1     M         1.346   1.351   1.368   1.715   1.722   1.744   1.412   1.417   1.436
2     S        -0.208  -0.173  -0.240  -0.061   0.014  -0.134  -0.317  -0.262  -0.363
3     I        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
4     S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
5     E        -0.346  -0.342  -0.311  -0.492  -0.483  -0.430  -0.533  -0.524  -0.474
6     S        -0.346  -0.342  -0.311  -0.332  -0.323  -0.272  -0.533  -0.524  -0.474
7     Y        -0.346  -0.342  -0.311  -0.131  -0.122  -0.074  -0.533  -0.524  -0.474
8     A        -0.346  -0.342  -0.311  -0.543  -0.533  -0.480  -0.533  -0.524  -0.474
9     K        -0.346  -0.342  -0.311  -0.213  -0.204  -0.155  -0.533  -0.524  -0.474
10    E        -0.346  -0.342  -0.311  -0.296  -0.287  -0.236  -0.533  -0.524  -0.474
11    I        -0.346  -0.342  -0.311  -0.779  -0.769  -0.712  -0.533  -0.524  -0.474
12    K         1.346   1.351   1.368   1.486   1.492   1.519   1.412   1.417   1.436
13    T        -0.346  -0.342  -0.311  -0.213  -0.204  -0.155  -0.533  -0.524  -0.474
14    A        -0.208  -0.173  -0.245  -0.260  -0.195  -0.314  -0.317  -0.262  -0.370
15    F        -0.208  -0.255  -0.268  -0.587  -0.656  -0.668  -0.317  -0.388  -0.407
16    R        -0.208  -0.173  -0.245  -0.045   0.018  -0.122  -0.317  -0.262  -0.370
17    Q        -0.208  -0.173  -0.240   0.059   0.119   0.006  -0.317  -0.262  -0.363
18    F        -0.208  -0.173  -0.245  -0.114  -0.059  -0.154  -0.317  -0.262  -0.370
19    T        -0.208  -0.255  -0.268  -0.098  -0.175  -0.201  -0.317  -0.388  -0.407
20    D         1.346   1.351   1.368   1.438   1.444   1.472   1.412   1.417   1.436
21    F         1.346   1.351   1.368   1.367   1.376   1.402   1.412   1.417   1.436
22    P         1.346   1.351   1.368   1.485   1.492   1.518   1.412   1.417   1.436
23    I        -0.208  -0.173  -0.245  -0.227  -0.175  -0.284  -0.317  -0.262  -0.370
24    E        -1.336  -1.325  -1.293  -1.237  -1.229  -1.164  -1.181  -1.164  -1.111
25    G         1.346   1.351   1.368   1.259   1.265   1.295   1.412   1.417   1.436
26    E        -0.208  -0.255  -0.268  -0.265  -0.357  -0.371  -0.317  -0.388  -0.407
27    Q        -1.336  -1.325  -1.293  -1.237  -1.200  -1.164  -1.181  -1.164  -1.111
28    F         1.346   1.351   1.368   1.367   1.376   1.402   1.412   1.417   1.436
29    E        -0.208  -0.173  -0.240  -0.249  -0.200  -0.308  -0.317  -0.262  -0.363
30    D         1.346   1.351   1.368   1.438   1.444   1.472   1.412   1.417   1.436
31    F        -0.208  -0.255  -0.268  -0.276  -0.361  -0.384  -0.317  -0.388  -0.407
32    L        -0.208  -0.173  -0.245  -0.412  -0.364  -0.429  -0.317  -0.262  -0.370
33    P         1.346   1.351   1.368   1.485   1.492   1.518   1.412   1.417   1.436
34    I        -0.208  -0.173  -0.240  -0.434  -0.369  -0.516  -0.317  -0.262  -0.363
35    I        -0.208  -0.255  -0.268  -0.271  -0.354  -0.381  -0.317  -0.388  -0.407
36    G        -0.208  -0.255  -0.268  -0.098  -0.191  -0.237  -0.317  -0.388  -0.407
37    N        -0.208  -0.255  -0.268  -0.045  -0.109  -0.121  -0.317  -0.388  -0.407
38    P        -0.208  -0.173  -0.240  -0.151  -0.090  -0.213  -0.317  -0.262  -0.363
39    T        -1.336  -1.325  -1.293  -1.104  -1.086  -1.032  -1.181  -1.164  -1.111
