1     M         1.414   1.415   1.451   1.640   1.641   1.692   1.519   1.521   1.571
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     S         1.414   1.415   1.451   1.354   1.365   1.414   1.519   1.521   1.571
7     N         0.222   0.167   0.208   0.214   0.104   0.169  -0.023  -0.123  -0.066
8     I         0.477   0.431   0.321   0.447   0.380   0.184   0.408   0.335   0.136
9     T        -1.081  -1.060  -1.050  -0.937  -0.905  -0.885  -0.980  -0.958  -0.924
10    Y         1.414   1.415   1.451   1.501   1.505   1.557   1.519   1.521   1.571
11    V         0.153   0.146   0.185  -0.072  -0.085  -0.023  -0.147  -0.160  -0.108
12    K         0.477   0.431   0.321   0.459   0.397   0.244   0.408   0.335   0.136
13    G         0.477   0.485   0.341   0.424   0.436   0.205   0.408   0.421   0.170
14    N         0.153   0.163   0.192   0.071   0.088   0.128  -0.147  -0.131  -0.096
15    I         0.153   0.163   0.192  -0.156  -0.138  -0.090  -0.147  -0.131  -0.096
16    L         0.153   0.163   0.192  -0.030  -0.011   0.019  -0.147  -0.131  -0.096
17    K        -0.562  -0.582  -0.543  -0.712  -0.738  -0.666  -0.702  -0.723  -0.658
18    P        -1.081  -1.089  -1.070  -0.909  -0.928  -0.913  -0.980  -0.989  -0.944
19    K        -1.600  -1.595  -1.509  -1.524  -1.521  -1.378  -1.258  -1.252  -1.141
20    S        -1.081  -1.063  -1.062  -1.009  -0.976  -0.997  -0.980  -0.960  -0.936
21    Y        -1.081  -1.087  -1.071  -0.919  -0.923  -0.901  -0.980  -0.987  -0.945
22    A        -1.081  -1.087  -1.054  -1.115  -1.121  -1.074  -0.980  -0.986  -0.928
23    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
24    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
25    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
26    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
27    R        -1.081  -1.087  -1.071  -0.957  -0.976  -0.976  -0.980  -0.987  -0.945
28    I         0.477   0.431   0.321   0.473   0.408   0.227   0.408   0.335   0.136
29    L        -0.366  -0.341  -0.452  -0.440  -0.402  -0.567  -0.425  -0.391  -0.536
30    I         0.153   0.163   0.192  -0.064  -0.048  -0.005  -0.147  -0.131  -0.096
31    H         1.414   1.415   1.451   1.603   1.604   1.656   1.519   1.521   1.571
32    S         0.153   0.163   0.192  -0.087  -0.070  -0.030  -0.147  -0.131  -0.096
33    C         1.414   1.415   1.451   1.584   1.585   1.637   1.519   1.521   1.571
34    N         1.414   1.415   1.451   1.495   1.499   1.551   1.519   1.521   1.571
35    C        -0.366  -0.352  -0.443  -0.177  -0.159  -0.316  -0.425  -0.407  -0.524
36    N        -1.081  -1.087  -1.071  -0.914  -0.934  -0.894  -0.980  -0.987  -0.945
37    G         1.414   1.415   1.451   1.352   1.352   1.412   1.519   1.521   1.571
38    S         0.477   0.486   0.336   0.434   0.450   0.215   0.408   0.423   0.161
39    W         1.414   1.415   1.451   1.672   1.673   1.722   1.519   1.521   1.571
40    G         1.414   1.415   1.451   1.352   1.352   1.412   1.519   1.521   1.571
41    G         0.477   0.431   0.321   0.424   0.354   0.170   0.408   0.335   0.136
42    G         1.414   1.415   1.451   1.352   1.352   1.412   1.519   1.521   1.571
43    I         0.477   0.431   0.321   0.473   0.408   0.227   0.408   0.335   0.136
44    A         1.414   1.415   1.451   1.411   1.409   1.469   1.519   1.521   1.571
45    Y        -0.562  -0.548  -0.539  -0.620  -0.604  -0.573  -0.702  -0.687  -0.654
46    Q        -0.562  -0.582  -0.543  -0.604  -0.643  -0.576  -0.702  -0.723  -0.658
47    L         0.153   0.163   0.192  -0.030  -0.011   0.019  -0.147  -0.131  -0.096
48    A        -1.081  -1.087  -1.071  -1.015  -1.035  -0.988  -0.980  -0.987  -0.945
49    L        -1.600  -1.595  -1.509  -1.487  -1.478  -1.343  -1.258  -1.252  -1.141
50    R         0.477   0.495   0.340   0.468   0.494   0.286   0.408   0.437   0.168
51    Y        -0.366  -0.345  -0.479  -0.187  -0.156  -0.355  -0.425  -0.396  -0.572
52    P         1.414   1.415   1.451   1.540   1.540   1.594   1.519   1.521   1.571
