1     M         1.581   1.599   1.642   1.916   1.945   2.002   1.688   1.711   1.772
2     S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
3     S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
4     S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
5     L        -0.873  -0.853  -0.794  -0.778  -0.719  -0.660  -0.923  -0.888  -0.801
6     S         1.581   1.599   1.642   1.473   1.494   1.564   1.688   1.711   1.772
7     Q        -0.741  -0.658  -0.717  -1.150  -1.049  -1.083  -0.759  -0.644  -0.707
8     T        -0.741  -0.669  -0.723  -0.486  -0.362  -0.476  -0.759  -0.659  -0.714
9     S         0.325   0.382   0.256   0.335   0.414   0.243   0.220   0.310   0.100
10    K         0.325   0.382   0.256  -0.125  -0.055  -0.193   0.220   0.310   0.100
11    Y        -1.515  -1.485  -1.433  -0.961  -0.953  -0.840  -1.249  -1.204  -1.123
12    Q         0.033   0.055   0.109   0.189   0.242   0.309  -0.270  -0.231  -0.151
13    A         1.581   1.599   1.642   1.689   1.719   1.777   1.688   1.711   1.772
14    T         0.325   0.215   0.210   0.567   0.389   0.358   0.220   0.040   0.022
15    S        -1.515  -1.485  -1.433  -1.338  -1.260  -1.214  -1.249  -1.204  -1.123
16    V        -0.741  -0.763  -0.750  -0.412  -0.427  -0.420  -0.759  -0.781  -0.747
17    V         1.581   1.599   1.642   1.682   1.718   1.771   1.688   1.711   1.772
18    N         1.581   1.599   1.642   1.709   1.735   1.798   1.688   1.711   1.772
19    G        -1.515  -1.485  -1.433  -1.503  -1.548  -1.376  -1.249  -1.204  -1.123
20    L         0.325   0.387   0.252   0.256   0.352   0.161   0.220   0.318   0.092
21    L         0.325   0.215   0.210   0.330   0.204   0.209   0.220   0.040   0.022
22    S        -0.741  -0.669  -0.723  -0.628  -0.524  -0.588  -0.759  -0.659  -0.714
23    N         0.325   0.404   0.257   0.342   0.447   0.253   0.220   0.344   0.100
24    L         0.325   0.382   0.256   0.256   0.345   0.168   0.220   0.310   0.100
25    L         1.581   1.599   1.642   1.394   1.424   1.486   1.688   1.711   1.772
26    P         1.581   1.599   1.642   1.857   1.886   1.944   1.688   1.711   1.772
27    G         1.581   1.599   1.642   1.790   1.817   1.878   1.688   1.711   1.772
28    V        -1.515  -1.485  -1.433  -1.148  -1.075  -1.025  -1.249  -1.204  -1.123
29    P        -0.741  -0.763  -0.750  -0.375  -0.403  -0.377  -0.759  -0.781  -0.747
30    K        -1.515  -1.485  -1.433  -1.503  -1.392  -1.376  -1.249  -1.204  -1.123
31    I        -0.741  -0.775  -0.747  -0.334  -0.379  -0.347  -0.759  -0.795  -0.744
32    R        -0.741  -0.658  -0.717  -0.373  -0.237  -0.341  -0.759  -0.644  -0.707
33    A        -0.741  -0.772  -0.750  -0.489  -0.559  -0.511  -0.759  -0.792  -0.748
34    N        -1.515  -1.485  -1.433  -1.668  -1.707  -1.539  -1.249  -1.204  -1.123
35    N        -0.741  -0.775  -0.747  -0.435  -0.473  -0.447  -0.759  -0.795  -0.744
36    G        -0.741  -0.763  -0.750  -1.092  -1.134  -1.042  -0.759  -0.781  -0.747
37    K         0.325   0.215   0.210  -0.207  -0.381  -0.370   0.220   0.040   0.022
38    T        -0.741  -0.772  -0.750  -0.466  -0.537  -0.504  -0.759  -0.792  -0.748
39    S         1.581   1.599   1.642   1.516   1.543   1.607   1.688   1.711   1.772
40    V        -0.873  -0.861  -0.794  -1.107  -1.083  -0.985  -0.923  -0.897  -0.801
41    N        -0.873  -0.861  -0.794  -0.583  -0.555  -0.467  -0.923  -0.897  -0.801
42    N        -0.873  -0.861  -0.794  -1.057  -1.029  -0.935  -0.923  -0.897  -0.801
43    G        -0.741  -0.772  -0.750  -0.481  -0.556  -0.527  -0.759  -0.792  -0.748