40    L        -1.336  -1.325  -1.293  -1.554  -1.553  -1.477  -1.181  -1.164  -1.111
41    F        -0.208  -0.173  -0.240  -0.103  -0.046  -0.136  -0.317  -0.262  -0.363
42    Q        -1.336  -1.325  -1.293  -1.295  -1.262  -1.221  -1.181  -1.164  -1.111
43    K        -1.336  -1.325  -1.293  -1.362  -1.330  -1.287  -1.181  -1.164  -1.111
44    L         1.346   1.351   1.368   1.023   1.031   1.063   1.412   1.417   1.436
45    V        -1.336  -1.325  -1.293  -1.611  -1.581  -1.532  -1.181  -1.164  -1.111
46    H        -1.336  -1.325  -1.293  -1.124  -1.083  -1.053  -1.181  -1.164  -1.111
47    T        -1.336  -1.325  -1.293  -1.554  -1.505  -1.477  -1.181  -1.164  -1.111
48    F        -0.208  -0.255  -0.268  -0.587  -0.656  -0.668  -0.317  -0.388  -0.407
49    K        -1.336  -1.325  -1.293  -1.384  -1.352  -1.309  -1.181  -1.164  -1.111
50    T        -1.336  -1.325  -1.293  -1.507  -1.473  -1.430  -1.181  -1.164  -1.111
51    H        -1.336  -1.325  -1.293  -1.062  -1.017  -0.992  -1.181  -1.164  -1.111
52    L        -1.336  -1.325  -1.293  -1.611  -1.617  -1.532  -1.181  -1.164  -1.111
53    E         1.346   1.351   1.368   1.391   1.386   1.426   1.412   1.417   1.436
54    E        -1.336  -1.325  -1.293  -1.507  -1.485  -1.430  -1.181  -1.164  -1.111
55    K        -1.336  -1.325  -1.293  -1.159  -1.143  -1.087  -1.181  -1.164  -1.111
56    F        -0.208  -0.173  -0.240  -0.103  -0.046  -0.136  -0.317  -0.262  -0.363
57    G        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
58    K        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
59    E        -1.336  -1.325  -1.293  -1.028  -1.029  -0.958  -1.181  -1.164  -1.111
60    K        -0.208  -0.173  -0.245  -0.014   0.040  -0.060  -0.317  -0.262  -0.370
61    I        -0.208  -0.173  -0.240  -0.222  -0.169  -0.270  -0.317  -0.262  -0.363
62    D         1.346   1.351   1.368   1.438   1.444   1.472   1.412   1.417   1.436
63    F        -0.208  -0.255  -0.268  -0.254  -0.338  -0.364  -0.317  -0.388  -0.407
64    I         1.346   1.351   1.368   1.355   1.355   1.390   1.412   1.417   1.436
65    A        -0.208  -0.255  -0.268  -0.276  -0.360  -0.392  -0.317  -0.388  -0.407
66    G         1.346   1.351   1.368   1.259   1.265   1.295   1.412   1.417   1.436
67    I        -0.208  -0.255  -0.268  -0.593  -0.667  -0.675  -0.317  -0.388  -0.407
68    E        -0.208  -0.173  -0.240  -0.211  -0.162  -0.264  -0.317  -0.262  -0.363
69    A         1.346   1.351   1.368   1.320   1.334   1.355   1.412   1.417   1.436
70    R         1.346   1.351   1.368   1.601   1.608   1.632   1.412   1.417   1.436
71    G         1.346   1.351   1.368   1.259   1.265   1.295   1.412   1.417   1.436
72    L        -0.208  -0.255  -0.268  -0.423  -0.521  -0.573  -0.317  -0.388  -0.407
73    L         1.346   1.351   1.368   1.023   1.031   1.063   1.412   1.417   1.436
74    F         1.346   1.351   1.368   1.367   1.376   1.402   1.412   1.417   1.436
75    G         1.346   1.351   1.368   1.259   1.265   1.295   1.412   1.417   1.436
76    P         1.346   1.351   1.368   1.485   1.492   1.518   1.412   1.417   1.436
77    S        -0.208  -0.173  -0.245   0.018   0.083  -0.052  -0.317  -0.262  -0.370