53    K        -0.366  -0.384  -0.470  -0.483  -0.512  -0.662  -0.425  -0.451  -0.559
54    A         1.414   1.415   1.451   1.411   1.409   1.469   1.519   1.521   1.571
55    E        -1.081  -1.087  -1.071  -0.975  -0.985  -0.950  -0.980  -0.987  -0.945
56    K        -1.081  -1.094  -1.051  -1.131  -1.152  -1.072  -0.980  -0.994  -0.925
57    D        -1.081  -1.055  -1.063  -1.060  -1.019  -1.034  -0.980  -0.952  -0.937
58    Y         1.414   1.415   1.451   1.501   1.505   1.557   1.519   1.521   1.571
59    V        -1.081  -1.087  -1.071  -1.170  -1.189  -1.167  -0.980  -0.987  -0.945
60    E        -1.081  -1.089  -1.053  -0.871  -0.883  -0.821  -0.980  -0.989  -0.927
61    V        -1.081  -1.089  -1.070  -0.994  -1.002  -0.985  -0.980  -0.989  -0.944
62    C         1.414   1.415   1.451   1.584   1.585   1.637   1.519   1.521   1.571
63    E        -1.081  -1.087  -1.071  -0.996  -1.004  -0.974  -0.980  -0.987  -0.945
64    K        -0.366  -0.341  -0.452  -0.352  -0.315  -0.461  -0.425  -0.391  -0.536
65    Y        -0.533  -0.524  -0.515  -0.424  -0.411  -0.391  -0.650  -0.638  -0.620
66    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
67    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
68    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
69    G        -0.562  -0.548  -0.539  -0.642  -0.621  -0.583  -0.702  -0.687  -0.654
70    S         0.477   0.486   0.336   0.478   0.493   0.283   0.408   0.423   0.161
71    N        -0.562  -0.582  -0.529  -0.707  -0.734  -0.644  -0.702  -0.723  -0.642
72    L         1.414   1.415   1.451   1.305   1.307   1.367   1.519   1.521   1.571
73    L         1.414   1.415   1.451   1.305   1.307   1.367   1.519   1.521   1.571
74    G         1.414   1.415   1.451   1.352   1.352   1.412   1.519   1.521   1.571
75    K         0.153   0.163   0.192  -0.042  -0.021   0.011  -0.147  -0.131  -0.096
76    C        -0.366  -0.342  -0.461  -0.197  -0.160  -0.374  -0.425  -0.393  -0.548
77    I        -1.600  -1.595  -1.509  -1.520  -1.505  -1.375  -1.258  -1.252  -1.141
78    L        -0.366  -0.352  -0.443  -0.470  -0.450  -0.592  -0.425  -0.407  -0.524
79    L         0.477   0.495   0.340   0.447   0.478   0.218   0.408   0.437   0.168
80    P         0.153   0.144   0.191   0.076   0.054   0.126  -0.147  -0.165  -0.098
81    S         0.477   0.431   0.321   0.450   0.388   0.217   0.408   0.335   0.136
82    Y        -0.533  -0.548  -0.539  -0.508  -0.529  -0.522  -0.650  -0.670  -0.650
83    E        -0.533  -0.536  -0.519  -0.676  -0.674  -0.647  -0.650  -0.654  -0.624
84    N        -1.182  -1.178  -1.098  -1.213  -1.203  -1.076  -1.084  -1.079  -0.972
85    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
86    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
87    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
88    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
89    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
90    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
91    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
92    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
93    S        -1.600  -1.595  -1.509  -1.544  -1.532  -1.398  -1.258  -1.252  -1.141
94    D        -1.081  -1.087  -1.071  -1.055  -1.070  -1.056  -0.980  -0.987  -0.945
95    L        -0.366  -0.345  -0.440  -0.402  -0.372  -0.537  -0.425  -0.397  -0.520
96    L         0.153   0.147   0.189  -0.087  -0.096  -0.020  -0.147  -0.159  -0.101
97    I         0.153   0.147   0.189  -0.072  -0.083  -0.015  -0.147  -0.159  -0.101
98    C        -0.366  -0.345  -0.479  -0.323  -0.296  -0.499  -0.425  -0.396  -0.572
99    C         1.414   1.415   1.451   1.584   1.585   1.637   1.519   1.521   1.571
100   L         1.414   1.415   1.451   1.305   1.307   1.367   1.519   1.521   1.571
101   F         1.414   1.415   1.451   1.501   1.503   1.557   1.519   1.521   1.571
102   T         1.414   1.415   1.451   1.476   1.478   1.532   1.519   1.521   1.571
103   S         1.414   1.415   1.451   1.345   1.351   1.406   1.519   1.521   1.571
