1     M         1.371   1.374   1.388   1.763   1.766   1.788   1.438   1.442   1.458
2     A         1.371   1.374   1.388   1.542   1.556   1.568   1.438   1.442   1.458
3     E         1.371   1.374   1.388   1.070   1.078   1.099   1.438   1.442   1.458
4     Q         1.371   1.374   1.388   1.567   1.568   1.593   1.438   1.442   1.458
5     I         1.371   1.374   1.388   1.529   1.534   1.556   1.438   1.442   1.458
6     S        -0.140  -0.163  -0.202  -0.072  -0.117  -0.180  -0.251  -0.286  -0.345
7     H         1.371   1.374   1.388   1.739   1.744   1.764   1.438   1.442   1.458
8     K         1.371   1.374   1.388   1.205   1.208   1.234   1.438   1.442   1.458
9     K         1.371   1.374   1.388   1.205   1.208   1.234   1.438   1.442   1.458
10    S         1.371   1.374   1.388   1.453   1.454   1.480   1.438   1.442   1.458
11    L         1.371   1.374   1.388   1.192   1.204   1.221   1.438   1.442   1.458
12    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
13    R         1.371   1.374   1.388   1.616   1.620   1.643   1.438   1.442   1.458
14    V         1.371   1.374   1.388   1.529   1.531   1.556   1.438   1.442   1.458
15    S        -1.237  -1.232  -1.210  -0.993  -0.991  -0.952  -1.096  -1.088  -1.051
16    S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
17    L        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
18    N        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
19    K        -0.140  -0.163  -0.202  -0.320  -0.358  -0.416  -0.251  -0.286  -0.345
20    D        -1.237  -1.232  -1.210  -1.391  -1.394  -1.346  -1.096  -1.088  -1.051
21    R        -0.140  -0.098  -0.179  -0.215  -0.161  -0.260  -0.251  -0.187  -0.310
22    R         1.371   1.374   1.388   1.616   1.620   1.643   1.438   1.442   1.458
23    L        -1.237  -1.232  -1.210  -1.157  -1.133  -1.114  -1.096  -1.088  -1.051
24    L         1.371   1.374   1.388   1.192   1.204   1.221   1.438   1.442   1.458
25    L         1.371   1.374   1.388   1.192   1.204   1.221   1.438   1.442   1.458
26    R        -0.140  -0.098  -0.179  -0.215  -0.161  -0.260  -0.251  -0.187  -0.310
27    E         1.371   1.374   1.388   1.070   1.078   1.099   1.438   1.442   1.458
28    F        -0.140  -0.098  -0.179   0.286   0.343   0.234  -0.251  -0.187  -0.310
29    Y         1.371   1.374   1.388   1.666   1.669   1.692   1.438   1.442   1.458
30    N        -1.237  -1.232  -1.210  -0.860  -0.842  -0.819  -1.096  -1.088  -1.051
31    L         1.371   1.374   1.388   1.192   1.204   1.221   1.438   1.442   1.458
32    E        -0.140  -0.163  -0.202  -0.364  -0.393  -0.433  -0.251  -0.286  -0.345
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    -         1.371   1.374   1.388   1.223   1.226   1.251   1.438   1.442   1.458
38    -        -0.274  -0.272  -0.251  -0.407  -0.405  -0.369  -0.463  -0.458  -0.424
39    N        -0.140  -0.147  -0.184  -0.125  -0.137  -0.202  -0.251  -0.261  -0.318
40    E        -0.140  -0.163  -0.202  -0.545  -0.584  -0.656  -0.251  -0.286  -0.345
41    P         1.371   1.374   1.388   1.690   1.692   1.716   1.438   1.442   1.458
42    N        -1.237  -1.232  -1.210  -0.963  -0.949  -0.922  -1.096  -1.088  -1.051
43    K        -1.237  -1.232  -1.210  -1.515  -1.511  -1.470  -1.096  -1.088  -1.051
44    G        -0.140  -0.163  -0.202   0.111   0.066  -0.010  -0.251  -0.286  -0.345
45    R        -1.237  -1.232  -1.210  -1.238  -1.244  -1.195  -1.096  -1.088  -1.051
46    Q        -1.237  -1.232  -1.210  -0.933  -0.925  -0.892  -1.096  -1.088  -1.051
47    E        -0.140  -0.147  -0.184  -0.277  -0.281  -0.311  -0.251  -0.261  -0.318
48    A        -1.237  -1.232  -1.210  -1.280  -1.275  -1.236  -1.096  -1.088  -1.051
49    R        -1.237  -1.232  -1.210  -0.948  -0.952  -0.907  -1.096  -1.088  -1.051
50    I        -1.237  -1.232  -1.210  -1.222  -1.230  -1.179  -1.096  -1.088  -1.051