78    L         1.346   1.351   1.368   1.023   1.031   1.063   1.412   1.417   1.436
79    A         1.346   1.351   1.368   1.320   1.334   1.355   1.412   1.417   1.436
80    L         1.346   1.351   1.368   1.023   1.031   1.063   1.412   1.417   1.436
81    A        -0.208  -0.255  -0.268  -0.071  -0.157  -0.204  -0.317  -0.388  -0.407
82    L        -1.336  -1.325  -1.293  -1.407  -1.410  -1.331  -1.181  -1.164  -1.111
83    G        -0.208  -0.173  -0.245  -0.205  -0.154  -0.238  -0.317  -0.262  -0.370
84    V        -1.336  -1.325  -1.293  -1.152  -1.140  -1.080  -1.181  -1.164  -1.111
85    G        -1.336  -1.325  -1.293  -1.332  -1.315  -1.257  -1.181  -1.164  -1.111
86    F         1.346   1.351   1.368   1.367   1.376   1.402   1.412   1.417   1.436
87    V         1.346   1.351   1.368   1.379   1.382   1.414   1.412   1.417   1.436
88    P         1.346   1.351   1.368   1.485   1.492   1.518   1.412   1.417   1.436
89    I        -0.208  -0.255  -0.268  -0.260  -0.349  -0.371  -0.317  -0.388  -0.407
90    R         1.346   1.351   1.368   1.601   1.608   1.632   1.412   1.417   1.436
91    R        -0.208  -0.255  -0.268  -0.061  -0.132  -0.151  -0.317  -0.388  -0.407
92    V        -1.336  -1.325  -1.293  -1.166  -1.157  -1.094  -1.181  -1.164  -1.111
93    G        -0.208  -0.173  -0.245  -0.205  -0.154  -0.238  -0.317  -0.262  -0.370
94    K         1.346   1.351   1.368   1.474   1.479   1.507   1.412   1.417   1.436
95    L        -0.208  -0.173  -0.240  -0.412  -0.364  -0.425  -0.317  -0.262  -0.363
96    P         1.346   1.351   1.368   1.485   1.492   1.518   1.412   1.417   1.436
97    G         1.346   1.351   1.368   1.259   1.265   1.295   1.412   1.417   1.436
98    E        -1.336  -1.325  -1.293  -1.259  -1.250  -1.185  -1.181  -1.164  -1.111
99    C        -0.208  -0.173  -0.245  -0.029   0.046  -0.142  -0.317  -0.262  -0.370
100   A        -0.208  -0.255  -0.268  -0.276  -0.360  -0.392  -0.317  -0.388  -0.407
101   S        -1.336  -1.325  -1.293  -1.152  -1.119  -1.080  -1.181  -1.164  -1.111
102   I        -1.336  -1.325  -1.293  -1.422  -1.401  -1.346  -1.181  -1.164  -1.111
103   T        -1.336  -1.325  -1.293  -1.187  -1.157  -1.115  -1.181  -1.164  -1.111
104   F        -0.208  -0.255  -0.268   0.033  -0.056  -0.101  -0.317  -0.388  -0.407
105   T        -1.336  -1.325  -1.293  -1.090  -1.079  -1.019  -1.181  -1.164  -1.111
106   K         1.346   1.351   1.368   1.474   1.479   1.507   1.412   1.417   1.436
107   L        -0.208  -0.255  -0.268  -0.400  -0.512  -0.551  -0.317  -0.388  -0.407
108   D        -0.208  -0.255  -0.268   0.064  -0.023  -0.062  -0.317  -0.388  -0.407
109   H        -1.336  -1.325  -1.293  -1.090  -1.045  -1.019  -1.181  -1.164  -1.111
110   E        -0.208  -0.255  -0.268  -0.135  -0.226  -0.251  -0.317  -0.388  -0.407
111   E        -0.208  -0.255  -0.268  -0.189  -0.277  -0.301  -0.317  -0.388  -0.407
112   I        -1.336  -1.325  -1.293  -1.244  -1.231  -1.171  -1.181  -1.164  -1.111
113   F         1.346   1.351   1.368   1.367   1.376   1.402   1.412   1.417   1.436
114   E        -1.336  -1.325  -1.293  -1.259  -1.244  -1.185  -1.181  -1.164  -1.111
115   M        -0.208  -0.173  -0.245   0.048   0.112  -0.037  -0.317  -0.262  -0.370
116   Q         1.346   1.351   1.368   1.601   1.608   1.632   1.412   1.417   1.436
