1     M         1.643   1.694   1.716   1.918   2.001   2.037   1.780   1.848   1.882
2     S         0.416   0.301   0.308   0.456   0.263   0.265   0.308   0.112   0.114
3     N        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
4     T        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
5     S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
6     E        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
7     D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
8     N        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
9     I         0.416   0.455   0.346   0.317   0.376   0.211   0.308   0.369   0.180
10    T         0.416   0.301   0.308   0.481   0.301   0.302   0.308   0.112   0.114
11    V         0.131   0.167   0.206  -0.139  -0.080  -0.007  -0.182  -0.122  -0.066
12    R         1.643   1.694   1.716   1.701   1.772   1.820   1.780   1.848   1.882
13    F        -1.380  -1.339  -1.312  -1.268  -1.189  -1.149  -1.163  -1.094  -1.050
14    V         0.131   0.183   0.218  -0.139  -0.072  -0.004  -0.182  -0.094  -0.045
15    T        -0.625  -0.682  -0.654  -0.682  -0.773  -0.715  -0.673  -0.731  -0.688
16    E         0.416   0.301   0.308   0.327   0.128   0.135   0.308   0.112   0.114
17    N        -1.380  -1.339  -1.312  -1.369  -1.285  -1.250  -1.163  -1.094  -1.050
18    D         1.643   1.694   1.716   1.594   1.676   1.713   1.780   1.848   1.882
19    K         0.416   0.301   0.308   0.308   0.113   0.111   0.308   0.112   0.114
20    E         0.131   0.167   0.206  -0.004   0.063   0.131  -0.182  -0.122  -0.066
21    G        -1.380  -1.339  -1.312  -1.374  -1.287  -1.256  -1.163  -1.094  -1.050
22    W         0.416   0.301   0.308   0.576   0.366   0.363   0.308   0.112   0.114
23    Q        -1.380  -1.339  -1.312  -1.363  -1.276  -1.245  -1.163  -1.094  -1.050
24    R        -1.380  -1.339  -1.312  -1.005  -0.940  -0.887  -1.163  -1.094  -1.050
25    L         0.416   0.301   0.308   0.330   0.142   0.161   0.308   0.112   0.114
26    W        -0.625  -0.631  -0.632  -0.517  -0.538  -0.548  -0.673  -0.670  -0.660
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    K        -0.625  -0.473  -0.595  -0.768  -0.496  -0.718  -0.673  -0.457  -0.613
31    S        -0.625  -0.682  -0.654  -0.695  -0.795  -0.743  -0.673  -0.731  -0.688
32    Y         0.416   0.301   0.308   0.365   0.164   0.166   0.308   0.112   0.114
33    Q        -1.380  -1.339  -1.312  -1.262  -1.205  -1.144  -1.163  -1.094  -1.050
34    D        -0.625  -0.536  -0.602  -0.725  -0.580  -0.683  -0.673  -0.541  -0.622
35    F         1.643   1.694   1.716   1.701   1.784   1.820   1.780   1.848   1.882
36    Y         0.416   0.301   0.308   0.378   0.183   0.185   0.308   0.112   0.114
37    E        -0.625  -0.542  -0.599  -0.712  -0.564  -0.663  -0.673  -0.548  -0.618
38    V        -0.625  -0.682  -0.654  -0.541  -0.597  -0.578  -0.673  -0.731  -0.688
39    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
40    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
41    S        -0.625  -0.635  -0.633  -0.557  -0.551  -0.564  -0.673  -0.676  -0.661
42    F        -1.380  -1.339  -1.312  -1.278  -1.245  -1.160  -1.163  -1.094  -1.050
43    P        -0.625  -0.682  -0.654  -0.574  -0.678  -0.618  -0.673  -0.731  -0.688
44    D        -0.625  -0.682  -0.654  -0.517  -0.637  -0.587  -0.673  -0.731  -0.688
45    D        -0.625  -0.682  -0.654  -0.725  -0.806  -0.768  -0.673  -0.731  -0.688