44    S         0.325   0.387   0.252   0.335   0.421   0.236   0.220   0.318   0.092
45    K         0.325   0.215   0.210  -0.207  -0.381  -0.370   0.220   0.040   0.022
46    A         1.581   1.599   1.642   1.689   1.719   1.777   1.688   1.711   1.772
47    Q         0.325   0.215   0.210   0.481   0.316   0.279   0.220   0.040   0.022
48    L         1.581   1.599   1.642   1.394   1.424   1.486   1.688   1.711   1.772
49    I         0.325   0.215   0.210   0.543   0.348   0.316   0.220   0.040   0.022
50    D         0.325   0.215   0.210   0.401   0.227   0.197   0.220   0.040   0.022
51    R        -0.741  -0.772  -0.750  -0.320  -0.348  -0.310  -0.759  -0.792  -0.748
52    N         0.325   0.215   0.210   0.508   0.332   0.304   0.220   0.040   0.022
53    L         0.325   0.215   0.210   0.291   0.152   0.152   0.220   0.040   0.022
54    K         0.325   0.215   0.210  -0.191  -0.356  -0.347   0.220   0.040   0.022
55    K         0.325   0.215   0.210  -0.117  -0.262  -0.238   0.220   0.040   0.022
56    R         0.325   0.215   0.210   0.319   0.108   0.039   0.220   0.040   0.022
57    V        -0.741  -0.772  -0.750  -0.563  -0.588  -0.596  -0.759  -0.792  -0.748
58    Q        -0.741  -0.763  -0.750  -0.888  -0.992  -0.940  -0.759  -0.781  -0.747
59    L         0.325   0.382   0.256   0.256   0.345   0.168   0.220   0.310   0.100
60    Q         0.325   0.215   0.210   0.468   0.296   0.259   0.220   0.040   0.022
61    N        -0.741  -0.763  -0.750  -0.875  -0.984  -0.924  -0.759  -0.781  -0.747
62    R        -0.741  -0.763  -0.750  -1.131  -1.150  -1.088  -0.759  -0.781  -0.747
63    D         0.325   0.215   0.210   0.414   0.248   0.217   0.220   0.040   0.022
64    V         0.325   0.215   0.210   0.443   0.267   0.223   0.220   0.040   0.022
65    H        -0.741  -0.763  -0.750  -0.475  -0.595  -0.544  -0.759  -0.781  -0.747
66    K        -0.741  -0.669  -0.723  -1.194  -1.094  -1.138  -0.759  -0.659  -0.714
67    I         0.325   0.387   0.252   0.580   0.671   0.446   0.220   0.318   0.092
68    K         0.325   0.215   0.210  -0.066  -0.196  -0.163   0.220   0.040   0.022
69    K         0.325   0.387   0.252  -0.130  -0.049  -0.206   0.220   0.318   0.092
70    K        -0.741  -0.775  -0.747  -1.045  -1.048  -0.987  -0.759  -0.795  -0.744
71    C        -0.741  -0.763  -0.750  -0.458  -0.486  -0.432  -0.759  -0.781  -0.747
72    K         1.581   1.599   1.642   1.002   1.018   1.099   1.688   1.711   1.772
73    L        -1.515  -1.485  -1.433  -1.491  -1.358  -1.364  -1.249  -1.204  -1.123
74    V        -1.515  -1.485  -1.433  -1.303  -1.344  -1.178  -1.249  -1.204  -1.123
75    K        -1.515  -1.485  -1.433  -1.631  -1.507  -1.503  -1.249  -1.204  -1.123
76    K        -0.741  -0.775  -0.747  -0.962  -0.952  -0.892  -0.759  -0.795  -0.744
77    K         0.325   0.387   0.252  -0.207  -0.126  -0.308   0.220   0.318   0.092
78    K         0.325   0.387   0.252  -0.094  -0.022  -0.157   0.220   0.318   0.092
79    V        -0.741  -0.654  -0.715  -0.486  -0.337  -0.463  -0.759  -0.640  -0.704
80    K        -0.741  -0.669  -0.723  -1.153  -1.062  -1.093  -0.759  -0.659  -0.714
81    K         0.325   0.382   0.256  -0.087  -0.021  -0.142   0.220   0.310   0.100
82    H        -0.741  -0.763  -0.750  -0.389  -0.411  -0.390  -0.759  -0.781  -0.747
83    K        -0.741  -0.772  -0.750  -1.194  -1.237  -1.162  -0.759  -0.792  -0.748
84    L         0.325   0.404   0.257   0.279   0.406   0.155   0.220   0.344   0.100
85    D        -0.741  -0.669  -0.723  -0.583  -0.457  -0.560  -0.759  -0.659  -0.714