51    G        -1.237  -1.232  -1.210  -0.956  -0.948  -0.914  -1.096  -1.088  -1.051
52    E        -1.237  -1.232  -1.210  -1.391  -1.367  -1.346  -1.096  -1.088  -1.051
53    K        -0.140  -0.098  -0.179  -0.191  -0.121  -0.275  -0.251  -0.187  -0.310
54    A        -1.237  -1.232  -1.210  -1.365  -1.362  -1.320  -1.096  -1.088  -1.051
55    S        -0.140  -0.147  -0.184  -0.014  -0.030  -0.082  -0.251  -0.261  -0.318
56    E        -1.237  -1.232  -1.210  -1.189  -1.162  -1.146  -1.096  -1.088  -1.051
57    A        -1.237  -1.232  -1.210  -1.063  -1.059  -1.020  -1.096  -1.088  -1.051
58    H        -1.237  -1.232  -1.210  -0.795  -0.796  -0.754  -1.096  -1.088  -1.051
59    S        -0.140  -0.147  -0.184   0.026   0.012  -0.035  -0.251  -0.261  -0.318
60    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
61    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
62    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
63    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
64    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
65    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
66    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
67    G        -0.140  -0.147  -0.184   0.094   0.081   0.004  -0.251  -0.261  -0.318
68    E        -0.140  -0.163  -0.202  -0.421  -0.454  -0.503  -0.251  -0.286  -0.345
69    E        -0.140  -0.163  -0.202  -0.383  -0.411  -0.456  -0.251  -0.286  -0.345
70    Q        -1.237  -1.232  -1.210  -0.845  -0.840  -0.804  -1.096  -1.088  -1.051
71    V        -0.140  -0.163  -0.202   0.043   0.008  -0.059  -0.251  -0.286  -0.345
72    T        -1.237  -1.232  -1.210  -1.263  -1.265  -1.220  -1.096  -1.088  -1.051
73    D        -1.237  -1.232  -1.210  -1.222  -1.212  -1.179  -1.096  -1.088  -1.051
74    V        -0.140  -0.163  -0.202   0.043   0.008  -0.059  -0.251  -0.286  -0.345
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    N        -0.140  -0.098  -0.179  -0.114  -0.048  -0.183  -0.251  -0.187  -0.310
78    I        -0.140  -0.147  -0.184   0.003  -0.010  -0.077  -0.251  -0.261  -0.318
79    D         1.371   1.374   1.388   1.427   1.428   1.455   1.438   1.442   1.458
80    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
81    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
82    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
83    T        -0.140  -0.147  -0.184  -0.078  -0.096  -0.154  -0.251  -0.261  -0.318
84    E        -1.237  -1.232  -1.210  -1.263  -1.242  -1.220  -1.096  -1.088  -1.051
85    A        -0.140  -0.147  -0.184   0.122   0.120   0.059  -0.251  -0.261  -0.318
86    N         1.371   1.374   1.388   1.402   1.409   1.429   1.438   1.442   1.458
87    T        -1.237  -1.232  -1.210  -1.222  -1.221  -1.179  -1.096  -1.088  -1.051
88    E        -1.237  -1.232  -1.210  -1.222  -1.195  -1.179  -1.096  -1.088  -1.051
89    K        -1.237  -1.232  -1.210  -1.181  -1.164  -1.138  -1.096  -1.088  -1.051
90    P        -0.140  -0.163  -0.202   0.183   0.140   0.069  -0.251  -0.286  -0.345
91    V        -0.140  -0.147  -0.184   0.037   0.024  -0.037  -0.251  -0.261  -0.318
92    K        -1.237  -1.232  -1.210  -1.230  -1.203  -1.187  -1.096  -1.088  -1.051
93    D        -1.237  -1.232  -1.210  -1.356  -1.355  -1.312  -1.096  -1.088  -1.051
94    D        -1.237  -1.232  -1.210  -1.055  -1.053  -1.013  -1.096  -1.088  -1.051
95    E        -1.237  -1.232  -1.210  -1.189  -1.162  -1.146  -1.096  -1.088  -1.051
96    L        -0.140  -0.163  -0.202  -0.271  -0.296  -0.352  -0.251  -0.286  -0.345
97    S        -0.274  -0.272  -0.251  -0.573  -0.572  -0.533  -0.463  -0.458  -0.424
98    A        -0.274  -0.272  -0.251  -0.289  -0.287  -0.251  -0.463  -0.458  -0.424
99    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
100   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
101   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
