1     M         1.459   1.516   1.569   1.664   1.744   1.830   1.602   1.674   1.767
2     S        -0.570  -0.710  -0.717  -0.387  -0.629  -0.659  -0.577  -0.748  -0.736
3     A        -1.135  -1.165  -1.133  -0.928  -0.909  -0.949  -1.013  -1.026  -0.957
4     N        -1.615  -1.559  -1.469  -1.555  -1.531  -1.366  -1.303  -1.218  -1.098
5     S        -0.570  -0.448  -0.636  -0.353  -0.152  -0.470  -0.577  -0.414  -0.640
6     K        -1.286  -1.061  -1.130  -1.279  -0.867  -1.061  -1.166  -0.897  -0.955
7     D        -0.880  -0.734  -0.747  -0.907  -0.651  -0.669  -0.968  -0.774  -0.772
8     R        -0.726  -0.745  -0.743  -0.637  -0.731  -0.703  -0.771  -0.793  -0.765
9     N        -1.286  -1.061  -1.130  -1.374  -0.969  -1.155  -1.166  -0.897  -0.955
10    Q        -0.212  -0.272  -0.246  -0.196  -0.345  -0.273  -0.391  -0.489  -0.451
11    S        -0.212  -0.272  -0.246  -0.166  -0.283  -0.247  -0.391  -0.489  -0.451
12    N        -1.372  -1.259  -1.178  -1.292  -1.118  -1.007  -1.245  -1.098  -0.998
13    Q        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
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    -        -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    D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
21    A        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
22    K        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
23    R        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
24    Q        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
25    Q        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
26    Q        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
27    N        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
28    F        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
29    P        -0.212  -0.010  -0.190  -0.142   0.127  -0.139  -0.391  -0.085  -0.370
30    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
31    K        -1.286  -1.206  -1.168  -1.308  -1.174  -1.111  -1.166  -1.060  -0.989
32    K        -0.320  -0.407  -0.284  -0.458  -0.620  -0.388  -0.573  -0.661  -0.507
33    I        -0.473  -0.382  -0.293  -0.675  -0.465  -0.381  -0.771  -0.625  -0.519
34    S        -1.286  -1.219  -1.166  -1.139  -1.044  -0.966  -1.166  -1.071  -0.988
35    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
36    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
37    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
38    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
39    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
40    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
41    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
42    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
43    E        -0.570  -0.602  -0.715  -0.593  -0.674  -0.772  -0.577  -0.619  -0.733
44    G        -0.787  -0.899  -0.771  -0.696  -0.827  -0.640  -0.867  -0.947  -0.798
45    E        -0.787  -0.899  -0.771  -0.973  -1.098  -0.885  -0.867  -0.947  -0.798
46    A        -0.307  -0.388  -0.260  -0.582  -0.693  -0.478  -0.577  -0.637  -0.477
47    D         0.738   0.531   0.536   0.774   0.494   0.495   0.730   0.363   0.333
48    L         0.058  -0.207  -0.192  -0.023  -0.413  -0.387   0.004  -0.377  -0.373
49    Y         0.058  -0.207  -0.192   0.272  -0.137  -0.187   0.004  -0.377  -0.373
50    L         1.459   1.516   1.569   1.290   1.368   1.471   1.602   1.674   1.767
51    D        -0.864  -0.847  -0.770  -1.031  -0.946  -0.833  -0.956  -0.898  -0.799
52    Q        -0.749  -0.850  -0.742  -0.670  -0.786  -0.636  -0.845  -0.901  -0.768
53    Y        -0.124  -0.247  -0.234   0.013  -0.189  -0.180  -0.289  -0.469  -0.444
54    N        -0.749  -0.850  -0.742  -0.621  -0.736  -0.561  -0.845  -0.901  -0.768
55    F         1.459   1.516   1.569   1.570   1.684   1.740   1.602   1.674   1.767
56    T         1.459   1.516   1.569   1.599   1.673   1.768   1.602   1.674   1.767
57    T         1.459   1.516   1.569   1.599   1.673   1.768   1.602   1.674   1.767