104   S        -1.081  -1.089  -1.070  -1.074  -1.088  -1.075  -0.980  -0.989  -0.944
105   F         0.477   0.431   0.321   0.640   0.576   0.416   0.408   0.335   0.136
106   G        -0.533  -0.548  -0.539  -0.626  -0.648  -0.614  -0.650  -0.670  -0.650
107   G         1.414   1.415   1.451   1.318   1.318   1.379   1.519   1.521   1.571
108   S        -0.533  -0.519  -0.510  -0.682  -0.661  -0.657  -0.650  -0.632  -0.612
109   S        -0.533  -0.548  -0.539  -0.652  -0.672  -0.651  -0.650  -0.670  -0.650
110   H        -1.081  -1.087  -1.071  -0.947  -0.962  -0.959  -0.980  -0.987  -0.945
111   G        -1.081  -1.087  -1.071  -1.090  -1.100  -1.059  -0.980  -0.987  -0.945
112   E        -1.081  -1.089  -1.070  -1.093  -1.110  -1.092  -0.980  -0.989  -0.944
113   K        -0.366  -0.345  -0.479  -0.282  -0.249  -0.505  -0.425  -0.396  -0.572
114   Q        -1.081  -1.055  -1.063  -1.009  -0.972  -0.977  -0.980  -0.952  -0.937
115   S        -0.562  -0.548  -0.539  -0.599  -0.576  -0.546  -0.702  -0.687  -0.654
116   I         1.414   1.415   1.451   1.385   1.391   1.444   1.519   1.521   1.571
117   L        -0.366  -0.334  -0.446  -0.393  -0.348  -0.538  -0.425  -0.382  -0.529
118   N        -1.600  -1.595  -1.509  -1.448  -1.447  -1.305  -1.258  -1.252  -1.141
119   Y        -1.081  -1.087  -1.071  -0.891  -0.899  -0.870  -0.980  -0.987  -0.945
120   T         1.414   1.415   1.451   1.476   1.478   1.532   1.519   1.521   1.571
121   K         0.153   0.164   0.190  -0.074  -0.055  -0.008  -0.147  -0.128  -0.100
122   L        -0.366  -0.352  -0.443  -0.431  -0.413  -0.542  -0.425  -0.407  -0.524
123   A         0.153   0.164   0.198  -0.087  -0.068  -0.016  -0.147  -0.129  -0.084
124   L        -0.562  -0.556  -0.539  -0.624  -0.609  -0.579  -0.702  -0.695  -0.654
125   D        -1.600  -1.595  -1.509  -1.534  -1.518  -1.388  -1.258  -1.252  -1.141
126   K        -0.366  -0.345  -0.479  -0.246  -0.213  -0.433  -0.425  -0.396  -0.572
127   L         0.477   0.486   0.336   0.418   0.430   0.214   0.408   0.423   0.161
128   K        -1.081  -1.089  -1.053  -0.999  -1.011  -0.960  -0.980  -0.989  -0.927
129   T        -1.081  -1.094  -1.051  -0.988  -1.016  -0.942  -0.980  -0.994  -0.925
130   -         0.222   0.227   0.218   0.172   0.177   0.138  -0.023  -0.015  -0.048
131   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
132   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
133   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
134   F        -0.366  -0.345  -0.440  -0.431  -0.403  -0.537  -0.425  -0.397  -0.520
135   R        -1.600  -1.595  -1.509  -1.613  -1.607  -1.465  -1.258  -1.252  -1.141
136   E         0.222   0.247   0.230   0.157   0.196   0.165  -0.023   0.020  -0.027
137   A        -0.533  -0.532  -0.539  -0.556  -0.556  -0.568  -0.650  -0.649  -0.650
138   K         1.414   1.415   1.451   1.325   1.329   1.386   1.519   1.521   1.571
139   D        -0.366  -0.388  -0.462  -0.236  -0.267  -0.367  -0.425  -0.455  -0.549
140   K        -1.600  -1.595  -1.509  -1.592  -1.587  -1.445  -1.258  -1.252  -1.141
141   T        -1.081  -1.089  -1.070  -1.109  -1.127  -1.101  -0.980  -0.989  -0.944
142   R        -1.081  -1.082  -1.054  -1.060  -1.059  -0.998  -0.980  -0.982  -0.927
143   T        -1.081  -1.094  -1.051  -1.017  -1.040  -0.974  -0.980  -0.994  -0.925
144   S         0.477   0.495   0.340   0.566   0.594   0.335   0.408   0.437   0.168
145   E        -0.643  -0.632  -0.569  -0.606  -0.568  -0.488  -0.795  -0.780  -0.689
146   D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
147   S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
148   I        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
149   G        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
150   D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
151   Y        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
152   L        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
153   N        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
154   G        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