102   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
103   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
104   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
105   T         1.371   1.374   1.388   1.451   1.455   1.479   1.438   1.442   1.458
106   E         1.371   1.374   1.388   1.081   1.082   1.110   1.438   1.442   1.458
107   E        -0.274  -0.272  -0.251  -0.480  -0.479  -0.441  -0.463  -0.458  -0.424
108   D        -0.274  -0.272  -0.251  -0.586  -0.586  -0.547  -0.463  -0.458  -0.424
109   L        -0.274  -0.272  -0.251  -0.467  -0.453  -0.428  -0.463  -0.458  -0.424
110   K        -0.274  -0.272  -0.251  -0.351  -0.350  -0.313  -0.463  -0.458  -0.424
111   E        -0.274  -0.272  -0.251  -0.780  -0.766  -0.739  -0.463  -0.458  -0.424
112   G        -0.274  -0.272  -0.251  -0.428  -0.427  -0.389  -0.463  -0.458  -0.424
113   S        -0.274  -0.272  -0.251  -0.493  -0.479  -0.454  -0.463  -0.458  -0.424
114   E         1.371   1.374   1.388   1.081   1.082   1.110   1.438   1.442   1.458
115   D        -0.274  -0.272  -0.251  -0.480  -0.479  -0.441  -0.463  -0.458  -0.424
116   A        -0.274  -0.272  -0.251  -0.119  -0.116  -0.082  -0.463  -0.458  -0.424
117   E        -0.274  -0.272  -0.251  -0.586  -0.586  -0.547  -0.463  -0.458  -0.424
118   E        -0.274  -0.272  -0.251  -0.546  -0.545  -0.507  -0.463  -0.458  -0.424
119   E        -0.274  -0.272  -0.251  -0.586  -0.586  -0.547  -0.463  -0.458  -0.424
120   I        -0.274  -0.272  -0.251  -0.203  -0.201  -0.166  -0.463  -0.458  -0.424
121   K        -0.274  -0.272  -0.251  -0.467  -0.466  -0.428  -0.463  -0.458  -0.424
122   N        -0.274  -0.272  -0.251  -0.506  -0.506  -0.467  -0.463  -0.458  -0.424
123   L        -0.274  -0.272  -0.251  -0.668  -0.654  -0.628  -0.463  -0.458  -0.424
124   P        -0.274  -0.272  -0.251  -0.154  -0.152  -0.118  -0.463  -0.458  -0.424
125   F        -0.274  -0.272  -0.251  -0.227  -0.213  -0.190  -0.463  -0.458  -0.424
126   K         1.371   1.374   1.388   1.205   1.208   1.234   1.438   1.442   1.458
127   R        -1.237  -1.232  -1.210  -1.157  -1.158  -1.114  -1.096  -1.088  -1.051
128   L         1.371   1.374   1.388   1.192   1.204   1.221   1.438   1.442   1.458
129   V        -0.140  -0.163  -0.202  -0.114  -0.159  -0.253  -0.251  -0.286  -0.345
130   Q        -0.140  -0.147  -0.184   0.077   0.067   0.002  -0.251  -0.261  -0.318
131   I        -1.237  -1.232  -1.210  -1.016  -1.014  -0.974  -1.096  -1.088  -1.051
132   H        -0.140  -0.163  -0.202   0.243   0.202   0.130  -0.251  -0.286  -0.345
133   N         1.371   1.374   1.388   1.402   1.409   1.429   1.438   1.442   1.458
134   K        -1.237  -1.232  -1.210  -1.434  -1.423  -1.390  -1.096  -1.088  -1.051
135   L         1.371   1.374   1.388   1.192   1.204   1.221   1.438   1.442   1.458
136   L         1.371   1.374   1.388   1.192   1.204   1.221   1.438   1.442   1.458
137   G        -0.140  -0.163  -0.202   0.155   0.120   0.045  -0.251  -0.286  -0.345
138   K        -0.140  -0.163  -0.202  -0.479  -0.527  -0.614  -0.251  -0.286  -0.345
139   E         1.371   1.374   1.388   1.070   1.078   1.099   1.438   1.442   1.458
140   T         1.371   1.374   1.388   1.440   1.440   1.467   1.438   1.442   1.458
141   E        -0.140  -0.147  -0.184  -0.377  -0.378  -0.427  -0.251  -0.261  -0.318
142   T        -0.140  -0.163  -0.202  -0.037  -0.073  -0.134  -0.251  -0.286  -0.345
143   N        -0.140  -0.163  -0.202  -0.125  -0.164  -0.231  -0.251  -0.286  -0.345
144   N        -0.140  -0.147  -0.184  -0.114  -0.125  -0.188  -0.251  -0.261  -0.318
145   S        -0.140  -0.163  -0.202  -0.026  -0.061  -0.123  -0.251  -0.286  -0.345
146   I         1.371   1.374   1.388   1.529   1.534   1.556   1.438   1.442   1.458
147   K         1.371   1.374   1.388   1.205   1.208   1.234   1.438   1.442   1.458
148   N         1.371   1.374   1.388   1.402   1.409   1.429   1.438   1.442   1.458
