1     M         1.487   1.507   1.549   1.811   1.838   1.900   1.616   1.644   1.709
2     P         0.460   0.353   0.303   0.710   0.550   0.435   0.412   0.239   0.138
3     S         0.460   0.353   0.303   0.432   0.287   0.209   0.412   0.239   0.138
4     K         0.105   0.146   0.179  -0.203  -0.114  -0.095  -0.190  -0.120  -0.081
5     N         1.487   1.507   1.549   1.569   1.593   1.665   1.616   1.644   1.709
6     S         0.460   0.353   0.303   0.386   0.224   0.134   0.412   0.239   0.138
7     I         1.487   1.507   1.549   1.632   1.663   1.726   1.616   1.644   1.709
8     N         1.487   1.507   1.549   1.569   1.593   1.665   1.616   1.644   1.709
9     R         0.105   0.087   0.158  -0.203  -0.279  -0.166  -0.190  -0.225  -0.120
10    P         1.487   1.507   1.549   1.709   1.750   1.800   1.616   1.644   1.709
11    K         1.487   1.507   1.549   1.158   1.189   1.264   1.616   1.644   1.709
12    L        -1.248  -1.296  -1.227  -1.098  -1.135  -1.030  -1.093  -1.131  -1.034
13    T         0.105   0.174   0.195  -0.362  -0.261  -0.210  -0.190  -0.069  -0.053
14    S        -0.679  -0.618  -0.635  -0.753  -0.657  -0.693  -0.792  -0.715  -0.709
15    N        -0.464  -0.556  -0.592  -0.192  -0.315  -0.355  -0.491  -0.608  -0.650
16    L        -0.464  -0.556  -0.592  -0.483  -0.623  -0.691  -0.491  -0.608  -0.650
17    H        -0.464  -0.485  -0.550  -0.192  -0.241  -0.299  -0.491  -0.519  -0.596
18    H        -0.679  -0.618  -0.635  -0.692  -0.629  -0.583  -0.792  -0.715  -0.709
19    K         0.105   0.087   0.158  -0.161  -0.148  -0.027  -0.190  -0.225  -0.120
20    V        -0.679  -0.620  -0.636  -0.677  -0.617  -0.603  -0.792  -0.717  -0.710
21    H        -0.679  -0.722  -0.629  -0.738  -0.834  -0.704  -0.792  -0.829  -0.703
22    S         0.460   0.478   0.312   0.439   0.471   0.235   0.412   0.441   0.154
23    L        -0.679  -0.665  -0.619  -0.717  -0.688  -0.619  -0.792  -0.765  -0.692
24    N        -1.248  -1.151  -1.213  -1.166  -0.997  -1.141  -1.093  -0.977  -1.020
25    K        -0.464  -0.543  -0.563  -0.738  -0.851  -0.870  -0.491  -0.592  -0.613
26    K         1.487   1.507   1.549   1.158   1.189   1.264   1.616   1.644   1.709
27    R         1.487   1.507   1.549   1.569   1.595   1.665   1.616   1.644   1.709
28    A        -0.679  -0.673  -0.623  -0.753  -0.751  -0.679  -0.792  -0.774  -0.695
29    Q         0.064   0.092   0.160  -0.058  -0.028   0.087  -0.265  -0.216  -0.116
30    R         0.333   0.358   0.251   0.512   0.551   0.402   0.205   0.246   0.047
31    E         0.105   0.087   0.158  -0.042  -0.101   0.018  -0.190  -0.225  -0.120
32    R         0.460   0.478   0.312   0.507   0.535   0.217   0.412   0.441   0.154
33    A        -1.248  -1.296  -1.227  -1.355  -1.433  -1.339  -1.093  -1.131  -1.034
34    G         0.460   0.353   0.303   0.633   0.466   0.377   0.412   0.239   0.138
35    L        -0.464  -0.556  -0.592  -0.436  -0.568  -0.623  -0.491  -0.608  -0.650
36    L        -0.464  -0.556  -0.592  -0.448  -0.584  -0.640  -0.491  -0.608  -0.650
37    K        -1.248  -1.151  -1.213  -1.314  -1.157  -1.287  -1.093  -0.977  -1.020
38    P        -0.464  -0.556  -0.592  -0.288  -0.434  -0.576  -0.491  -0.608  -0.650
39    A         0.105   0.087   0.158  -0.197  -0.250  -0.128  -0.190  -0.225  -0.120
40    R         0.105   0.087   0.158  -0.077  -0.131  -0.020  -0.190  -0.225  -0.120
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    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
44    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
45    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
46    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
47    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
48    S         0.460   0.353   0.303   0.432   0.287   0.209   0.412   0.239   0.138