46    L        -0.625  -0.536  -0.602  -0.725  -0.577  -0.697  -0.673  -0.541  -0.622
47    D        -1.380  -1.339  -1.312  -1.257  -1.160  -1.139  -1.163  -1.094  -1.050
48    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
49    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
50    D         0.131   0.166   0.206  -0.175  -0.121  -0.049  -0.182  -0.124  -0.066
51    F        -0.625  -0.542  -0.599  -0.720  -0.582  -0.668  -0.673  -0.548  -0.618
52    N        -0.625  -0.682  -0.654  -0.553  -0.639  -0.593  -0.673  -0.731  -0.688
53    F         1.643   1.694   1.716   1.701   1.784   1.820   1.780   1.848   1.882
54    G        -0.625  -0.473  -0.595  -0.699  -0.438  -0.649  -0.673  -0.457  -0.613
55    R         1.643   1.694   1.716   1.723   1.804   1.842   1.780   1.848   1.882
56    F         1.643   1.694   1.716   1.701   1.784   1.820   1.780   1.848   1.882
57    L         0.416   0.301   0.308   0.327   0.130   0.156   0.308   0.112   0.114
58    D         1.643   1.694   1.716   1.594   1.676   1.713   1.780   1.848   1.882
59    P        -1.380  -1.339  -1.312  -1.320  -1.271  -1.202  -1.163  -1.094  -1.050
60    N        -0.625  -0.631  -0.632  -0.598  -0.624  -0.623  -0.673  -0.670  -0.660
61    I        -0.625  -0.682  -0.654  -0.682  -0.768  -0.715  -0.673  -0.731  -0.688
62    K         0.416   0.455   0.346   0.561   0.626   0.430   0.308   0.369   0.180
63    M         0.416   0.455   0.346   0.394   0.457   0.314   0.308   0.369   0.180
64    W        -1.380  -1.339  -1.312  -1.191  -1.118  -1.072  -1.163  -1.094  -1.050
65    A        -1.380  -1.339  -1.312  -1.170  -1.130  -1.052  -1.163  -1.094  -1.050
66    A        -0.625  -0.635  -0.633  -0.682  -0.717  -0.711  -0.673  -0.676  -0.661
67    V         1.643   1.694   1.716   1.535   1.614   1.654   1.780   1.848   1.882
68    A         0.416   0.301   0.308   0.481   0.276   0.302   0.308   0.112   0.114
69    V         0.416   0.301   0.308   0.317   0.128   0.147   0.308   0.112   0.114
70    E         0.131   0.183   0.218  -0.175  -0.088  -0.027  -0.182  -0.094  -0.045
71    S        -0.625  -0.542  -0.599  -0.725  -0.587  -0.679  -0.673  -0.548  -0.618
72    S         0.416   0.301   0.308   0.500   0.326   0.330   0.308   0.112   0.114
73    S        -0.625  -0.682  -0.654  -0.691  -0.785  -0.738  -0.673  -0.731  -0.688
74    E        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
75    K        -0.625  -0.631  -0.632  -0.586  -0.564  -0.568  -0.673  -0.670  -0.660
76    I        -0.625  -0.631  -0.632  -0.598  -0.602  -0.608  -0.673  -0.670  -0.660
77    I         0.416   0.301   0.308   0.472   0.264   0.294   0.308   0.112   0.114
78    G         1.643   1.694   1.716   1.623   1.714   1.743   1.780   1.848   1.882
79    M        -0.625  -0.473  -0.595  -0.422  -0.148  -0.379  -0.673  -0.457  -0.613
80    I         0.416   0.455   0.346   0.478   0.520   0.365   0.308   0.369   0.180
81    N        -0.625  -0.631  -0.632  -0.533  -0.539  -0.546  -0.673  -0.670  -0.660
82    F         0.416   0.455   0.346   0.416   0.488   0.306   0.308   0.369   0.180
83    F        -0.625  -0.473  -0.595  -0.648  -0.391  -0.602  -0.673  -0.457  -0.613
84    N        -0.625  -0.635  -0.633  -0.594  -0.625  -0.620  -0.673  -0.676  -0.661
85    H         0.416   0.301   0.308   0.698   0.529   0.515   0.308   0.112   0.114
86    M        -0.625  -0.682  -0.654  -0.485  -0.580  -0.508  -0.673  -0.731  -0.688
87    T        -0.625  -0.682  -0.654  -0.529  -0.608  -0.581  -0.673  -0.731  -0.688