149   T         1.371   1.374   1.388   1.440   1.440   1.467   1.438   1.442   1.458
150   I         1.371   1.374   1.388   1.529   1.534   1.556   1.438   1.442   1.458
151   Y         1.371   1.374   1.388   1.666   1.669   1.692   1.438   1.442   1.458
152   E        -0.140  -0.163  -0.202  -0.434  -0.468  -0.519  -0.251  -0.286  -0.345
153   N         1.371   1.374   1.388   1.402   1.409   1.429   1.438   1.442   1.458
154   Y         1.371   1.374   1.388   1.666   1.669   1.692   1.438   1.442   1.458
155   Y         1.371   1.374   1.388   1.666   1.669   1.692   1.438   1.442   1.458
156   D         1.371   1.374   1.388   1.427   1.428   1.455   1.438   1.442   1.458
157   L         1.371   1.374   1.388   1.192   1.204   1.221   1.438   1.442   1.458
158   I        -0.140  -0.147  -0.184   0.037   0.025  -0.037  -0.251  -0.261  -0.318
159   K         1.371   1.374   1.388   1.205   1.208   1.234   1.438   1.442   1.458
160   V         1.371   1.374   1.388   1.529   1.531   1.556   1.438   1.442   1.458
161   N        -0.140  -0.163  -0.202  -0.125  -0.164  -0.231  -0.251  -0.286  -0.345
162   D        -0.140  -0.163  -0.202  -0.264  -0.316  -0.411  -0.251  -0.286  -0.345
163   L        -1.237  -1.232  -1.210  -1.373  -1.351  -1.329  -1.096  -1.088  -1.051
164   L         1.371   1.374   1.388   1.192   1.204   1.221   1.438   1.442   1.458
165   K         1.371   1.374   1.388   1.205   1.208   1.234   1.438   1.442   1.458
166   E         1.371   1.374   1.388   1.070   1.078   1.099   1.438   1.442   1.458
167   I        -1.237  -1.232  -1.210  -1.016  -1.002  -0.974  -1.096  -1.088  -1.051
168   T        -0.140  -0.147  -0.184  -0.078  -0.096  -0.154  -0.251  -0.261  -0.318
169   N        -1.237  -1.232  -1.210  -0.941  -0.928  -0.899  -1.096  -1.088  -1.051
170   A        -1.237  -1.232  -1.210  -1.222  -1.218  -1.179  -1.096  -1.088  -1.051
171   N        -1.237  -1.232  -1.210  -1.305  -1.302  -1.261  -1.096  -1.088  -1.051
172   E        -0.140  -0.147  -0.184  -0.552  -0.557  -0.633  -0.251  -0.261  -0.318
173   D        -1.237  -1.232  -1.210  -1.047  -1.045  -1.005  -1.096  -1.088  -1.051
174   Q        -0.140  -0.163  -0.202  -0.078  -0.125  -0.219  -0.251  -0.286  -0.345
175   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
176   I        -1.237  -1.232  -1.210  -0.824  -0.817  -0.783  -1.096  -1.088  -1.051
177   N        -1.237  -1.232  -1.210  -1.391  -1.393  -1.346  -1.096  -1.088  -1.051
178   K        -1.237  -1.232  -1.210  -1.181  -1.166  -1.138  -1.096  -1.088  -1.051
179   L         1.371   1.374   1.388   1.192   1.204   1.221   1.438   1.442   1.458
180   K        -0.140  -0.163  -0.202  -0.215  -0.248  -0.288  -0.251  -0.286  -0.345
181   Q        -1.237  -1.232  -1.210  -1.426  -1.440  -1.381  -1.096  -1.088  -1.051
182   T        -0.140  -0.147  -0.184  -0.037  -0.048  -0.107  -0.251  -0.261  -0.318
183   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
184   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
185   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
186   V        -0.140  -0.163  -0.202   0.043   0.008  -0.059  -0.251  -0.286  -0.345
187   E        -0.140  -0.163  -0.202  -0.339  -0.365  -0.402  -0.251  -0.286  -0.345
188   S        -1.237  -1.232  -1.210  -1.181  -1.173  -1.138  -1.096  -1.088  -1.051
189   L        -1.237  -1.232  -1.210  -1.063  -1.035  -1.020  -1.096  -1.088  -1.051
190   I        -0.140  -0.098  -0.179  -0.271  -0.203  -0.321  -0.251  -0.187  -0.310
191   K        -0.140  -0.147  -0.184  -0.215  -0.226  -0.267  -0.251  -0.261  -0.318
192   E        -1.237  -1.232  -1.210  -1.263  -1.240  -1.220  -1.096  -1.088  -1.051
193   L        -0.274  -0.272  -0.251  -0.377  -0.373  -0.339  -0.463  -0.458  -0.424
* 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/P36116
Output conservation file - output/P36116
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
