1     M         0.988   0.999   1.039   1.347   1.346   1.374   1.034   1.049   1.103
2     S         0.988   0.999   1.039   0.977   0.990   1.056   1.034   1.049   1.103
3     S        -0.063   0.047  -0.192  -0.037   0.117  -0.262  -0.159   0.004  -0.385
4     V        -1.811  -1.760  -1.591  -1.979  -1.903  -1.656  -1.650  -1.582  -1.348
5     Q        -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     S        -1.137  -1.141  -1.038  -1.181  -1.154  -1.026  -1.244  -1.239  -1.066
8     K         0.988   0.999   1.039   0.814   0.847   0.915   1.034   1.049   1.103
9     I         0.988   0.999   1.039   1.100   1.107   1.161   1.034   1.049   1.103
10    L        -1.622  -1.737  -1.593  -1.795  -1.962  -1.686  -1.451  -1.557  -1.349
11    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
12    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
13    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
14    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
15    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
16    S        -0.835  -0.957  -1.004  -0.831  -1.037  -1.155  -0.830  -0.986  -1.023
17    Q        -1.137  -1.038  -1.005  -1.183  -0.981  -0.972  -1.244  -1.089  -1.025
18    A        -2.291  -2.160  -2.012  -2.001  -1.788  -1.649  -1.865  -1.733  -1.511
19    P         0.988   0.999   1.039   1.085   1.097   1.148   1.034   1.049   1.103
20    S        -0.349  -0.294  -0.267  -0.481  -0.395  -0.347  -0.623  -0.535  -0.512
21    E         0.988   0.999   1.039   1.013   1.025   1.087   1.034   1.049   1.103
22    L         0.041  -0.028  -0.202  -0.108  -0.186  -0.413  -0.001  -0.108  -0.402
23    E         0.041  -0.028  -0.202   0.149   0.055  -0.214  -0.001  -0.108  -0.402
24    L         0.041  -0.081  -0.203  -0.108  -0.261  -0.414  -0.001  -0.190  -0.403
25    Q        -1.622  -1.610  -1.577  -1.595  -1.596  -1.625  -1.451  -1.438  -1.334
26    V         0.988   0.999   1.039   0.856   0.874   0.952   1.034   1.049   1.103
27    A         0.988   0.999   1.039   1.013   1.017   1.087   1.034   1.049   1.103
28    K        -0.835  -0.865  -0.994  -0.661  -0.690  -0.952  -0.830  -0.874  -1.011
29    T        -0.835  -0.820  -0.994  -0.612  -0.595  -0.798  -0.830  -0.813  -1.011
30    F        -0.349  -0.396  -0.282  -0.489  -0.631  -0.471  -0.623  -0.711  -0.537
31    I        -1.137  -1.076  -1.036  -1.196  -1.074  -0.964  -1.244  -1.177  -1.063
32    D         0.988   0.999   1.039   1.115   1.129   1.174   1.034   1.049   1.103
33    L         0.988   0.999   1.039   0.755   0.784   0.865   1.034   1.049   1.103
34    E         0.988   0.999   1.039   1.013   1.025   1.087   1.034   1.049   1.103
35    S        -0.835  -0.683  -0.973  -0.655  -0.461  -0.810  -0.830  -0.644  -0.986
36    S        -1.137  -1.076  -1.009  -1.146  -1.009  -0.891  -1.244  -1.136  -1.029
37    S        -0.835  -0.783  -0.982  -0.737  -0.679  -0.955  -0.830  -0.779  -0.997
38    P        -1.196  -1.156  -1.038  -1.322  -1.263  -1.106  -1.296  -1.238  -1.065
39    E         0.041   0.131  -0.186   0.230   0.352  -0.149  -0.001   0.126  -0.375
40    L        -0.835  -0.915  -1.003  -0.858  -0.938  -0.977  -0.830  -0.930  -1.023
41    K         0.041  -0.028  -0.202  -0.070  -0.150  -0.413  -0.001  -0.108  -0.402
42    A        -0.835  -0.915  -1.003  -0.784  -0.925  -1.107  -0.830  -0.930  -1.023
43    D        -0.835  -0.865  -0.994  -0.702  -0.763  -0.948  -0.830  -0.874  -1.011
