1     M         1.805   1.827   1.885   1.980   2.016   2.108   2.011   2.042   2.136
2     Q        -0.271  -0.235  -0.248  -0.341  -0.295  -0.294  -0.469  -0.417  -0.421
3     P        -1.362  -1.349  -1.314  -1.193  -1.161  -1.112  -1.088  -1.068  -1.009
4     I        -0.923  -0.913  -0.870  -1.095  -1.113  -1.012  -0.895  -0.876  -0.812
5     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
6     -         1.805   1.827   1.885   1.664   1.693   1.788   2.011   2.042   2.136
7     -        -0.241  -0.215  -0.218  -0.339  -0.287  -0.314  -0.410  -0.370  -0.372
8     -        -0.241  -0.282  -0.256  -0.019  -0.087  -0.055  -0.410  -0.464  -0.426
9     -        -0.357  -0.348  -0.299  -0.602  -0.588  -0.512  -0.572  -0.556  -0.484
10    -        -0.357  -0.348  -0.299  -0.451  -0.436  -0.359  -0.572  -0.556  -0.484
11    -         0.552   0.562   0.582   0.474   0.489   0.512   0.289   0.302   0.317
12    -         0.552   0.555   0.577   0.336   0.341   0.369   0.289   0.289   0.307
13    -        -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    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
21    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
22    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
23    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
24    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
25    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
26    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
27    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
28    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
29    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
30    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
31    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
32    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
33    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
34    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
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    -        -0.241  -0.282  -0.256  -0.318  -0.405  -0.364  -0.410  -0.464  -0.426
38    -        -0.241  -0.215  -0.218  -0.398  -0.359  -0.369  -0.410  -0.370  -0.372
39    I        -1.362  -1.349  -1.314  -1.172  -1.160  -1.090  -1.088  -1.068  -1.009
40    K        -0.817  -0.799  -0.809  -0.951  -0.917  -0.938  -0.778  -0.754  -0.746
41    G        -0.817  -0.807  -0.812  -0.815  -0.781  -0.787  -0.778  -0.763  -0.750
42    A        -1.362  -1.349  -1.314  -1.371  -1.390  -1.292  -1.088  -1.068  -1.009
43    V        -1.362  -1.349  -1.314  -1.272  -1.265  -1.192  -1.088  -1.068  -1.009
44    S        -0.271  -0.302  -0.252  -0.602  -0.638  -0.559  -0.469  -0.498  -0.426
45    S        -1.362  -1.349  -1.314  -1.036  -0.992  -0.952  -1.088  -1.068  -1.009
46    T        -0.817  -0.852  -0.833  -0.753  -0.814  -0.792  -0.778  -0.812  -0.772
47    F        -1.362  -1.349  -1.314  -0.987  -0.986  -0.903  -1.088  -1.068  -1.009
48    K         0.480   0.524   0.548   0.187   0.270   0.290   0.151   0.229   0.250
49    R        -0.065  -0.046  -0.137  -0.194  -0.172  -0.313  -0.159  -0.129  -0.256
50    A        -0.923  -0.913  -0.870  -1.075  -1.063  -0.992  -0.895  -0.876  -0.812
51    L        -0.923  -0.913  -0.870  -1.035  -1.009  -0.952  -0.895  -0.876  -0.812
52    Y        -0.817  -0.732  -0.802  -0.753  -0.627  -0.723  -0.778  -0.673  -0.739
53    N        -0.271  -0.302  -0.252  -0.301  -0.359  -0.263  -0.469  -0.498  -0.426
54    F        -1.362  -1.349  -1.314  -1.214  -1.247  -1.133  -1.088  -1.068  -1.009
55    G        -1.362  -1.349  -1.314  -1.546  -1.523  -1.470  -1.088  -1.068  -1.009
56    I        -0.817  -0.732  -0.802  -0.935  -0.791  -0.906  -0.778  -0.673  -0.739
57    K        -0.817  -0.845  -0.830  -0.867  -0.870  -0.871  -0.778  -0.804  -0.769
58    E        -0.817  -0.852  -0.833  -0.852  -0.899  -0.857  -0.778  -0.812  -0.772
