1     M         1.384   1.386   1.403   1.754   1.758   1.782   1.453   1.455   1.475
2     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
3     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
4     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
5     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
6     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
7     -         1.384   1.386   1.403   1.241   1.243   1.272   1.453   1.455   1.475
8     -        -0.260  -0.259  -0.235  -0.386  -0.383  -0.342  -0.455  -0.454  -0.413
9     -        -0.260  -0.259  -0.235  -0.417  -0.415  -0.373  -0.455  -0.454  -0.413
10    A        -1.223  -1.220  -1.194  -1.192  -1.191  -1.143  -1.092  -1.088  -1.043
11    Y        -1.223  -1.220  -1.194  -1.078  -1.075  -1.030  -1.092  -1.088  -1.043
12    N        -1.223  -1.220  -1.194  -1.280  -1.271  -1.230  -1.092  -1.088  -1.043
13    Q        -0.126  -0.138  -0.171  -0.037  -0.064  -0.147  -0.243  -0.262  -0.312
14    E        -0.126  -0.138  -0.177  -0.363  -0.386  -0.468  -0.243  -0.262  -0.321
15    D        -0.126  -0.138  -0.177   0.134   0.111   0.013  -0.243  -0.262  -0.321
16    S        -0.126  -0.138  -0.177  -0.016  -0.035  -0.114  -0.243  -0.262  -0.321
17    K        -0.126  -0.096  -0.165  -0.274  -0.228  -0.323  -0.243  -0.197  -0.302
18    R        -1.223  -1.220  -1.194  -1.014  -0.998  -0.966  -1.092  -1.088  -1.043
19    L         1.384   1.386   1.403   1.187   1.184   1.218   1.453   1.455   1.475
20    S        -1.223  -1.220  -1.194  -1.060  -1.057  -1.012  -1.092  -1.088  -1.043
21    D        -0.126  -0.138  -0.177  -0.409  -0.431  -0.500  -0.243  -0.262  -0.321
22    K        -1.223  -1.220  -1.194  -1.192  -1.192  -1.143  -1.092  -1.088  -1.043
23    Y        -0.126  -0.138  -0.177   0.213   0.196   0.139  -0.243  -0.262  -0.321
24    K         1.384   1.386   1.403   1.219   1.221   1.250   1.453   1.455   1.475
25    K         1.384   1.386   1.403   1.219   1.221   1.250   1.453   1.455   1.475
26    E         1.384   1.386   1.403   1.203   1.203   1.234   1.453   1.455   1.475
27    G         1.384   1.386   1.403   1.561   1.566   1.590   1.453   1.455   1.475
28    H         1.384   1.386   1.403   1.812   1.815   1.839   1.453   1.455   1.475
29    F        -0.126  -0.138  -0.171  -0.037  -0.064  -0.147  -0.243  -0.262  -0.312
30    D         1.384   1.386   1.403   1.298   1.303   1.329   1.453   1.455   1.475
31    K        -0.126  -0.138  -0.171  -0.333  -0.354  -0.403  -0.243  -0.262  -0.312
32    L         1.384   1.386   1.403   1.187   1.184   1.218   1.453   1.455   1.475
33    K         1.384   1.386   1.403   1.219   1.221   1.250   1.453   1.455   1.475
34    R        -1.223  -1.220  -1.194  -0.942  -0.941  -0.894  -1.092  -1.088  -1.043
35    E         1.384   1.386   1.403   1.203   1.203   1.234   1.453   1.455   1.475
36    I         1.384   1.386   1.403   1.576   1.581   1.605   1.453   1.455   1.475
37    L         1.384   1.386   1.403   1.187   1.184   1.218   1.453   1.455   1.475
38    S        -0.126  -0.096  -0.165  -0.079  -0.033  -0.137  -0.243  -0.197  -0.302
39    N        -1.223  -1.220  -1.194  -1.135  -1.120  -1.086  -1.092  -1.088  -1.043
40    P        -1.223  -1.220  -1.194  -0.863  -0.855  -0.816  -1.092  -1.088  -1.043
41    W        -1.223  -1.220  -1.194  -0.811  -0.800  -0.764  -1.092  -1.088  -1.043
42    N        -0.126  -0.138  -0.177  -0.296  -0.316  -0.364  -0.243  -0.262  -0.321
43    N        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