155   H        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
156   I        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
157   K        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
158   Y        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
159   P        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
160   I        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
161   G         1.414   1.415   1.451   1.352   1.352   1.412   1.519   1.521   1.571
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   E        -1.081  -1.094  -1.051  -1.049  -1.068  -1.002  -0.980  -0.994  -0.925
166   Y        -0.562  -0.582  -0.543  -0.665  -0.698  -0.635  -0.702  -0.723  -0.658
167   K        -1.081  -1.087  -1.071  -1.151  -1.161  -1.122  -0.980  -0.987  -0.945
168   L        -0.562  -0.556  -0.539  -0.793  -0.784  -0.740  -0.702  -0.695  -0.654
169   E        -0.562  -0.582  -0.543  -0.561  -0.583  -0.506  -0.702  -0.723  -0.658
170   M         1.414   1.415   1.451   1.640   1.641   1.692   1.519   1.521   1.571
171   P         1.414   1.415   1.451   1.540   1.540   1.594   1.519   1.521   1.571
172   Q         0.477   0.495   0.340   0.459   0.484   0.271   0.408   0.437   0.168
173   I         1.414   1.415   1.451   1.385   1.391   1.444   1.519   1.521   1.571
174   N         1.414   1.415   1.451   1.495   1.499   1.551   1.519   1.521   1.571
175   S         0.153   0.163   0.192  -0.087  -0.070  -0.030  -0.147  -0.131  -0.096
176   G         1.414   1.415   1.451   1.352   1.352   1.412   1.519   1.521   1.571
177   I         0.153   0.147   0.189  -0.133  -0.144  -0.082  -0.147  -0.159  -0.101
178   F         1.414   1.415   1.451   1.501   1.503   1.557   1.519   1.521   1.571
179   G        -0.366  -0.384  -0.470  -0.348  -0.375  -0.491  -0.425  -0.451  -0.559
180   V         1.414   1.415   1.451   1.411   1.409   1.469   1.519   1.521   1.571
181   P         1.414   1.415   1.451   1.540   1.540   1.594   1.519   1.521   1.571
182   W         1.414   1.415   1.451   1.672   1.673   1.722   1.519   1.521   1.571
183   K        -1.081  -1.089  -1.070  -0.978  -0.985  -0.951  -0.980  -0.989  -0.944
184   E        -0.562  -0.548  -0.539  -0.638  -0.615  -0.597  -0.702  -0.687  -0.654
185   T         1.414   1.415   1.451   1.476   1.478   1.532   1.519   1.521   1.571
186   E         1.414   1.415   1.451   1.437   1.439   1.495   1.519   1.521   1.571
187   R        -1.600  -1.595  -1.509  -1.500  -1.500  -1.355  -1.258  -1.252  -1.141
188   V         0.477   0.485   0.341   0.499   0.506   0.285   0.408   0.421   0.170
189   L         1.414   1.415   1.451   1.305   1.307   1.367   1.519   1.521   1.571
190   E        -1.081  -1.060  -1.050  -1.012  -0.981  -0.960  -0.980  -0.958  -0.924
191   E         0.153   0.164   0.190  -0.075  -0.053  -0.026  -0.147  -0.128  -0.100
192   F        -0.366  -0.394  -0.463  -0.246  -0.296  -0.409  -0.425  -0.464  -0.550
193   S        -1.081  -1.082  -1.054  -1.052  -1.059  -1.020  -0.980  -0.982  -0.927
194   G        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
195   D        -1.081  -1.089  -1.070  -0.957  -0.966  -0.942  -0.980  -0.989  -0.944
196   M         0.116   0.118   0.177  -0.016  -0.013   0.084  -0.216  -0.213  -0.124
197   S        -1.081  -1.089  -1.070  -0.889  -0.900  -0.890  -0.980  -0.989  -0.944
198   F        -0.366  -0.384  -0.470  -0.228  -0.254  -0.396  -0.425  -0.451  -0.559
199   T         0.153   0.164   0.198   0.054   0.074   0.125  -0.147  -0.129  -0.084
200   V         1.414   1.415   1.451   1.411   1.409   1.469   1.519   1.521   1.571
201   Y         1.414   1.415   1.451   1.501   1.505   1.557   1.519   1.521   1.571
202   Q        -0.366  -0.345  -0.479  -0.297  -0.271  -0.462  -0.425  -0.396  -0.572
203   L        -0.562  -0.548  -0.539  -0.802  -0.780  -0.748  -0.702  -0.687  -0.654
204   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
* 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/P38218
Output conservation file - output/P38218
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