59    K        -0.271  -0.227  -0.247  -0.575  -0.483  -0.524  -0.469  -0.410  -0.420
60    K        -0.817  -0.786  -0.797  -1.051  -0.990  -1.025  -0.778  -0.737  -0.733
61    S        -0.817  -0.809  -0.807  -0.759  -0.742  -0.752  -0.778  -0.765  -0.744
62    V        -0.065   0.033  -0.122  -0.005   0.174  -0.114  -0.159  -0.015  -0.235
63    N        -0.817  -0.732  -0.802  -0.679  -0.567  -0.653  -0.778  -0.673  -0.739
64    I        -1.362  -1.349  -1.314  -1.133  -1.114  -1.051  -1.088  -1.068  -1.009
65    E        -0.923  -0.913  -0.870  -0.779  -0.778  -0.692  -0.895  -0.876  -0.812
66    M        -0.241  -0.174  -0.223  -0.384  -0.295  -0.346  -0.410  -0.311  -0.380
67    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
68    G        -0.817  -0.845  -0.830  -0.901  -0.990  -0.956  -0.778  -0.804  -0.769
69    R        -0.817  -0.852  -0.833  -1.012  -1.035  -1.036  -0.778  -0.812  -0.772
70    T        -0.817  -0.786  -0.797  -0.885  -0.836  -0.847  -0.778  -0.737  -0.733
71    Q        -0.817  -0.809  -0.807  -0.687  -0.699  -0.676  -0.778  -0.765  -0.744
72    Q        -0.241  -0.199  -0.229  -0.237  -0.171  -0.215  -0.410  -0.347  -0.388
73    T         0.441   0.459   0.510   0.265   0.311   0.377   0.074   0.102   0.177
74    K         0.698   0.632   0.617   0.561   0.462   0.435   0.558   0.432   0.383
75    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
76    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
77    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
78    K        -0.271  -0.225  -0.247  -0.479  -0.399  -0.425  -0.469  -0.408  -0.420
79    I         0.820   0.887   0.742   0.862   0.958   0.734   0.771   0.882   0.616
80    D        -1.362  -1.349  -1.314  -1.147  -1.153  -1.065  -1.088  -1.068  -1.009
81    Q        -0.817  -0.783  -0.802  -0.926  -0.865  -0.896  -0.778  -0.734  -0.739
82    S        -1.362  -1.349  -1.314  -1.344  -1.268  -1.265  -1.088  -1.068  -1.009
83    L         0.480   0.497   0.525   0.275   0.305   0.340   0.151   0.178   0.206
84    S        -0.817  -0.775  -0.805  -0.873  -0.782  -0.842  -0.778  -0.724  -0.742
85    K        -0.065  -0.081  -0.150  -0.114  -0.130  -0.237  -0.159  -0.183  -0.276
86    K        -0.817  -0.799  -0.809  -0.944  -0.912  -0.931  -0.778  -0.754  -0.746
87    L        -0.065  -0.097  -0.155   0.031  -0.011  -0.122  -0.159  -0.204  -0.283
88    P        -0.817  -0.852  -0.833  -0.617  -0.697  -0.647  -0.778  -0.812  -0.772
89    K        -1.362  -1.349  -1.314  -1.386  -1.353  -1.308  -1.088  -1.068  -1.009
90    G         0.480   0.497   0.525   0.254   0.284   0.302   0.151   0.178   0.206
91    T        -1.362  -1.349  -1.314  -1.214  -1.175  -1.133  -1.088  -1.068  -1.009
92    I        -0.271  -0.277  -0.250  -0.296  -0.294  -0.254  -0.469  -0.468  -0.423
93    Y         1.805   1.827   1.885   2.000   2.051   2.129   2.011   2.042   2.136
94    D        -0.065  -0.085  -0.149   0.009  -0.036  -0.156  -0.159  -0.188  -0.274
95    P         1.805   1.827   1.885   1.917   1.942   2.044   2.011   2.042   2.136
96    F         0.820   0.746   0.703   0.918   0.800   0.725   0.771   0.639   0.544
97    D         1.805   1.827   1.885   1.931   1.963   2.058   2.011   2.042   2.136
98    F         0.820   0.746   0.703   0.911   0.798   0.715   0.771   0.639   0.544
99    S         0.820   0.746   0.703   0.681   0.593   0.489   0.771   0.639   0.544
100   M        -0.817  -0.852  -0.833  -0.783  -0.842  -0.793  -0.778  -0.812  -0.772
101   G        -0.817  -0.783  -0.802  -0.716  -0.655  -0.698  -0.778  -0.734  -0.739
102   R        -0.065  -0.154  -0.185  -0.187  -0.327  -0.384  -0.159  -0.283  -0.325
103   I        -0.817  -0.843  -0.826  -0.727  -0.755  -0.736  -0.778  -0.802  -0.765
104   H        -0.817  -0.843  -0.826  -0.617  -0.651  -0.658  -0.778  -0.802  -0.765