86    K        -0.741  -0.658  -0.717  -0.888  -0.726  -0.873  -0.759  -0.644  -0.707
87    E        -0.741  -0.772  -0.750  -0.784  -0.909  -0.816  -0.759  -0.792  -0.748
88    Q        -1.515  -1.485  -1.433  -1.218  -1.138  -1.095  -1.249  -1.204  -1.123
89    L        -1.515  -1.485  -1.433  -0.947  -0.873  -0.827  -1.249  -1.204  -1.123
90    E         0.325   0.215   0.210   0.383   0.233   0.223   0.220   0.040   0.022
91    Q         0.325   0.215   0.210   0.326   0.108   0.045   0.220   0.040   0.022
92    L         0.033   0.053   0.108  -0.657  -0.603  -0.517  -0.270  -0.235  -0.152
93    A         1.581   1.599   1.642   1.689   1.719   1.777   1.688   1.711   1.772
94    K         1.581   1.599   1.642   1.002   1.018   1.099   1.688   1.711   1.772
95    H        -0.741  -0.763  -0.750  -0.533  -0.531  -0.491  -0.759  -0.781  -0.747
96    Q         0.325   0.215   0.210   0.586   0.449   0.433   0.220   0.040   0.022
97    V        -0.741  -0.772  -0.750  -0.530  -0.601  -0.558  -0.759  -0.792  -0.748
98    L         0.325   0.215   0.210   0.291   0.152   0.152   0.220   0.040   0.022
99    K        -0.741  -0.669  -0.723  -1.031  -0.949  -0.958  -0.759  -0.659  -0.714
100   K         0.325   0.215   0.210  -0.066  -0.196  -0.163   0.220   0.040   0.022
101   H         1.581   1.599   1.642   1.844   1.868   1.930   1.688   1.711   1.772
102   Q        -0.741  -0.772  -0.750  -0.736  -0.848  -0.804  -0.759  -0.792  -0.748
103   H        -1.515  -1.485  -1.433  -1.044  -0.980  -0.922  -1.249  -1.204  -1.123
104   E        -1.515  -1.485  -1.433  -1.155  -1.070  -1.032  -1.249  -1.204  -1.123
105   G         0.325   0.382   0.256   0.646   0.730   0.540   0.220   0.310   0.100
106   T        -0.741  -0.775  -0.747  -0.536  -0.605  -0.581  -0.759  -0.795  -0.744
107   L         1.581   1.599   1.642   1.394   1.424   1.486   1.688   1.711   1.772
108   T         0.325   0.215   0.210   0.554   0.369   0.339   0.220   0.040   0.022
109   D        -0.741  -0.772  -0.750  -0.583  -0.632  -0.603  -0.759  -0.792  -0.748
110   H        -0.741  -0.772  -0.750  -0.659  -0.721  -0.755  -0.759  -0.792  -0.748
111   E         1.581   1.599   1.642   1.515   1.544   1.606   1.688   1.711   1.772
112   R        -0.741  -0.763  -0.750  -1.042  -1.037  -0.984  -0.759  -0.781  -0.747
113   K        -0.741  -0.669  -0.723  -1.146  -1.062  -1.084  -0.759  -0.659  -0.714
114   Y         1.581   1.599   1.642   1.890   1.919   1.976   1.688   1.711   1.772
115   L         1.581   1.599   1.642   1.394   1.424   1.486   1.688   1.711   1.772
116   N        -0.741  -0.763  -0.750  -0.784  -0.891  -0.842  -0.759  -0.781  -0.747
117   K         0.325   0.387   0.252  -0.191  -0.109  -0.287   0.220   0.318   0.092
118   L         0.325   0.382   0.256   0.256   0.345   0.168   0.220   0.310   0.100
119   I        -0.741  -0.654  -0.715  -0.409  -0.274  -0.366  -0.759  -0.640  -0.704
120   K         1.581   1.599   1.642   1.002   1.018   1.099   1.688   1.711   1.772
121   R         0.033   0.055   0.109  -0.422  -0.420  -0.331  -0.270  -0.231  -0.151
122   N         1.581   1.599   1.642   1.709   1.735   1.798   1.688   1.711   1.772
123   S        -0.741  -0.654  -0.715  -0.504  -0.357  -0.469  -0.759  -0.640  -0.704
124   Q        -1.515  -1.485  -1.433  -1.436  -1.340  -1.310  -1.249  -1.204  -1.123
125   N        -0.741  -0.772  -0.750  -0.803  -0.867  -0.893  -0.759  -0.792  -0.748
126   L         1.581   1.599   1.642   1.394   1.424   1.486   1.688   1.711   1.772
127   R        -0.741  -0.763  -0.750  -1.031  -1.027  -0.972  -0.759  -0.781  -0.747