49    S        -0.464  -0.556  -0.592  -0.492  -0.637  -0.683  -0.491  -0.608  -0.650
50    V        -1.248  -1.253  -1.200  -1.142  -1.176  -1.055  -1.093  -1.089  -1.007
51    N        -1.248  -1.151  -1.213  -1.166  -1.041  -1.097  -1.093  -0.977  -1.020
52    S         0.105   0.087   0.158  -0.048  -0.051   0.053  -0.190  -0.225  -0.120
53    K         0.460   0.353   0.303   0.197   0.050  -0.016   0.412   0.239   0.138
54    S        -0.464  -0.556  -0.592  -0.471  -0.589  -0.652  -0.491  -0.608  -0.650
55    G         0.105   0.087   0.158   0.033  -0.025   0.097  -0.190  -0.225  -0.120
56    E        -1.248  -1.255  -1.194  -1.160  -1.140  -1.092  -1.093  -1.091  -1.001
57    I        -1.248  -1.151  -1.213  -1.214  -1.068  -1.140  -1.093  -0.977  -1.020
58    K         1.487   1.507   1.549   1.158   1.189   1.264   1.616   1.644   1.709
59    S         0.105   0.087   0.158  -0.212  -0.255  -0.133  -0.190  -0.225  -0.120
60    V         0.105   0.116   0.162   0.153   0.171   0.229  -0.190  -0.173  -0.113
61    A         0.105   0.144   0.176  -0.005   0.049   0.111  -0.190  -0.122  -0.087
62    L         1.487   1.507   1.549   1.340   1.366   1.442   1.616   1.644   1.709
63    D         1.487   1.507   1.549   1.639   1.674   1.733   1.616   1.644   1.709
64    L         1.487   1.507   1.549   1.419   1.464   1.518   1.616   1.644   1.709
65    Y         1.487   1.507   1.549   1.811   1.839   1.900   1.616   1.644   1.709
66    F        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
67    Q        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
68    N        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
69    K        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
70    K        -0.464  -0.556  -0.592  -0.710  -0.849  -0.868  -0.491  -0.608  -0.650
71    N        -0.464  -0.324  -0.538  -0.229  -0.022  -0.345  -0.491  -0.298  -0.579
72    E        -0.647  -0.678  -0.632  -0.523  -0.580  -0.503  -0.735  -0.775  -0.703
73    S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
74    Q        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
75    N        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
76    S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
77    T        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
78    A        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
79    V        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
80    T        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
81    L        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
82    Q        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
83    N        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
84    A         1.487   1.507   1.549   1.370   1.403   1.471   1.616   1.644   1.709
85    S        -1.248  -1.261  -1.213  -0.897  -0.907  -0.886  -1.093  -1.098  -1.020
86    S        -1.248  -1.263  -1.216  -1.276  -1.290  -1.214  -1.093  -1.100  -1.023
87    S        -0.679  -0.653  -0.639  -0.707  -0.623  -0.631  -0.792  -0.748  -0.714
88    P        -1.248  -1.151  -1.213  -1.190  -1.049  -1.144  -1.093  -0.977  -1.020
89    A        -1.248  -1.216  -1.194  -1.339  -1.279  -1.297  -1.093  -1.052  -1.001
90    S        -1.817  -1.794  -1.696  -1.679  -1.647  -1.496  -1.394  -1.360  -1.236
91    I        -0.464  -0.543  -0.563  -0.207  -0.306  -0.366  -0.491  -0.592  -0.613
92    T         0.460   0.461   0.313   0.565   0.553   0.352   0.412   0.413   0.155
93    T         0.105   0.138   0.168  -0.020   0.018   0.076  -0.190  -0.134  -0.102
94    R        -1.248  -1.261  -1.213  -1.381  -1.381  -1.273  -1.093  -1.098  -1.020
95    T         1.487   1.507   1.549   1.512   1.524   1.610   1.616   1.644   1.709
96    L         1.487   1.507   1.549   1.419   1.464   1.518   1.616   1.644   1.709
97    S         1.487   1.507   1.549   1.382   1.416   1.483   1.616   1.644   1.709