88    T         1.643   1.694   1.716   1.701   1.794   1.820   1.780   1.848   1.882
89    W         1.643   1.694   1.716   1.853   1.938   1.972   1.780   1.848   1.882
90    D         0.416   0.455   0.346   0.447   0.525   0.323   0.308   0.369   0.180
91    F        -0.625  -0.682  -0.654  -0.720  -0.799  -0.747  -0.673  -0.731  -0.688
92    K        -1.380  -1.339  -1.312  -1.446  -1.351  -1.328  -1.163  -1.094  -1.050
93    D         0.416   0.301   0.308   0.324   0.120   0.125   0.308   0.112   0.114
94    K        -1.380  -1.339  -1.312  -1.380  -1.312  -1.261  -1.163  -1.094  -1.050
95    I        -0.625  -0.473  -0.595  -0.557  -0.329  -0.503  -0.673  -0.457  -0.613
96    Y         1.643   1.694   1.716   1.633   1.721   1.752   1.780   1.848   1.882
97    I         0.416   0.455   0.346   0.327   0.379   0.220   0.308   0.369   0.180
98    N         0.416   0.301   0.308   0.500   0.310   0.299   0.308   0.112   0.114
99    D         1.643   1.694   1.716   1.594   1.676   1.713   1.780   1.848   1.882
100   L         1.643   1.694   1.716   1.545   1.616   1.664   1.780   1.848   1.882
101   Y         0.416   0.541   0.371   0.416   0.618   0.348   0.308   0.508   0.222
102   V         1.643   1.694   1.716   1.535   1.614   1.654   1.780   1.848   1.882
103   D        -0.625  -0.635  -0.633  -0.669  -0.690  -0.671  -0.673  -0.676  -0.661
104   E        -1.380  -1.339  -1.312  -1.320  -1.222  -1.202  -1.163  -1.094  -1.050
105   N        -1.380  -1.339  -1.312  -1.273  -1.148  -1.155  -1.163  -1.094  -1.050
106   S        -0.625  -0.631  -0.632  -0.648  -0.653  -0.669  -0.673  -0.670  -0.660
107   R         1.643   1.694   1.716   1.701   1.772   1.820   1.780   1.848   1.882
108   V        -1.380  -1.339  -1.312  -1.457  -1.373  -1.339  -1.163  -1.094  -1.050
109   K        -0.625  -0.473  -0.595  -0.627  -0.378  -0.566  -0.673  -0.457  -0.613
110   G         1.643   1.694   1.716   1.623   1.714   1.743   1.780   1.848   1.882
111   A        -0.625  -0.682  -0.654  -0.751  -0.845  -0.784  -0.673  -0.731  -0.688
112   G         1.643   1.694   1.716   1.623   1.714   1.743   1.780   1.848   1.882
113   G        -0.625  -0.682  -0.654  -0.611  -0.709  -0.664  -0.673  -0.731  -0.688
114   K         0.416   0.301   0.308   0.337   0.160   0.154   0.308   0.112   0.114
115   L         1.643   1.694   1.716   1.545   1.616   1.664   1.780   1.848   1.882
116   I         0.416   0.301   0.308   0.422   0.200   0.219   0.308   0.112   0.114
117   Q        -0.625  -0.682  -0.654  -0.603  -0.692  -0.617  -0.673  -0.731  -0.688
118   F         0.131   0.167   0.206  -0.060   0.004   0.062  -0.182  -0.122  -0.066
119   V        -0.625  -0.635  -0.633  -0.794  -0.840  -0.804  -0.673  -0.676  -0.661
120   Y         0.416   0.301   0.308   0.416   0.229   0.241   0.308   0.112   0.114
121   D        -0.625  -0.682  -0.654  -0.691  -0.776  -0.738  -0.673  -0.731  -0.688
122   E         1.643   1.694   1.716   1.584   1.658   1.703   1.780   1.848   1.882
123   A         0.416   0.301   0.308   0.481   0.275   0.302   0.308   0.112   0.114
124   D         0.416   0.301   0.308   0.327   0.121   0.129   0.308   0.112   0.114
125   K         0.131   0.167   0.206  -0.103  -0.034   0.028  -0.182  -0.122  -0.066
126   L         0.416   0.301   0.308   0.327   0.130   0.156   0.308   0.112   0.114
127   G         0.416   0.541   0.371   0.365   0.579   0.286   0.308   0.508   0.222
128   T        -0.625  -0.682  -0.654  -0.402  -0.512  -0.482  -0.673  -0.731  -0.688