117   V        -1.336  -1.325  -1.293  -1.273  -1.260  -1.200  -1.181  -1.164  -1.111
118   E        -0.208  -0.255  -0.268  -0.355  -0.438  -0.452  -0.317  -0.388  -0.407
119   A        -0.208  -0.173  -0.245  -0.249  -0.185  -0.302  -0.317  -0.262  -0.370
120   I         1.346   1.351   1.368   1.355   1.355   1.390   1.412   1.417   1.436
121   P        -0.208  -0.255  -0.268  -0.114  -0.191  -0.217  -0.317  -0.388  -0.407
122   F        -0.208  -0.255  -0.268  -0.156  -0.239  -0.275  -0.317  -0.388  -0.407
123   D        -0.208  -0.255  -0.268  -0.332  -0.407  -0.424  -0.317  -0.388  -0.407
124   S        -0.208  -0.255  -0.268   0.059  -0.012  -0.041  -0.317  -0.388  -0.407
125   N        -1.336  -1.325  -1.293  -0.982  -0.950  -0.912  -1.181  -1.164  -1.111
126   V         1.346   1.351   1.368   1.379   1.382   1.414   1.412   1.417   1.436
127   V        -0.208  -0.255  -0.268  -0.581  -0.652  -0.660  -0.317  -0.388  -0.407
128   V        -0.208  -0.255  -0.268  -0.271  -0.359  -0.377  -0.317  -0.388  -0.407
129   V         1.346   1.351   1.368   1.379   1.382   1.414   1.412   1.417   1.436
130   D         1.346   1.351   1.368   1.438   1.444   1.472   1.412   1.417   1.436
131   D         1.346   1.351   1.368   1.438   1.444   1.472   1.412   1.417   1.436
132   V        -0.208  -0.255  -0.268  -0.271  -0.359  -0.377  -0.317  -0.388  -0.407
133   L        -0.208  -0.173  -0.240  -0.593  -0.537  -0.633  -0.317  -0.262  -0.363
134   A         1.346   1.351   1.368   1.320   1.334   1.355   1.412   1.417   1.436
135   T         1.346   1.351   1.368   1.497   1.502   1.530   1.412   1.417   1.436
136   G         1.346   1.351   1.368   1.259   1.265   1.295   1.412   1.417   1.436
137   G         1.346   1.351   1.368   1.259   1.265   1.295   1.412   1.417   1.436
138   T        -0.208  -0.173  -0.240  -0.034   0.022  -0.081  -0.317  -0.262  -0.363
139   A         1.346   1.351   1.368   1.320   1.334   1.355   1.412   1.417   1.436
140   Y        -1.336  -1.325  -1.293  -1.422  -1.360  -1.346  -1.181  -1.164  -1.111
141   A         1.346   1.351   1.368   1.320   1.334   1.355   1.412   1.417   1.436
142   A         1.346   1.351   1.368   1.320   1.334   1.355   1.412   1.417   1.436
143   G        -0.208  -0.173  -0.245  -0.332  -0.275  -0.386  -0.317  -0.262  -0.370
144   D        -0.208  -0.255  -0.268  -0.211  -0.299  -0.313  -0.317  -0.388  -0.407
145   L         1.346   1.351   1.368   1.023   1.031   1.063   1.412   1.417   1.436
146   I        -0.208  -0.255  -0.268  -0.260  -0.349  -0.371  -0.317  -0.388  -0.407
147   R        -1.336  -1.325  -1.293  -1.104  -1.076  -1.032  -1.181  -1.164  -1.111
148   Q        -1.336  -1.325  -1.293  -1.042  -1.017  -0.972  -1.181  -1.164  -1.111
149   V        -0.208  -0.255  -0.268  -0.581  -0.652  -0.660  -0.317  -0.388  -0.407
150   G         1.346   1.351   1.368   1.259   1.265   1.295   1.412   1.417   1.436
151   A        -0.208  -0.255  -0.268  -0.389  -0.465  -0.495  -0.317  -0.388  -0.407
152   H        -0.208  -0.255  -0.268  -0.082  -0.150  -0.153  -0.317  -0.388  -0.407
153   I        -1.336  -1.325  -1.293  -1.531  -1.507  -1.453  -1.181  -1.164  -1.111
154   L        -1.336  -1.325  -1.293  -1.611  -1.617  -1.532  -1.181  -1.164  -1.111