128   S         0.325   0.215   0.210   0.330   0.179   0.168   0.220   0.040   0.022
129   W         0.325   0.215   0.210   0.794   0.632   0.597   0.220   0.040   0.022
130   D         0.325   0.215   0.210   0.401   0.227   0.197   0.220   0.040   0.022
131   L        -0.741  -0.775  -0.747  -0.677  -0.728  -0.656  -0.759  -0.795  -0.744
132   E        -0.741  -0.775  -0.747  -0.580  -0.605  -0.572  -0.759  -0.795  -0.744
133   E         0.325   0.404   0.257   0.414   0.541   0.298   0.220   0.344   0.100
134   E         0.159   0.215   0.182   0.168   0.268   0.188  -0.052   0.041  -0.026
135   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
136   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
137   V         0.159   0.123   0.153   0.358   0.308   0.344  -0.052  -0.115  -0.074
138   R         0.325   0.404   0.257  -0.130  -0.028  -0.199   0.220   0.344   0.100
139   D        -0.741  -0.763  -0.750  -0.718  -0.761  -0.737  -0.759  -0.781  -0.747
140   E         0.325   0.387   0.252   0.351   0.447   0.242   0.220   0.318   0.092
141   L         0.325   0.387   0.252   0.330   0.416   0.260   0.220   0.318   0.092
142   E        -0.741  -0.763  -0.750  -0.807  -0.818  -0.810  -0.759  -0.781  -0.747
143   D        -0.741  -0.772  -0.750  -0.583  -0.608  -0.603  -0.759  -0.792  -0.748
144   I        -0.741  -0.775  -0.747  -0.486  -0.533  -0.525  -0.759  -0.795  -0.744
145   Q         0.325   0.215   0.210   0.532   0.387   0.354   0.220   0.040   0.022
146   Q        -0.741  -0.669  -0.723  -0.730  -0.586  -0.735  -0.759  -0.659  -0.714
147   S        -0.741  -0.763  -0.750  -0.571  -0.593  -0.606  -0.759  -0.781  -0.747
148   I         1.581   1.599   1.642   1.784   1.804   1.871   1.688   1.711   1.772
149   L         1.581   1.599   1.642   1.394   1.424   1.486   1.688   1.711   1.772
150   K        -0.741  -0.669  -0.723  -1.024  -0.948  -0.951  -0.759  -0.659  -0.714
151   D        -0.741  -0.775  -0.747  -0.458  -0.490  -0.452  -0.759  -0.795  -0.744
152   T        -0.741  -0.775  -0.747  -0.455  -0.504  -0.485  -0.759  -0.795  -0.744
153   V        -0.741  -0.658  -0.717  -1.128  -1.026  -1.059  -0.759  -0.644  -0.707
154   S        -0.741  -0.658  -0.717  -0.718  -0.579  -0.685  -0.759  -0.644  -0.707
155   T        -0.741  -0.763  -0.750  -0.885  -1.002  -0.924  -0.759  -0.781  -0.747
156   A        -1.515  -1.485  -1.433  -1.469  -1.365  -1.343  -1.249  -1.204  -1.123
157   N        -0.741  -0.763  -0.750  -1.063  -1.076  -1.009  -0.759  -0.781  -0.747
158   T        -0.873  -0.852  -0.794  -1.013  -1.034  -0.892  -0.923  -0.886  -0.801
159   D        -0.741  -0.763  -0.750  -0.771  -0.865  -0.844  -0.759  -0.781  -0.747
160   R        -0.741  -0.775  -0.747  -0.736  -0.758  -0.795  -0.759  -0.795  -0.744
161   S        -0.741  -0.775  -0.747  -0.928  -1.055  -0.971  -0.759  -0.795  -0.744
162   K        -0.741  -0.772  -0.750  -1.153  -1.154  -1.114  -0.759  -0.792  -0.748
163   R        -1.515  -1.485  -1.433  -1.516  -1.412  -1.389  -1.249  -1.204  -1.123
164   R        -0.741  -0.772  -0.750  -0.740  -0.752  -0.806  -0.759  -0.792  -0.748
165   R        -0.741  -0.772  -0.750  -0.727  -0.742  -0.791  -0.759  -0.792  -0.748
166   F        -1.515  -1.485  -1.433  -1.303  -1.353  -1.178  -1.249  -1.204  -1.123
167   K         1.581   1.599   1.642   1.002   1.018   1.099   1.688   1.711   1.772
168   R        -1.515  -1.485  -1.433  -1.383  -1.290  -1.257  -1.249  -1.204  -1.123
169   K         1.581   1.599   1.642   1.002   1.018   1.099   1.688   1.711   1.772