129   P        -1.380  -1.339  -1.312  -1.331  -1.244  -1.213  -1.163  -1.094  -1.050
130   S        -0.625  -0.682  -0.654  -0.686  -0.764  -0.717  -0.673  -0.731  -0.688
131   V        -1.380  -1.339  -1.312  -1.304  -1.270  -1.186  -1.163  -1.094  -1.050
132   Y         0.416   0.301   0.308   0.381   0.190   0.189   0.308   0.112   0.114
133   W         1.643   1.694   1.716   1.853   1.938   1.972   1.780   1.848   1.882
134   C        -1.380  -1.339  -1.312  -1.111  -1.072  -0.993  -1.163  -1.094  -1.050
135   T         0.416   0.301   0.308   0.428   0.231   0.223   0.308   0.112   0.114
136   D        -0.625  -0.682  -0.654  -0.541  -0.686  -0.632  -0.673  -0.731  -0.688
137   E        -1.380  -1.339  -1.312  -1.273  -1.227  -1.155  -1.163  -1.094  -1.050
138   S        -1.380  -1.339  -1.312  -1.247  -1.140  -1.129  -1.163  -1.094  -1.050
139   N         1.643   1.694   1.716   1.758   1.858   1.878   1.780   1.848   1.882
140   H         0.416   0.301   0.308   0.733   0.565   0.567   0.308   0.112   0.114
141   R         1.643   1.694   1.716   1.701   1.772   1.820   1.780   1.848   1.882
142   A         1.643   1.694   1.716   1.701   1.762   1.820   1.780   1.848   1.882
143   Q         0.416   0.301   0.308   0.642   0.432   0.451   0.308   0.112   0.114
144   L         0.416   0.301   0.308   0.292   0.084   0.103   0.308   0.112   0.114
145   L         0.416   0.301   0.308   0.275   0.064   0.079   0.308   0.112   0.114
146   Y         1.643   1.694   1.716   1.633   1.721   1.752   1.780   1.848   1.882
147   V        -0.625  -0.682  -0.654  -0.699  -0.807  -0.774  -0.673  -0.731  -0.688
148   K         1.643   1.694   1.716   1.574   1.667   1.694   1.780   1.848   1.882
149   V        -0.625  -0.631  -0.632  -0.725  -0.748  -0.721  -0.673  -0.670  -0.660
150   G         1.643   1.694   1.716   1.623   1.714   1.743   1.780   1.848   1.882
151   Y        -1.380  -1.339  -1.312  -1.463  -1.376  -1.345  -1.163  -1.094  -1.050
152   K         0.416   0.301   0.308   0.416   0.261   0.272   0.308   0.112   0.114
153   A        -1.380  -1.339  -1.312  -1.396  -1.334  -1.278  -1.163  -1.094  -1.050
154   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
155   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
156   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
157   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
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   P        -1.380  -1.339  -1.312  -1.369  -1.288  -1.250  -1.163  -1.094  -1.050
169   K        -0.625  -0.682  -0.654  -0.632  -0.731  -0.690  -0.673  -0.731  -0.688
170   I        -0.625  -0.536  -0.602  -0.790  -0.649  -0.750  -0.673  -0.541  -0.622
171   L        -0.625  -0.631  -0.632  -0.768  -0.782  -0.774  -0.673  -0.670  -0.660
172   Y         0.416   0.301   0.308   0.381   0.190   0.189   0.308   0.112   0.114
173   K        -0.625  -0.473  -0.595  -0.759  -0.496  -0.709  -0.673  -0.457  -0.613
174   R         0.416   0.301   0.308   0.432   0.212   0.228   0.308   0.112   0.114
175   K         0.416   0.455   0.346   0.561   0.626   0.430   0.308   0.369   0.180
176   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
177   G        -0.753  -0.728  -0.683  -0.902  -0.835  -0.783  -0.836  -0.785  -0.724
178   Y        -0.753  -0.728  -0.683  -0.902  -0.853  -0.783  -0.836  -0.785  -0.724
* 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/Q06592
Output conservation file - output/Q06592
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