44    L         0.988   0.999   1.039   0.755   0.784   0.865   1.034   1.049   1.103
45    R         0.988   0.999   1.039   0.930   0.937   1.015   1.034   1.049   1.103
46    P         0.041   0.017  -0.196   0.150   0.112  -0.295  -0.001  -0.041  -0.391
47    L         0.041   0.017  -0.196  -0.101  -0.116  -0.389  -0.001  -0.041  -0.391
48    Q         0.988   0.999   1.039   1.090   1.114   1.152   1.034   1.049   1.103
49    I        -0.349  -0.329  -0.275  -0.336  -0.315  -0.254  -0.623  -0.596  -0.525
50    K        -0.835  -0.992  -1.017  -0.936  -1.167  -1.189  -0.830  -1.029  -1.039
51    S         0.988   0.999   1.039   0.977   0.990   1.056   1.034   1.049   1.103
52    I        -0.468  -0.377  -0.263  -0.663  -0.519  -0.324  -0.830  -0.677  -0.505
53    R        -0.349  -0.142  -0.212  -0.665  -0.288  -0.428  -0.623  -0.286  -0.418
54    E         0.988   0.999   1.039   1.013   1.025   1.087   1.034   1.049   1.103
55    I        -0.835  -0.915  -1.003  -0.741  -0.887  -1.122  -0.830  -0.930  -1.023
56    D        -0.468  -0.377  -0.263  -0.652  -0.500  -0.316  -0.830  -0.677  -0.505
57    V         0.988   0.999   1.039   0.856   0.874   0.952   1.034   1.049   1.103
58    T        -1.805  -1.678  -1.586  -1.535  -1.378  -1.253  -1.658  -1.504  -1.343
59    G        -0.835  -0.957  -1.004  -0.506  -0.692  -0.781  -0.830  -0.986  -1.023
60    G         0.988   0.999   1.039   1.170   1.172   1.222   1.034   1.049   1.103
61    K         0.988   0.999   1.039   0.814   0.847   0.915   1.034   1.049   1.103
62    K         0.988   0.999   1.039   0.814   0.847   0.915   1.034   1.049   1.103
63    A         0.988   0.999   1.039   1.013   1.017   1.087   1.034   1.049   1.103
64    L        -0.349  -0.396  -0.282  -0.692  -0.746  -0.520  -0.623  -0.711  -0.537
65    V        -0.349  -0.142  -0.212  -0.640  -0.295  -0.396  -0.623  -0.286  -0.418
66    L        -1.137  -1.074  -1.030  -1.395  -1.281  -1.199  -1.244  -1.175  -1.057
67    F         0.988   0.999   1.039   1.145   1.153   1.200   1.034   1.049   1.103
68    V         0.988   0.999   1.039   0.856   0.874   0.952   1.034   1.049   1.103
69    P         0.988   0.999   1.039   1.085   1.097   1.148   1.034   1.049   1.103
70    V        -1.622  -1.385  -1.550  -1.508  -1.214  -1.334  -1.451  -1.197  -1.309
71    P         0.988   0.999   1.039   1.085   1.097   1.148   1.034   1.049   1.103
72    A        -1.137  -1.143  -1.033  -1.342  -1.359  -1.189  -1.244  -1.233  -1.061
73    L         0.988   0.999   1.039   0.755   0.784   0.865   1.034   1.049   1.103
74    S        -2.291  -2.160  -2.012  -2.216  -2.022  -1.821  -1.865  -1.733  -1.511
75    A         0.041  -0.081  -0.203   0.160  -0.017  -0.191  -0.001  -0.190  -0.403
76    Y        -1.137  -1.141  -1.038  -0.993  -1.035  -0.912  -1.244  -1.239  -1.066
77    H        -0.349  -0.142  -0.212  -0.270   0.091  -0.091  -0.623  -0.286  -0.418
78    K        -0.349  -0.316  -0.270  -0.720  -0.651  -0.571  -0.623  -0.572  -0.517
79    V        -0.835  -0.915  -1.003  -0.765  -0.858  -0.917  -0.830  -0.930  -1.023
80    Q         0.988   0.999   1.039   1.090   1.114   1.152   1.034   1.049   1.103
81    T        -1.137  -1.164  -1.035  -1.110  -1.159  -0.960  -1.244  -1.263  -1.062
82    K         0.041   0.131  -0.186   0.006   0.129  -0.377  -0.001   0.126  -0.375