98    K         0.105   0.087   0.158  -0.326  -0.339  -0.213  -0.190  -0.225  -0.120
99    K         1.487   1.507   1.549   1.158   1.189   1.264   1.616   1.644   1.709
100   R         1.487   1.507   1.549   1.569   1.595   1.665   1.616   1.644   1.709
101   A         0.460   0.461   0.313   0.425   0.416   0.179   0.412   0.413   0.155
102   K         1.487   1.507   1.549   1.158   1.189   1.264   1.616   1.644   1.709
103   K         1.487   1.507   1.549   1.158   1.189   1.264   1.616   1.644   1.709
104   I         1.487   1.507   1.549   1.632   1.663   1.726   1.616   1.644   1.709
105   E         0.105   0.087   0.158  -0.042  -0.101   0.018  -0.190  -0.225  -0.120
106   R         1.487   1.507   1.549   1.569   1.595   1.665   1.616   1.644   1.709
107   N         1.487   1.507   1.549   1.569   1.593   1.665   1.616   1.644   1.709
108   L        -1.248  -1.263  -1.216  -1.307  -1.316  -1.261  -1.093  -1.100  -1.023
109   K         0.460   0.353   0.303   0.197   0.050  -0.016   0.412   0.239   0.138
110   Y         1.487   1.507   1.549   1.811   1.839   1.900   1.616   1.644   1.709
111   A        -1.248  -1.296  -1.227  -1.172  -1.246  -1.121  -1.093  -1.131  -1.034
112   T        -1.248  -1.151  -1.213  -1.172  -1.046  -1.104  -1.093  -0.977  -1.020
113   Q        -0.464  -0.556  -0.592  -0.397  -0.577  -0.698  -0.491  -0.608  -0.650
114   R         0.460   0.353   0.303   0.605   0.445   0.362   0.412   0.239   0.138
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   K         0.460   0.552   0.325   0.197   0.327   0.018   0.412   0.555   0.176
118   L         1.487   1.507   1.549   1.419   1.464   1.518   1.616   1.644   1.709
119   L        -0.464  -0.556  -0.592  -0.570  -0.732  -0.822  -0.491  -0.608  -0.650
120   V        -1.248  -1.263  -1.216  -0.979  -1.007  -0.948  -1.093  -1.100  -1.023
121   D         0.460   0.353   0.303   0.695   0.543   0.444   0.412   0.239   0.138
122   A         0.064   0.092   0.160  -0.245  -0.191  -0.089  -0.265  -0.216  -0.116
123   S        -1.359  -1.329  -1.246  -1.406  -1.356  -1.230  -1.206  -1.163  -1.052
124   A         0.333   0.358   0.251   0.265   0.298   0.099   0.205   0.246   0.047
125   K        -0.647  -0.698  -0.644  -0.899  -0.940  -0.823  -0.735  -0.797  -0.718
126   L         0.180   0.147   0.174  -0.151  -0.223  -0.188  -0.056  -0.118  -0.090
127   E         0.460   0.461   0.313   0.629   0.632   0.413   0.412   0.413   0.155
128   D        -1.248  -1.216  -1.194  -1.104  -1.070  -1.031  -1.093  -1.052  -1.001
129   E        -1.817  -1.794  -1.696  -1.544  -1.535  -1.364  -1.394  -1.360  -1.236
130   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
131   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
132   M         1.487   1.507   1.549   1.811   1.838   1.900   1.616   1.644   1.709
133   D        -0.464  -0.385  -0.542  -0.240  -0.125  -0.352  -0.491  -0.380  -0.584
134   I         0.105   0.087   0.158   0.142   0.110   0.216  -0.190  -0.225  -0.120
135   D         1.487   1.507   1.549   1.660   1.697   1.753   1.616   1.644   1.709
136   L        -1.817  -1.794  -1.696  -1.671  -1.624  -1.488  -1.394  -1.360  -1.236
137   D        -1.248  -1.296  -1.227  -0.959  -1.040  -0.940  -1.093  -1.131  -1.034
138   G        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
139   G        -1.817  -1.794  -1.696  -1.572  -1.571  -1.392  -1.394  -1.360  -1.236
140   K        -0.679  -0.653  -0.639  -0.903  -0.811  -0.786  -0.792  -0.748  -0.714
141   K         0.460   0.353   0.303   0.216   0.073   0.016   0.412   0.239   0.138
142   V        -1.248  -1.151  -1.213  -1.208  -1.052  -1.181  -1.093  -0.977  -1.020
143   K         0.064   0.092   0.160  -0.379  -0.296  -0.184  -0.265  -0.216  -0.116
144   E        -1.359  -1.329  -1.246  -1.401  -1.339  -1.225  -1.206  -1.163  -1.052
145   N        -1.359  -1.329  -1.246  -1.288  -1.245  -1.116  -1.206  -1.163  -1.052