58    T        -0.255  -0.186  -0.202  -0.286  -0.155  -0.168  -0.511  -0.368  -0.395
59    A         0.796   0.783   0.614   0.930   0.912   0.670   0.823   0.794   0.481
60    A         0.165  -0.066  -0.144   0.371   0.035  -0.075   0.156  -0.176  -0.302
61    I         0.295   0.288   0.386   0.037  -0.054   0.107  -0.066  -0.102   0.039
62    V         0.470   0.361   0.421   0.311   0.058   0.136   0.267   0.043   0.109
63    S        -0.864  -0.836  -0.761  -0.929  -0.860  -0.761  -0.956  -0.887  -0.790
64    S        -0.429  -0.674  -0.692  -0.191  -0.576  -0.660  -0.400  -0.688  -0.706
65    V         0.165  -0.067  -0.139   0.302  -0.018  -0.130   0.156  -0.176  -0.295
66    D         1.459   1.516   1.569   1.408   1.516   1.584   1.602   1.674   1.767
67    R         1.459   1.516   1.569   1.515   1.583   1.687   1.602   1.674   1.767
68    K         1.459   1.516   1.569   1.400   1.473   1.577   1.602   1.674   1.767
69    I         0.407   0.330   0.402   0.336   0.154   0.259   0.149  -0.018   0.072
70    F         0.058  -0.151  -0.192   0.225  -0.074  -0.197   0.004  -0.290  -0.373
71    V         1.459   1.516   1.569   1.448   1.513   1.623   1.602   1.674   1.767
72    L         0.058  -0.151  -0.192  -0.020  -0.322  -0.391   0.004  -0.290  -0.373
73    L         1.459   1.516   1.569   1.298   1.380   1.479   1.602   1.674   1.767
74    R         0.738   0.820   0.551   0.826   0.932   0.514   0.730   0.852   0.362
75    D         0.738   0.634   0.540   0.739   0.650   0.437   0.730   0.546   0.341
76    G         1.459   1.516   1.569   1.505   1.608   1.678   1.602   1.674   1.767
77    R         0.407   0.419   0.418   0.287   0.276   0.242   0.149   0.154   0.104
78    M        -0.919  -0.800  -0.775  -0.993  -0.838  -0.812  -1.013  -0.854  -0.803
79    L         0.258   0.306   0.392  -0.109  -0.016   0.115  -0.141  -0.066   0.051
80    F         0.738   0.646   0.536   0.892   0.794   0.579   0.730   0.566   0.333
81    G         1.459   1.516   1.569   1.505   1.608   1.678   1.602   1.674   1.767
82    V         0.258   0.372   0.415   0.030   0.244   0.288  -0.141   0.064   0.098
83    L         1.459   1.516   1.569   1.298   1.380   1.479   1.602   1.674   1.767
84    R         1.459   1.516   1.569   1.515   1.583   1.687   1.602   1.674   1.767
85    T         0.407   0.330   0.402   0.444   0.305   0.387   0.149  -0.018   0.072
86    F         1.459   1.516   1.569   1.557   1.662   1.728   1.602   1.674   1.767
87    D         1.459   1.516   1.569   1.410   1.540   1.586   1.602   1.674   1.767
88    Q         1.459   1.516   1.569   1.603   1.684   1.772   1.602   1.674   1.767
89    Y         0.258   0.372   0.415   0.129   0.359   0.379  -0.141   0.064   0.098
90    A         0.796   0.600   0.574   0.944   0.663   0.635   0.823   0.486   0.407
91    N         1.459   1.516   1.569   1.639   1.736   1.807   1.602   1.674   1.767
92    L         1.459   1.516   1.569   1.283   1.359   1.465   1.602   1.674   1.767
93    I        -0.255  -0.186  -0.202  -0.351  -0.206  -0.217  -0.511  -0.368  -0.395
94    L         1.459   1.516   1.569   1.283   1.359   1.465   1.602   1.674   1.767
95    Q         1.459   1.516   1.569   1.578   1.641   1.748   1.602   1.674   1.767
96    D        -0.429  -0.546  -0.662  -0.258  -0.407  -0.544  -0.400  -0.548  -0.671
97    C         0.470   0.647   0.531   0.611   0.865   0.701   0.267   0.568   0.324
98    V        -1.169  -1.234  -1.141  -1.198  -1.291  -1.169  -1.067  -1.089  -0.967
99    E         1.459   1.516   1.569   1.322   1.408   1.502   1.602   1.674   1.767
100   R         0.796   0.783   0.624   0.916   0.896   0.658   0.823   0.793   0.499
101   I         0.796   0.783   0.624   0.979   0.985   0.751   0.823   0.793   0.499
102   Y         0.470   0.361   0.421   0.555   0.384   0.422   0.267   0.043   0.109
103   F        -1.169  -0.995  -1.087  -1.255  -0.961  -1.088  -1.067  -0.853  -0.915
104   S        -1.894  -1.796  -1.728  -1.791  -1.605  -1.542  -1.401  -1.286  -1.180