83    L         0.988   0.999   1.039   0.755   0.784   0.865   1.034   1.049   1.103
84    T         0.988   0.999   1.039   1.115   1.116   1.174   1.034   1.049   1.103
85    R         0.988   0.999   1.039   0.930   0.937   1.015   1.034   1.049   1.103
86    E         0.988   0.999   1.039   1.013   1.025   1.087   1.034   1.049   1.103
87    L         0.988   0.999   1.039   0.755   0.784   0.865   1.034   1.049   1.103
88    E         0.988   0.999   1.039   1.013   1.025   1.087   1.034   1.049   1.103
89    K         0.988   0.999   1.039   0.814   0.847   0.915   1.034   1.049   1.103
90    K         0.988   0.999   1.039   0.814   0.847   0.915   1.034   1.049   1.103
91    F         0.988   0.999   1.039   1.145   1.153   1.200   1.034   1.049   1.103
92    P        -1.137  -1.164  -1.035  -1.198  -1.260  -1.044  -1.244  -1.263  -1.062
93    D         0.988   0.999   1.039   1.115   1.129   1.174   1.034   1.049   1.103
94    R         0.988   0.999   1.039   0.930   0.937   1.015   1.034   1.049   1.103
95    H         0.988   0.999   1.039   1.299   1.297   1.332   1.034   1.049   1.103
96    V         0.988   0.999   1.039   0.856   0.874   0.952   1.034   1.049   1.103
97    I        -1.137  -1.181  -1.036  -1.395  -1.463  -1.211  -1.244  -1.278  -1.063
98    F         0.041  -0.081  -0.203   0.276   0.096  -0.120  -0.001  -0.190  -0.403
99    L        -0.835  -0.992  -1.017  -0.999  -1.230  -1.237  -0.830  -1.029  -1.039
100   A         0.988   0.999   1.039   1.013   1.017   1.087   1.034   1.049   1.103
101   E        -0.835  -0.992  -1.017  -0.717  -0.957  -1.011  -0.830  -1.029  -1.039
102   R         0.988   0.999   1.039   0.930   0.937   1.015   1.034   1.049   1.103
103   R         0.988   0.999   1.039   0.930   0.937   1.015   1.034   1.049   1.103
104   I         0.988   0.999   1.039   1.100   1.107   1.161   1.034   1.049   1.103
105   L         0.988   0.999   1.039   0.755   0.784   0.865   1.034   1.049   1.103
106   P         0.988   0.999   1.039   1.085   1.097   1.148   1.034   1.049   1.103
107   K         0.041  -0.081  -0.203  -0.087  -0.251  -0.451  -0.001  -0.190  -0.403
108   P         0.041   0.017  -0.196   0.200   0.162  -0.190  -0.001  -0.041  -0.391
109   S        -1.805  -1.694  -1.585  -1.830  -1.666  -1.499  -1.658  -1.532  -1.343
110   R         0.988   0.999   1.039   0.930   0.937   1.015   1.034   1.049   1.103
111   T        -1.622  -1.494  -1.558  -1.721  -1.534  -1.587  -1.451  -1.316  -1.317
112   S        -0.349  -0.270  -0.257  -0.529  -0.397  -0.385  -0.623  -0.495  -0.495
113   R         0.041   0.017  -0.196  -0.005  -0.049  -0.420  -0.001  -0.041  -0.391
114   Q        -2.291  -2.241  -2.025  -2.279  -2.212  -1.916  -1.865  -1.800  -1.520
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   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
118   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
119   V        -2.291  -2.274  -2.030  -2.266  -2.272  -1.915  -1.865  -1.822  -1.524
120   Q         0.988   0.999   1.039   1.090   1.114   1.152   1.034   1.049   1.103
121   K         0.041   0.017  -0.196  -0.055  -0.067  -0.370  -0.001  -0.041  -0.391
122   R         0.988   0.999   1.039   0.930   0.937   1.015   1.034   1.049   1.103
123   P         0.988   0.999   1.039   1.085   1.097   1.148   1.034   1.049   1.103
124   R         0.041   0.017  -0.196   0.115   0.081  -0.166  -0.001  -0.041  -0.391