146   E        -0.647  -0.586  -0.614  -0.974  -0.895  -0.889  -0.735  -0.647  -0.680
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   K        -0.464  -0.403  -0.539  -0.641  -0.554  -0.707  -0.491  -0.404  -0.581
150   K         0.105   0.087   0.158  -0.282  -0.290  -0.163  -0.190  -0.225  -0.120
151   S        -0.464  -0.385  -0.542  -0.395  -0.283  -0.531  -0.491  -0.380  -0.584
152   S        -1.248  -1.151  -1.213  -1.534  -1.384  -1.445  -1.093  -0.977  -1.020
153   L         1.487   1.507   1.549   1.419   1.464   1.518   1.616   1.644   1.709
154   T        -0.679  -0.618  -0.635  -0.608  -0.509  -0.541  -0.792  -0.715  -0.709
155   L        -0.679  -0.625  -0.615  -0.952  -0.862  -0.836  -0.792  -0.726  -0.687
156   V        -0.679  -0.653  -0.639  -0.459  -0.416  -0.374  -0.792  -0.748  -0.714
157   K         0.460   0.478   0.312   0.197   0.228  -0.002   0.412   0.441   0.154
158   E         0.460   0.353   0.303   0.514   0.330   0.205   0.412   0.239   0.138
159   A         0.460   0.461   0.313   0.498   0.491   0.297   0.412   0.413   0.155
160   L         0.460   0.478   0.312   0.473   0.518   0.266   0.412   0.441   0.154
161   W         0.460   0.478   0.312   0.858   0.889   0.582   0.412   0.441   0.154
162   S        -1.248  -1.205  -1.189  -1.307  -1.252  -1.213  -1.093  -1.036  -0.996
163   V         0.105   0.138   0.168   0.043   0.100   0.122  -0.190  -0.134  -0.102
164   I        -0.679  -0.665  -0.619  -0.591  -0.560  -0.508  -0.792  -0.765  -0.692
165   D         0.460   0.556   0.324   0.635   0.768   0.438   0.412   0.561   0.174
166   D         0.460   0.353   0.303   0.695   0.543   0.444   0.412   0.239   0.138
167   T        -1.248  -1.296  -1.227  -0.982  -1.032  -0.922  -1.093  -1.131  -1.034
168   A        -1.248  -1.161  -1.184  -1.098  -0.944  -1.015  -1.093  -0.989  -0.990
169   S        -0.464  -0.488  -0.544  -0.606  -0.675  -0.763  -0.491  -0.523  -0.587
170   Q        -1.248  -1.263  -1.216  -1.084  -1.108  -1.061  -1.093  -1.100  -1.023
171   G         1.487   1.507   1.549   1.611   1.640   1.706   1.616   1.644   1.709
172   L         0.460   0.353   0.303   0.519   0.399   0.327   0.412   0.239   0.138
173   I        -0.679  -0.663  -0.620  -0.889  -0.875  -0.837  -0.792  -0.760  -0.690
174   I        -0.679  -0.653  -0.639  -0.591  -0.533  -0.544  -0.792  -0.748  -0.714
175   E        -1.248  -1.296  -1.227  -1.066  -1.131  -1.041  -1.093  -1.131  -1.034
176   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
177   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
178   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
179   N        -0.679  -0.653  -0.639  -0.613  -0.560  -0.551  -0.792  -0.748  -0.714
180   G         0.460   0.353   0.303   0.681   0.538   0.456   0.412   0.239   0.138
181   Q        -1.248  -1.296  -1.227  -1.084  -1.168  -1.082  -1.093  -1.131  -1.034
182   G         1.487   1.507   1.549   1.611   1.640   1.706   1.616   1.644   1.709
183   T         1.487   1.507   1.549   1.512   1.524   1.610   1.616   1.644   1.709
184   T         0.460   0.552   0.325   0.576   0.684   0.388   0.412   0.555   0.176
185   L         1.487   1.507   1.549   1.419   1.464   1.518   1.616   1.644   1.709
186   G         1.487   1.507   1.549   1.611   1.640   1.706   1.616   1.644   1.709
187   G        -0.464  -0.556  -0.592  -0.205  -0.340  -0.397  -0.491  -0.608  -0.650
188   P         0.105   0.174   0.195   0.167   0.280   0.305  -0.190  -0.069  -0.053
189   F        -1.248  -1.261  -1.213  -0.883  -0.950  -0.866  -1.093  -1.098  -1.020
190   F         1.487   1.507   1.549   1.858   1.888   1.946   1.616   1.644   1.709
191   P         0.180   0.147   0.174   0.189   0.108   0.111  -0.056  -0.118  -0.090
* 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/P47019
Output conservation file - output/P47019
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