105   L        -0.065  -0.154  -0.185  -0.073  -0.218  -0.264  -0.159  -0.283  -0.325
106   D        -0.065  -0.154  -0.185   0.064  -0.084  -0.149  -0.159  -0.283  -0.325
107   R        -0.271  -0.303  -0.253  -0.613  -0.659  -0.580  -0.469  -0.499  -0.427
108   K        -0.065  -0.154  -0.185  -0.158  -0.278  -0.351  -0.159  -0.283  -0.325
109   Y        -1.362  -1.349  -1.314  -1.039  -1.034  -0.956  -1.088  -1.068  -1.009
110   Q        -1.362  -1.349  -1.314  -1.363  -1.381  -1.284  -1.088  -1.068  -1.009
111   A        -0.817  -0.809  -0.807  -0.855  -0.864  -0.827  -0.778  -0.765  -0.744
112   N        -1.362  -1.349  -1.314  -1.186  -1.155  -1.104  -1.088  -1.068  -1.009
113   K        -0.817  -0.845  -0.830  -0.815  -0.847  -0.812  -0.778  -0.804  -0.769
114   N        -1.362  -1.349  -1.314  -1.200  -1.186  -1.119  -1.088  -1.068  -1.009
115   S        -0.817  -0.843  -0.826  -0.812  -0.826  -0.798  -0.778  -0.802  -0.765
116   N        -0.923  -0.913  -0.870  -0.873  -0.855  -0.788  -0.895  -0.876  -0.812
117   R        -0.817  -0.732  -0.802  -0.648  -0.515  -0.623  -0.778  -0.673  -0.739
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   N         0.820   0.872   0.736   0.966   1.039   0.832   0.771   0.855   0.606
122   D        -0.817  -0.807  -0.812  -0.601  -0.576  -0.585  -0.778  -0.763  -0.750
123   I         0.820   0.872   0.736   0.928   1.005   0.799   0.771   0.855   0.606
124   M        -1.362  -1.349  -1.314  -1.182  -1.175  -1.101  -1.088  -1.068  -1.009
125   K         0.820   0.746   0.703   0.758   0.683   0.587   0.771   0.639   0.544
126   S        -1.362  -1.349  -1.314  -1.272  -1.227  -1.192  -1.088  -1.068  -1.009
127   G        -0.065  -0.085  -0.149  -0.020  -0.067  -0.180  -0.159  -0.188  -0.274
128   A        -1.362  -1.349  -1.314  -1.218  -1.192  -1.137  -1.088  -1.068  -1.009
129   N         0.820   0.796   0.717   0.862   0.813   0.713   0.771   0.726   0.570
130   P         1.805   1.827   1.885   1.917   1.942   2.044   2.011   2.042   2.136
131   L         0.820   0.746   0.703   0.846   0.748   0.681   0.771   0.639   0.544
132   E        -0.271  -0.244  -0.241  -0.301  -0.282  -0.247  -0.469  -0.432  -0.413
133   F        -0.817  -0.845  -0.830  -0.707  -0.734  -0.728  -0.778  -0.804  -0.769
134   Y         0.820   0.746   0.703   1.120   1.039   0.971   0.771   0.639   0.544
135   A        -0.271  -0.303  -0.253  -0.341  -0.389  -0.318  -0.469  -0.499  -0.427
136   R        -0.271  -0.279  -0.247  -0.466  -0.489  -0.406  -0.469  -0.471  -0.420
137   P         1.805   1.827   1.885   1.917   1.942   2.044   2.011   2.042   2.136
138   R        -0.065  -0.097  -0.155   0.051  -0.005  -0.113  -0.159  -0.204  -0.283
139   I         0.820   0.887   0.742   0.891   0.984   0.776   0.771   0.882   0.616
140   L         1.805   1.827   1.885   1.760   1.799   1.885   2.011   2.042   2.136
141   S         1.805   1.827   1.885   1.651   1.709   1.774   2.011   2.042   2.136
142   R         0.820   0.892   0.737   0.765   0.849   0.657   0.771   0.889   0.607
143   Y         0.480   0.524   0.548   0.446   0.526   0.552   0.151   0.229   0.250
144   V         0.820   0.796   0.717   0.931   0.910   0.761   0.771   0.726   0.570
145   T        -0.065  -0.042  -0.138   0.026   0.075  -0.108  -0.159  -0.125  -0.258
146   S         0.820   0.746   0.703   0.725   0.643   0.557   0.771   0.639   0.544
147   T         0.820   0.746   0.703   0.945   0.847   0.749   0.771   0.639   0.544
148   G         1.805   1.827   1.885   1.889   1.910   2.015   2.011   2.042   2.136
149   R        -0.271  -0.277  -0.250  -0.543  -0.543  -0.490  -0.469  -0.468  -0.423
150   I         1.805   1.827   1.885   1.832   1.860   1.958   2.011   2.042   2.136
151   Q        -0.065  -0.097  -0.155  -0.084  -0.136  -0.231  -0.159  -0.204  -0.283
152   H         0.480   0.464   0.511   0.567   0.540   0.592   0.151   0.112   0.178