125   S         0.988   0.999   1.039   0.977   0.990   1.056   1.034   1.049   1.103
126   R         0.988   0.999   1.039   0.930   0.937   1.015   1.034   1.049   1.103
127   T         0.988   0.999   1.039   1.115   1.116   1.174   1.034   1.049   1.103
128   L         0.988   0.999   1.039   0.755   0.784   0.865   1.034   1.049   1.103
129   T         0.988   0.999   1.039   1.115   1.116   1.174   1.034   1.049   1.103
130   A         0.041   0.017  -0.196   0.090   0.045  -0.329  -0.001  -0.041  -0.391
131   V         0.988   0.999   1.039   0.856   0.874   0.952   1.034   1.049   1.103
132   H         0.988   0.999   1.039   1.299   1.297   1.332   1.034   1.049   1.103
133   D        -0.835  -0.915  -1.003  -0.561  -0.674  -0.821  -0.830  -0.930  -1.023
134   K        -0.468  -0.377  -0.263  -0.873  -0.666  -0.476  -0.830  -0.677  -0.505
135   V        -0.835  -0.782  -0.988  -0.741  -0.671  -1.089  -0.830  -0.762  -1.004
136   L         0.988   0.999   1.039   0.755   0.784   0.865   1.034   1.049   1.103
137   E         0.041  -0.081  -0.203   0.149  -0.025  -0.215  -0.001  -0.190  -0.403
138   D         0.988   0.999   1.039   1.115   1.129   1.174   1.034   1.049   1.103
139   M        -0.835  -0.820  -0.994  -0.870  -0.845  -0.987  -0.830  -0.813  -1.011
140   V         0.988   0.999   1.039   0.856   0.874   0.952   1.034   1.049   1.103
141   F         0.041  -0.081  -0.203   0.310   0.142  -0.049  -0.001  -0.190  -0.403
142   P         0.988   0.999   1.039   1.085   1.097   1.148   1.034   1.049   1.103
143   T         0.041  -0.081  -0.203   0.200  -0.002  -0.245  -0.001  -0.190  -0.403
144   E         0.988   0.999   1.039   1.013   1.025   1.087   1.034   1.049   1.103
145   I         0.988   0.999   1.039   1.100   1.107   1.161   1.034   1.049   1.103
146   V        -0.468  -0.422  -0.283  -0.776  -0.693  -0.448  -0.830  -0.756  -0.539
147   G         0.988   0.999   1.039   1.170   1.172   1.222   1.034   1.049   1.103
148   K         0.988   0.999   1.039   0.814   0.847   0.915   1.034   1.049   1.103
149   R         0.988   0.999   1.039   0.930   0.937   1.015   1.034   1.049   1.103
150   V        -0.835  -0.992  -1.017  -0.919  -1.172  -1.205  -0.830  -1.029  -1.039
151   R         0.041   0.017  -0.196   0.006  -0.035  -0.395  -0.001  -0.041  -0.391
152   Y        -0.835  -0.992  -1.017  -0.496  -0.768  -0.890  -0.830  -1.029  -1.039
153   L        -1.622  -1.737  -1.593  -1.813  -1.980  -1.712  -1.451  -1.557  -1.349
154   V        -0.835  -0.992  -1.017  -0.855  -1.085  -1.088  -0.830  -1.029  -1.039
155   G        -0.349  -0.396  -0.282  -0.306  -0.413  -0.243  -0.623  -0.711  -0.537
156   G         0.988   0.999   1.039   1.170   1.172   1.222   1.034   1.049   1.103
157   N        -1.622  -1.737  -1.593  -1.279  -1.527  -1.353  -1.451  -1.557  -1.349
158   K         0.041   0.017  -0.196  -0.087  -0.105  -0.438  -0.001  -0.041  -0.391
159   I        -0.349  -0.396  -0.282  -0.370  -0.474  -0.288  -0.623  -0.711  -0.537
160   Q        -0.835  -0.992  -1.017  -0.692  -0.947  -1.050  -0.830  -1.029  -1.039
161   K         0.988   0.999   1.039   0.814   0.847   0.915   1.034   1.049   1.103
162   V         0.988   0.999   1.039   0.856   0.874   0.952   1.034   1.049   1.103
163   L        -1.137  -1.190  -1.038  -1.354  -1.365  -1.088  -1.244  -1.289  -1.066
164   L         0.988   0.999   1.039   0.755   0.784   0.865   1.034   1.049   1.103