44    T        -0.260  -0.259  -0.235   0.033   0.035   0.073  -0.455  -0.454  -0.413
45    E        -0.260  -0.259  -0.235  -0.569  -0.567  -0.524  -0.455  -0.454  -0.413
46    E        -0.260  -0.259  -0.235  -0.569  -0.567  -0.524  -0.455  -0.454  -0.413
47    N        -1.223  -1.220  -1.194  -1.144  -1.130  -1.095  -1.092  -1.088  -1.043
48    S        -0.126  -0.138  -0.171  -0.201  -0.225  -0.291  -0.243  -0.262  -0.312
49    E        -1.223  -1.220  -1.194  -1.392  -1.382  -1.341  -1.092  -1.088  -1.043
50    S        -0.126  -0.096  -0.165  -0.086  -0.041  -0.145  -0.243  -0.197  -0.302
51    F        -1.223  -1.220  -1.194  -1.125  -1.127  -1.076  -1.092  -1.088  -1.043
52    E        -1.223  -1.220  -1.194  -1.290  -1.298  -1.240  -1.092  -1.088  -1.043
53    Q        -0.126  -0.138  -0.177  -0.237  -0.254  -0.294  -0.243  -0.262  -0.321
54    A        -0.126  -0.138  -0.171   0.087   0.072   0.018  -0.243  -0.262  -0.312
55    L        -0.126  -0.138  -0.171  -0.289  -0.309  -0.343  -0.243  -0.262  -0.312
56    R        -0.126  -0.138  -0.177  -0.274  -0.291  -0.341  -0.243  -0.262  -0.321
57    K        -1.223  -1.220  -1.194  -1.508  -1.504  -1.457  -1.092  -1.088  -1.043
58    R        -0.126  -0.096  -0.165  -0.030   0.022  -0.104  -0.243  -0.197  -0.302
59    V         1.384   1.386   1.403   1.531   1.538   1.560   1.453   1.455   1.475
60    A        -1.223  -1.220  -1.194  -1.060  -1.050  -1.012  -1.092  -1.088  -1.043
61    S        -0.126  -0.138  -0.177  -0.259  -0.279  -0.343  -0.243  -0.262  -0.321
62    T        -1.223  -1.220  -1.194  -1.221  -1.222  -1.172  -1.092  -1.088  -1.043
63    V         1.384   1.386   1.403   1.531   1.538   1.560   1.453   1.455   1.475
64    K        -0.126  -0.138  -0.177  -0.121  -0.145  -0.238  -0.243  -0.262  -0.321
65    E        -1.223  -1.220  -1.194  -1.290  -1.298  -1.240  -1.092  -1.088  -1.043
66    M        -1.223  -1.220  -1.194  -1.078  -1.061  -1.030  -1.092  -1.088  -1.043
67    V         1.384   1.386   1.403   1.531   1.538   1.560   1.453   1.455   1.475
68    N         1.384   1.386   1.403   1.531   1.532   1.560   1.453   1.455   1.475
69    E         1.384   1.386   1.403   1.203   1.203   1.234   1.453   1.455   1.475
70    D         1.384   1.386   1.403   1.298   1.303   1.329   1.453   1.455   1.475
71    E         1.384   1.386   1.403   1.203   1.203   1.234   1.453   1.455   1.475
72    E        -0.126  -0.138  -0.171  -0.348  -0.371  -0.417  -0.243  -0.262  -0.312
73    L        -0.126  -0.096  -0.165  -0.289  -0.248  -0.334  -0.243  -0.197  -0.302
74    I        -0.126  -0.096  -0.165   0.046   0.099  -0.022  -0.243  -0.197  -0.302
75    F         1.384   1.386   1.403   1.651   1.654   1.679   1.453   1.455   1.475
76    K         1.384   1.386   1.403   1.219   1.221   1.250   1.453   1.455   1.475
77    N         1.384   1.386   1.403   1.531   1.532   1.560   1.453   1.455   1.475
78    R         1.384   1.386   1.403   1.546   1.550   1.575   1.453   1.455   1.475
79    G         1.384   1.386   1.403   1.561   1.566   1.590   1.453   1.455   1.475
80    L        -1.223  -1.220  -1.194  -1.290  -1.292  -1.240  -1.092  -1.088  -1.043
81    T         1.384   1.386   1.403   1.546   1.549   1.575   1.453   1.455   1.475
82    S        -0.126  -0.138  -0.171  -0.086  -0.108  -0.156  -0.243  -0.262  -0.312
83    A         1.384   1.386   1.403   1.561   1.567   1.590   1.453   1.455   1.475
84    L        -0.126  -0.096  -0.165  -0.201  -0.166  -0.233  -0.243  -0.197  -0.302
