.491  -0.605  -0.619
115   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
116   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
117   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
118   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
119   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
120   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
121   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
122   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
123   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
124   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
125   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
126   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
127   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
128   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
129   E         1.163   1.161   1.032   1.007   1.004   0.831   1.203   1.192   0.948
130   K        -1.733  -1.695  -1.618  -1.743  -1.646  -1.578  -1.217  -1.173  -1.081
131   L         0.262   0.330   0.158   0.350   0.445   0.209   0.235   0.330   0.072
132   C        -1.234  -1.124  -1.157  -1.065  -0.909  -0.954  -0.975  -0.856  -0.872
133   Q        -1.234  -1.218  -1.158  -1.199  -1.169  -1.107  -0.975  -0.953  -0.873
134   K        -0.547  -0.644  -0.661  -0.834  -1.003  -1.023  -0.491  -0.605  -0.619
135   Q        -0.048  -0.132  -0.070  -0.229  -0.363  -0.274  -0.249  -0.351  -0.270
136   S        -0.547  -0.587  -0.597  -0.622  -0.659  -0.661  -0.491  -0.540  -0.544
137   S        -0.736  -0.687  -0.683  -0.993  -0.941  -0.948  -0.733  -0.670  -0.649
138   T        -0.858  -0.823  -0.750  -0.675  -0.647  -0.522  -0.854  -0.809  -0.718
139   K        -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/P36064
Output conservation file - output/P36064
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