105   E        -1.169  -1.082  -1.122  -1.200  -1.041  -1.088  -1.067  -0.960  -0.952
106   E        -0.570  -0.586  -0.690  -0.640  -0.660  -0.813  -0.577  -0.602  -0.704
107   N        -1.267  -1.286  -1.152  -1.222  -1.221  -1.072  -1.158  -1.130  -0.976
108   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
109   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
110   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
111   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
112   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
113   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
114   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
115   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
116   K        -1.474  -1.519  -1.447  -1.494  -1.621  -1.491  -1.178  -1.185  -1.081
117   Y         0.470   0.608   0.510   0.555   0.806   0.594   0.267   0.500   0.285
118   A        -0.255  -0.176  -0.218  -0.352  -0.229  -0.264  -0.511  -0.408  -0.428
119   E         0.470   0.361   0.417   0.217   0.019   0.083   0.267   0.043   0.102
120   E        -1.474  -1.447  -1.440  -1.352  -1.348  -1.252  -1.178  -1.127  -1.075
121   D         0.295   0.365   0.418   0.080   0.228   0.274  -0.066   0.050   0.104
122   R         1.459   1.516   1.569   1.525   1.597   1.697   1.602   1.674   1.767
123   G         1.459   1.516   1.569   1.500   1.612   1.673   1.602   1.674   1.767
124   I        -0.674  -0.762  -0.711  -0.700  -0.854  -0.766  -0.733  -0.792  -0.730
125   F         0.470   0.449   0.457   0.526   0.526   0.477   0.267   0.212   0.181
126   M        -0.124  -0.318  -0.234   0.033  -0.285  -0.188  -0.289  -0.539  -0.443
127   I         0.240   0.304   0.396  -0.004   0.097   0.242  -0.177  -0.071   0.059
128   R         1.459   1.516   1.569   1.525   1.597   1.697   1.602   1.674   1.767
129   G         1.459   1.516   1.569   1.500   1.612   1.673   1.602   1.674   1.767
130   E         1.459   1.516   1.569   1.322   1.408   1.502   1.602   1.674   1.767
131   N         1.459   1.516   1.569   1.639   1.736   1.807   1.602   1.674   1.767
132   V         1.459   1.516   1.569   1.458   1.537   1.633   1.602   1.674   1.767
133   V         0.165  -0.067  -0.139   0.210  -0.171  -0.331   0.156  -0.176  -0.295
134   M         0.295   0.288   0.386   0.133   0.021   0.185  -0.066  -0.102   0.039
135   L         0.295   0.294   0.387  -0.002   0.012   0.178  -0.066  -0.090   0.042
136   G         1.459   1.516   1.569   1.500   1.612   1.673   1.602   1.674   1.767
137   E         1.459   1.516   1.569   1.322   1.408   1.502   1.602   1.674   1.767
138   V        -0.674  -0.744  -0.728  -0.747  -0.856  -0.823  -0.733  -0.792  -0.754
139   D         0.796   0.783   0.624   0.833   0.860   0.619   0.823   0.793   0.499
140   I         0.295   0.288   0.386   0.037  -0.054   0.107  -0.066  -0.102   0.039
141   D         1.459   1.516   1.569   1.408   1.516   1.584   1.602   1.674   1.767
142   K        -0.674  -0.690  -0.718  -0.757  -0.812  -0.822  -0.733  -0.743  -0.746
143   E         0.470   0.361   0.421   0.217   0.019   0.089   0.267   0.043   0.109
144   D         0.165   0.093  -0.076   0.209   0.149  -0.157   0.156   0.062  -0.202
145   Q        -0.674  -0.461  -0.679  -0.758  -0.426  -0.767  -0.733  -0.467  -0.700
146   P        -0.370  -0.313  -0.258  -0.272  -0.241  -0.128  -0.622  -0.532  -0.470
147   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
148   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
149   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
150   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
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   L        -0.124  -0.318  -0.234  -0.327  -0.615  -0.460  -0.289  -0.539  -0.443
158   E        -0.674  -0.819  -0.730  -0.801  -0.977  -0.826  -0.733  -0.863  -0.756
159   A        -1.589  -1.430  -1.455  -1.524  -1.232  -1.348  -1.289  -1.108  -1.088
160   M        -0.370  -0.335  -0.275  -0.583  -0.509  -0.408  -0.622  -0.574  -0.494