85    I        -0.126  -0.138  -0.177  -0.289  -0.309  -0.351  -0.243  -0.262  -0.321
86    E         1.384   1.386   1.403   1.203   1.203   1.234   1.453   1.455   1.475
87    S        -0.126  -0.138  -0.177  -0.016  -0.036  -0.114  -0.243  -0.262  -0.321
88    Q         1.384   1.386   1.403   1.651   1.654   1.679   1.453   1.455   1.475
89    L         1.384   1.386   1.403   1.187   1.184   1.218   1.453   1.455   1.475
90    V        -1.223  -1.220  -1.194  -0.924  -0.915  -0.877  -1.092  -1.088  -1.043
91    K         1.384   1.386   1.403   1.219   1.221   1.250   1.453   1.455   1.475
92    D        -0.126  -0.096  -0.165  -0.208  -0.160  -0.262  -0.243  -0.197  -0.302
93    N        -0.126  -0.138  -0.171   0.018  -0.001  -0.056  -0.243  -0.262  -0.312
94    Y        -0.126  -0.138  -0.171   0.259   0.239   0.180  -0.243  -0.262  -0.312
95    L        -1.223  -1.220  -1.194  -1.413  -1.421  -1.362  -1.092  -1.088  -1.043
96    K        -0.126  -0.138  -0.171  -0.333  -0.354  -0.403  -0.243  -0.262  -0.312
97    L        -0.126  -0.096  -0.165  -0.289  -0.248  -0.334  -0.243  -0.197  -0.302
98    G        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
99    S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
100   K        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
101   M        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
102   E        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
103   G        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
104   D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
105   N        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
106   G        -1.223  -1.220  -1.194  -1.192  -1.177  -1.143  -1.092  -1.088  -1.043
107   D        -0.126  -0.138  -0.171  -0.201  -0.217  -0.264  -0.243  -0.262  -0.312
108   G        -0.126  -0.138  -0.177  -0.079  -0.099  -0.157  -0.243  -0.262  -0.321
109   E        -0.126  -0.138  -0.171  -0.296  -0.316  -0.356  -0.243  -0.262  -0.312
110   K        -0.260  -0.259  -0.235  -0.372  -0.370  -0.329  -0.455  -0.454  -0.413
111   K        -0.260  -0.259  -0.235  -0.523  -0.520  -0.478  -0.455  -0.454  -0.413
112   F        -1.223  -1.220  -1.194  -0.924  -0.913  -0.877  -1.092  -1.088  -1.043
113   D         1.384   1.386   1.403   1.298   1.303   1.329   1.453   1.455   1.475
114   L        -0.126  -0.138  -0.177  -0.150  -0.173  -0.268  -0.243  -0.262  -0.321
115   D        -0.126  -0.138  -0.177  -0.409  -0.431  -0.500  -0.243  -0.262  -0.321
116   V        -0.126  -0.138  -0.177  -0.281  -0.297  -0.350  -0.243  -0.262  -0.321
117   Y        -1.223  -1.220  -1.194  -1.014  -1.018  -0.966  -1.092  -1.088  -1.043
118   V        -0.126  -0.138  -0.171  -0.150  -0.173  -0.255  -0.243  -0.262  -0.312
119   R        -1.223  -1.220  -1.194  -1.060  -1.057  -1.012  -1.092  -1.088  -1.043
120   S        -1.223  -1.220  -1.194  -1.444  -1.436  -1.393  -1.092  -1.088  -1.043
121   K        -1.223  -1.220  -1.194  -1.261  -1.263  -1.211  -1.092  -1.088  -1.043
122   L         1.384   1.386   1.403   1.187   1.184   1.218   1.453   1.455   1.475
123   Q        -1.223  -1.220  -1.194  -1.154  -1.148  -1.105  -1.092  -1.088  -1.043
124   D         1.384   1.386   1.403   1.298   1.303   1.329   1.453   1.455   1.475
125   P        -0.126  -0.138  -0.171   0.246   0.228   0.159  -0.243  -0.262  -0.312
126   K        -1.223  -1.220  -1.194  -1.183  -1.181  -1.133  -1.092  -1.088  -1.043