170   Q        -0.741  -0.772  -0.750  -0.438  -0.480  -0.449  -0.759  -0.792  -0.748
171   F         1.581   1.599   1.642   1.897   1.921   1.983   1.688   1.711   1.772
172   K         0.325   0.215   0.210  -0.117  -0.262  -0.238   0.220   0.040   0.022
173   E        -0.741  -0.772  -0.750  -0.687  -0.743  -0.701  -0.759  -0.792  -0.748
174   D        -0.741  -0.654  -0.715  -1.031  -0.936  -0.953  -0.759  -0.640  -0.704
175   I        -0.741  -0.763  -0.750  -0.653  -0.669  -0.630  -0.759  -0.781  -0.747
176   K        -1.515  -1.485  -1.433  -1.461  -1.369  -1.335  -1.249  -1.204  -1.123
177   E        -1.515  -1.485  -1.433  -1.687  -1.714  -1.558  -1.249  -1.204  -1.123
178   S         0.325   0.215   0.210   0.369   0.222   0.225   0.220   0.040   0.022
179   D        -0.873  -0.853  -0.794  -0.667  -0.607  -0.550  -0.923  -0.888  -0.801
180   F        -0.873  -0.853  -0.794  -0.864  -0.821  -0.745  -0.923  -0.888  -0.801
181   V         0.159   0.177   0.153   0.313   0.344   0.307  -0.052  -0.023  -0.074
182   K         0.159   0.174   0.151  -0.032  -0.005  -0.122  -0.052  -0.028  -0.079
183   D         1.581   1.599   1.642   1.590   1.618   1.680   1.688   1.711   1.772
184   H         1.581   1.599   1.642   1.860   1.887   1.946   1.688   1.711   1.772
185   R         0.325   0.215   0.210   0.461   0.296   0.253   0.220   0.040   0.022
186   Y         1.581   1.599   1.642   1.890   1.919   1.976   1.688   1.711   1.772
187   P         0.325   0.382   0.256   0.501   0.603   0.322   0.220   0.310   0.100
188   G         0.325   0.382   0.256   0.640   0.725   0.531   0.220   0.310   0.100
189   L         1.581   1.599   1.642   1.394   1.424   1.486   1.688   1.711   1.772
190   T         1.581   1.599   1.642   1.770   1.796   1.858   1.688   1.711   1.772
191   P         1.581   1.599   1.642   1.857   1.886   1.944   1.688   1.711   1.772
192   G         1.581   1.599   1.642   1.790   1.817   1.878   1.688   1.711   1.772
193   L         1.581   1.599   1.642   1.394   1.424   1.486   1.688   1.711   1.772
194   A         1.581   1.599   1.642   1.689   1.719   1.777   1.688   1.711   1.772
195   P         1.581   1.599   1.642   1.857   1.886   1.944   1.688   1.711   1.772
196   V         1.581   1.599   1.642   1.682   1.718   1.771   1.688   1.711   1.772
197   G         1.581   1.599   1.642   1.790   1.817   1.878   1.688   1.711   1.772
198   L         0.325   0.382   0.256   0.258   0.345   0.171   0.220   0.310   0.100
199   S         0.325   0.215   0.210   0.310   0.148   0.137   0.220   0.040   0.022
200   D         1.581   1.599   1.642   1.613   1.646   1.703   1.688   1.711   1.772
201   E         1.581   1.599   1.642   1.507   1.534   1.597   1.688   1.711   1.772
202   E         1.581   1.599   1.642   1.507   1.534   1.597   1.688   1.711   1.772
203   D         0.159   0.174   0.151   0.082   0.109   0.059  -0.052  -0.028  -0.079
204   S         1.581   1.599   1.642   1.516   1.543   1.607   1.688   1.711   1.772
205   S         0.325   0.382   0.256   0.277   0.360   0.167   0.220   0.310   0.100
206   E         0.325   0.404   0.257   0.414   0.541   0.298   0.220   0.344   0.100
207   E         0.033   0.055   0.109  -0.098  -0.047   0.025  -0.270  -0.232  -0.150
208   D         0.033   0.055   0.109  -0.098  -0.059   0.016  -0.270  -0.232  -0.150
209   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
210   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
211   -        -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/P40470
Output conservation file - output/P40470
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