161   E        -1.169  -1.223  -1.125  -1.347  -1.428  -1.252  -1.067  -1.080  -0.954
162   R        -0.674  -0.785  -0.724  -0.591  -0.761  -0.662  -0.733  -0.819  -0.746
163   I        -0.674  -0.762  -0.707  -0.631  -0.738  -0.649  -0.733  -0.792  -0.727
164   P        -0.429  -0.565  -0.660  -0.138  -0.422  -0.560  -0.400  -0.568  -0.668
165   F         0.165  -0.066  -0.144   0.356   0.014  -0.165   0.156  -0.176  -0.302
166   K         0.165   0.246  -0.061   0.126   0.246  -0.204   0.156   0.270  -0.180
167   E         0.165   0.046  -0.126   0.094  -0.113  -0.381   0.156  -0.031  -0.276
168   A         0.165  -0.066  -0.144   0.300  -0.072  -0.230   0.156  -0.176  -0.302
169   W        -1.284  -1.203  -1.134  -1.312  -1.162  -1.037  -1.178  -1.062  -0.963
170   L        -1.474  -1.437  -1.420  -1.365  -1.311  -1.281  -1.178  -1.119  -1.059
171   T        -0.674  -0.408  -0.662  -0.896  -0.496  -0.823  -0.733  -0.386  -0.674
172   K        -0.444  -0.312  -0.268  -0.812  -0.553  -0.514  -0.733  -0.530  -0.484
173   Q        -0.674  -0.511  -0.671  -0.806  -0.555  -0.836  -0.733  -0.499  -0.684
174   K        -1.169  -1.160  -1.121  -1.393  -1.371  -1.327  -1.067  -1.028  -0.950
175   N        -1.894  -1.755  -1.711  -1.552  -1.368  -1.279  -1.401  -1.247  -1.168
176   D        -1.589  -1.569  -1.461  -1.574  -1.540  -1.333  -1.289  -1.227  -1.093
177   E        -0.674  -0.681  -0.717  -0.847  -0.861  -0.900  -0.733  -0.736  -0.745
178   K        -0.674  -0.585  -0.708  -0.811  -0.761  -0.863  -0.733  -0.652  -0.733
179   R        -0.370  -0.335  -0.272  -0.673  -0.671  -0.553  -0.622  -0.573  -0.491
180   F        -1.894  -1.666  -1.720  -1.637  -1.338  -1.373  -1.401  -1.173  -1.175
181   K         0.165   0.046  -0.126   0.229   0.037  -0.195   0.156  -0.031  -0.276
182   E        -0.429  -0.565  -0.670  -0.409  -0.627  -0.748  -0.400  -0.567  -0.681
183   E        -0.674  -0.552  -0.673  -0.746  -0.588  -0.701  -0.733  -0.592  -0.693
184   T        -0.674  -0.511  -0.674  -0.683  -0.438  -0.658  -0.733  -0.499  -0.688
185   H        -1.474  -1.450  -1.436  -1.348  -1.354  -1.339  -1.178  -1.129  -1.072
186   K         0.796   0.958   0.635   0.823   1.021   0.620   0.823   1.060   0.518
187   G        -0.674  -0.785  -0.724  -0.573  -0.679  -0.620  -0.733  -0.819  -0.746
188   K         0.796   0.783   0.624   0.782   0.764   0.519   0.823   0.793   0.499
189   K        -1.474  -1.343  -1.389  -1.471  -1.268  -1.364  -1.178  -1.020  -1.033
190   M         0.796   0.951   0.629   0.712   0.904   0.518   0.823   1.050   0.507
191   A        -1.169  -1.274  -1.152  -1.094  -1.169  -1.001  -1.067  -1.117  -0.976
192   R        -1.284  -1.311  -1.151  -1.181  -1.172  -0.970  -1.178  -1.147  -0.976
193   H        -1.589  -1.409  -1.456  -1.516  -1.211  -1.295  -1.289  -1.095  -1.089
194   G         1.459   1.516   1.569   1.506   1.580   1.679   1.602   1.674   1.767
195   I        -0.222  -0.199  -0.247  -0.443  -0.405  -0.442  -0.432  -0.436  -0.462
196   V        -1.267  -1.206  -1.149  -1.238  -1.165  -1.077  -1.158  -1.069  -0.974
197   Y        -1.615  -1.547  -1.480  -1.292  -1.244  -1.108  -1.303  -1.209  -1.107
198   D         0.738   0.516   0.540   0.683   0.330   0.346   0.730   0.335   0.341
199   F         0.058  -0.215  -0.192   0.268  -0.115  -0.126   0.004  -0.390  -0.373
200   H        -0.787  -0.763  -0.738  -0.620  -0.637  -0.583  -0.867  -0.822  -0.766
201   K        -0.570  -0.734  -0.720  -0.474  -0.710  -0.671  -0.577  -0.772  -0.739
202   S        -1.615  -1.554  -1.467  -1.540  -1.511  -1.345  -1.303  -1.215  -1.097
203   D         0.738   0.516   0.540   0.720   0.395   0.429   0.730   0.335   0.341
204   M         0.738   0.889   0.603   0.643   0.825   0.483   0.730   0.958   0.459
205   Y         0.738   0.516   0.540   0.910   0.546   0.547   0.730   0.335   0.341
* 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/P47017
Output conservation file - output/P47017
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