127   L        -1.223  -1.220  -1.194  -1.192  -1.196  -1.143  -1.092  -1.088  -1.043
128   L        -0.126  -0.138  -0.177  -0.136  -0.161  -0.255  -0.243  -0.262  -0.321
129   E        -1.223  -1.220  -1.194  -1.290  -1.281  -1.240  -1.092  -1.088  -1.043
130   M        -1.223  -1.220  -1.194  -1.271  -1.257  -1.221  -1.092  -1.088  -1.043
131   I         1.384   1.386   1.403   1.576   1.581   1.605   1.453   1.455   1.475
132   K        -0.126  -0.138  -0.171  -0.274  -0.291  -0.333  -0.243  -0.262  -0.312
133   G        -1.223  -1.220  -1.194  -0.987  -0.980  -0.939  -1.092  -1.088  -1.043
134   Q        -1.223  -1.220  -1.194  -0.906  -0.897  -0.859  -1.092  -1.088  -1.043
135   L         1.384   1.386   1.403   1.187   1.184   1.218   1.453   1.455   1.475
136   Q        -1.223  -1.220  -1.194  -1.144  -1.141  -1.095  -1.092  -1.088  -1.043
137   E        -1.223  -1.220  -1.194  -1.351  -1.341  -1.300  -1.092  -1.088  -1.043
138   T        -1.223  -1.220  -1.194  -1.060  -1.066  -1.012  -1.092  -1.088  -1.043
139   L        -0.126  -0.138  -0.177  -0.136  -0.162  -0.255  -0.243  -0.262  -0.321
140   N        -0.126  -0.096  -0.165   0.018   0.067  -0.045  -0.243  -0.197  -0.302
141   S        -0.126  -0.138  -0.177  -0.259  -0.279  -0.343  -0.243  -0.262  -0.321
142   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
143   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
144   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
145   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
146   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
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   Y        -0.260  -0.259  -0.235  -0.214  -0.212  -0.172  -0.455  -0.454  -0.413
152   E        -0.260  -0.259  -0.235  -0.600  -0.598  -0.555  -0.455  -0.454  -0.413
153   E        -0.260  -0.259  -0.235  -0.538  -0.536  -0.493  -0.455  -0.454  -0.413
154   E        -0.260  -0.259  -0.235  -0.679  -0.677  -0.634  -0.455  -0.454  -0.413
155   A         1.384   1.386   1.403   1.550   1.552   1.579   1.453   1.455   1.475
156   N         1.384   1.386   1.403   1.451   1.454   1.481   1.453   1.455   1.475
157   G         1.384   1.386   1.403   1.491   1.493   1.520   1.453   1.455   1.475
158   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
159   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
160   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
161   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
162   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
163   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
164   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
165   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
166   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
167   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
168   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
169   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
170   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
171   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
172   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
173   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
174   S        -0.260  -0.259  -0.235  -0.256  -0.254  -0.214  -0.455  -0.454  -0.413
175   T        -0.126  -0.138  -0.171  -0.030  -0.053  -0.116  -0.243  -0.262  -0.312
* 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/P38337
Output conservation file - output/P38337
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