155   E        -0.208  -0.255  -0.268  -0.355  -0.438  -0.452  -0.317  -0.388  -0.407
156   Y        -0.208  -0.173  -0.245   0.185   0.244   0.127  -0.317  -0.262  -0.370
157   D        -0.208  -0.255  -0.268  -0.551  -0.617  -0.623  -0.317  -0.388  -0.407
158   F         1.346   1.351   1.368   1.367   1.376   1.402   1.412   1.417   1.436
159   V        -1.336  -1.325  -1.293  -1.611  -1.581  -1.532  -1.181  -1.164  -1.111
160   L         1.346   1.351   1.368   1.023   1.031   1.063   1.412   1.417   1.436
161   V        -0.208  -0.255  -0.268  -0.238  -0.331  -0.347  -0.317  -0.388  -0.407
162   L        -0.208  -0.173  -0.240  -0.593  -0.537  -0.633  -0.317  -0.262  -0.363
163   D        -1.336  -1.325  -1.293  -1.295  -1.268  -1.221  -1.181  -1.164  -1.111
164   S        -0.208  -0.255  -0.268  -0.151  -0.213  -0.232  -0.317  -0.388  -0.407
165   L         1.346   1.351   1.368   1.023   1.031   1.063   1.412   1.417   1.436
166   H        -1.336  -1.325  -1.293  -0.975  -0.940  -0.906  -1.181  -1.164  -1.111
167   G         1.346   1.351   1.368   1.259   1.265   1.295   1.412   1.417   1.436
168   E        -0.208  -0.255  -0.268  -0.040  -0.131  -0.164  -0.317  -0.388  -0.407
169   E        -0.208  -0.173  -0.245  -0.194  -0.147  -0.253  -0.317  -0.262  -0.370
170   K        -0.208  -0.173  -0.245  -0.061  -0.005  -0.114  -0.317  -0.262  -0.370
171   L         1.346   1.351   1.368   1.023   1.031   1.063   1.412   1.417   1.436
172   S        -1.336  -1.325  -1.293  -1.090  -1.057  -1.019  -1.181  -1.164  -1.111
173   A        -0.208  -0.173  -0.240  -0.360  -0.288  -0.423  -0.317  -0.262  -0.363
174   P        -0.208  -0.173  -0.240  -0.151  -0.090  -0.213  -0.317  -0.262  -0.363
175   I        -1.336  -1.325  -1.293  -1.244  -1.236  -1.171  -1.181  -1.164  -1.111
176   F        -1.336  -1.325  -1.293  -1.180  -1.170  -1.108  -1.181  -1.164  -1.111
177   S        -0.208  -0.255  -0.268  -0.034  -0.104  -0.126  -0.317  -0.388  -0.407
178   I        -1.336  -1.325  -1.293  -1.531  -1.507  -1.453  -1.181  -1.164  -1.111
179   L         1.346   1.351   1.368   1.023   1.031   1.063   1.412   1.417   1.436
180   -        -0.346  -0.342  -0.311  -0.698  -0.708  -0.633  -0.533  -0.524  -0.474
181   -        -0.346  -0.342  -0.311  -0.551  -0.531  -0.488  -0.533  -0.524  -0.474
182   -        -0.346  -0.342  -0.311  -0.260  -0.260  -0.202  -0.533  -0.524  -0.474
183   -         1.346   1.351   1.368   1.414   1.429   1.448   1.412   1.417   1.436
184   -         1.346   1.351   1.368   1.466   1.482   1.500   1.412   1.417   1.436
185   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
186   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
187   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
188   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
189   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
190   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
191   H        -0.346  -0.342  -0.311  -0.284  -0.275  -0.225  -0.533  -0.524  -0.474
192   S        -0.346  -0.342  -0.311  -0.380  -0.371  -0.320  -0.533  -0.524  -0.474
* 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/P36973
Output conservation file - output/P36973
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