165   D         0.988   0.999   1.039   1.115   1.129   1.174   1.034   1.049   1.103
166   S        -0.835  -0.992  -1.017  -0.693  -0.920  -0.930  -0.830  -1.029  -1.039
167   K         0.041  -0.028  -0.202  -0.087  -0.170  -0.450  -0.001  -0.108  -0.402
168   D         0.041  -0.081  -0.203   0.230   0.051  -0.180  -0.001  -0.190  -0.403
169   V        -1.622  -1.672  -1.585  -1.636  -1.744  -1.619  -1.451  -1.495  -1.342
170   Q        -1.622  -1.672  -1.585  -1.280  -1.358  -1.222  -1.451  -1.495  -1.342
171   Q        -2.291  -2.274  -2.030  -2.104  -2.086  -1.707  -1.865  -1.822  -1.524
172   I        -0.349  -0.309  -0.268  -0.599  -0.531  -0.440  -0.623  -0.561  -0.513
173   D         0.988   0.999   1.039   1.115   1.129   1.174   1.034   1.049   1.103
174   Y         0.041   0.017  -0.196   0.435   0.393   0.063  -0.001  -0.041  -0.391
175   K         0.041  -0.081  -0.203  -0.087  -0.251  -0.451  -0.001  -0.190  -0.403
176   L         0.988   0.999   1.039   0.755   0.784   0.865   1.034   1.049   1.103
177   E        -1.137  -1.143  -1.033  -1.108  -1.107  -0.934  -1.244  -1.233  -1.061
178   S         0.041  -0.081  -0.203   0.113  -0.059  -0.243  -0.001  -0.190  -0.403
179   F         0.041  -0.081  -0.203   0.310   0.142  -0.049  -0.001  -0.190  -0.403
180   Q        -0.349  -0.396  -0.282  -0.442  -0.543  -0.377  -0.623  -0.711  -0.537
181   A        -1.320  -1.215  -1.044  -1.502  -1.347  -1.063  -1.451  -1.316  -1.073
182   V        -0.349  -0.142  -0.212  -0.762  -0.370  -0.513  -0.623  -0.286  -0.418
183   Y         0.988   0.999   1.039   1.269   1.272   1.307   1.034   1.049   1.103
184   N        -2.291  -2.149  -2.017  -1.903  -1.727  -1.561  -1.865  -1.729  -1.515
185   K         0.041  -0.081  -0.203  -0.087  -0.251  -0.451  -0.001  -0.190  -0.403
186   L         0.988   0.999   1.039   0.755   0.784   0.865   1.034   1.049   1.103
187   T         0.988   0.999   1.039   1.115   1.116   1.174   1.034   1.049   1.103
188   G         0.988   0.999   1.039   1.170   1.172   1.222   1.034   1.049   1.103
189   K         0.988   0.999   1.039   0.814   0.847   0.915   1.034   1.049   1.103
190   Q        -1.137  -1.141  -1.038  -1.072  -1.054  -0.941  -1.244  -1.239  -1.066
191   I         0.041   0.131  -0.186  -0.010   0.113  -0.316  -0.001   0.126  -0.375
192   V        -0.835  -0.992  -1.017  -0.919  -1.172  -1.205  -0.830  -1.029  -1.039
193   F         0.988   0.999   1.039   1.145   1.153   1.200   1.034   1.049   1.103
194   E         0.988   0.999   1.039   1.013   1.025   1.087   1.034   1.049   1.103
195   I        -0.349  -0.396  -0.282  -0.356  -0.452  -0.270  -0.623  -0.711  -0.537
196   P         0.988   0.999   1.039   1.085   1.097   1.148   1.034   1.049   1.103
197   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
198   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
199   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
200   S        -1.137  -1.113  -1.019  -1.125  -1.068  -0.949  -1.244  -1.186  -1.043
201   Q        -0.835  -0.579  -0.966  -0.683  -0.338  -0.875  -0.830  -0.507  -0.977
202   T        -1.811  -1.724  -1.591  -1.856  -1.712  -1.481  -1.650  -1.553  -1.348
203   N        -1.622  -1.470  -1.555  -1.200  -1.038  -1.161  -1.451  -1.285  -1.314
* 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/P48164
Output conservation file - output/P48164
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