153   R         1.805   1.827   1.885   1.673   1.687   1.796   2.011   2.042   2.136
154   D        -0.065  -0.154  -0.185   0.125  -0.023  -0.064  -0.159  -0.283  -0.325
155   I        -0.271  -0.302  -0.252  -0.291  -0.328  -0.251  -0.469  -0.498  -0.426
156   T         1.805   1.827   1.885   1.917   1.968   2.044   2.011   2.042   2.136
157   G         1.805   1.827   1.885   1.889   1.910   2.015   2.011   2.042   2.136
158   L         0.820   0.796   0.717   0.876   0.852   0.748   0.771   0.726   0.570
159   S        -0.065  -0.154  -0.185  -0.175  -0.285  -0.357  -0.159  -0.283  -0.325
160   A         1.805   1.827   1.885   1.868   1.880   1.994   2.011   2.042   2.136
161   K         1.805   1.827   1.885   1.687   1.747   1.811   2.011   2.042   2.136
162   N         1.805   1.827   1.885   1.789   1.807   1.914   2.011   2.042   2.136
163   Q         1.805   1.827   1.885   1.973   2.002   2.101   2.011   2.042   2.136
164   R         0.820   0.796   0.717   0.685   0.634   0.508   0.771   0.726   0.570
165   R        -0.065  -0.154  -0.185  -0.239  -0.398  -0.458  -0.159  -0.283  -0.325
166   L         0.820   0.892   0.737   0.846   0.951   0.734   0.771   0.889   0.607
167   S        -0.065   0.033  -0.122  -0.149   0.016  -0.228  -0.159  -0.015  -0.235
168   K        -0.065  -0.154  -0.185  -0.220  -0.363  -0.438  -0.159  -0.283  -0.325
169   A         1.805   1.827   1.885   1.868   1.880   1.994   2.011   2.042   2.136
170   I         1.805   1.827   1.885   1.832   1.860   1.958   2.011   2.042   2.136
171   R         0.480   0.496   0.529   0.084   0.106   0.146   0.151   0.176   0.213
172   R         1.805   1.827   1.885   1.673   1.687   1.796   2.011   2.042   2.136
173   C         0.480   0.464   0.511   0.552   0.488   0.570   0.151   0.112   0.178
174   Q         0.480   0.464   0.511   0.340   0.262   0.343   0.151   0.112   0.178
175   A         0.820   0.796   0.717   0.935   0.886   0.783   0.771   0.726   0.570
176   I        -0.065  -0.154  -0.185   0.079  -0.064  -0.084  -0.159  -0.283  -0.325
177   G         1.805   1.827   1.885   1.889   1.910   2.015   2.011   2.042   2.136
178   L         0.820   0.746   0.703   0.808   0.700   0.624   0.771   0.639   0.544
179   M         0.820   0.796   0.717   1.007   0.974   0.835   0.771   0.726   0.570
180   -         0.698   0.650   0.643   0.552   0.473   0.461   0.558   0.466   0.433
181   -         0.441   0.461   0.512   0.213   0.262   0.333   0.074   0.106   0.180
182   -        -0.241  -0.242  -0.234  -0.285  -0.294  -0.284  -0.410  -0.411  -0.395
183   -         0.698   0.650   0.643   0.991   0.922   0.902   0.558   0.466   0.433
184   -         0.698   0.759   0.671   0.540   0.647   0.473   0.558   0.662   0.485
185   -        -0.923  -0.911  -0.870  -0.834  -0.820  -0.747  -0.895  -0.874  -0.812
186   -        -0.923  -0.911  -0.870  -0.979  -0.965  -0.894  -0.895  -0.874  -0.812
187   -        -0.923  -0.911  -0.870  -1.084  -1.052  -1.001  -0.895  -0.874  -0.812
188   -        -0.923  -0.911  -0.870  -0.914  -0.904  -0.829  -0.895  -0.874  -0.812
189   -         0.698   0.650   0.643   0.640   0.568   0.549   0.558   0.466   0.433
190   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
191   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
192   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
193   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
194   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
195   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
196   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
197   -        -0.923  -0.911  -0.870  -0.955  -0.940  -0.871  -0.895  -0.874  -0.812
* 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/P40033
Output conservation file - output/P40033
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
