1     M         0.636   0.643   0.686   1.104   1.099   1.067   0.645   0.656   0.714
2     G         0.636   0.643   0.686   0.646   0.650   0.718   0.645   0.656   0.714
3     A         0.636   0.643   0.686   0.698   0.713   0.757   0.645   0.656   0.714
4     Y        -0.393  -0.483  -0.952  -0.109  -0.217  -0.948  -0.322  -0.437  -1.118
5     K         0.636   0.643   0.686   0.402   0.438   0.531   0.645   0.656   0.714
6     Y         0.636   0.643   0.686   0.710   0.720   0.767   0.645   0.656   0.714
7     L         0.636   0.643   0.686   0.651   0.651   0.721   0.645   0.656   0.714
8     E         0.636   0.643   0.686   0.887   0.890   0.901   0.645   0.656   0.714
9     E         0.636   0.643   0.686   0.887   0.890   0.901   0.645   0.656   0.714
10    L        -0.393  -0.591  -0.956  -0.138  -0.375  -0.883  -0.322  -0.579  -1.124
11    E        -2.754  -2.777  -2.654  -2.105  -2.190  -2.059  -2.379  -2.408  -2.114
12    R        -1.242  -1.266  -0.989  -2.189  -2.211  -1.637  -1.532  -1.579  -1.175
13    K         0.636   0.643   0.686   0.402   0.438   0.531   0.645   0.656   0.714
14    K         0.636   0.643   0.686   0.402   0.438   0.531   0.645   0.656   0.714
15    Q         0.636   0.643   0.686   0.853   0.858   0.876   0.645   0.656   0.714
16    S         0.636   0.643   0.686   0.761   0.766   0.805   0.645   0.656   0.714
17    D         0.636   0.643   0.686   0.978   0.976   0.971   0.645   0.656   0.714
18    V         0.636   0.643   0.686   0.625   0.635   0.701   0.645   0.656   0.714
19    L        -3.119  -3.098  -2.662  -2.709  -2.718  -2.160  -2.742  -2.690  -2.121
20    R        -0.927  -0.968  -0.963  -1.593  -1.639  -1.482  -1.048  -1.114  -1.135
21    F         0.636   0.643   0.686   1.035   1.034   1.014   0.645   0.656   0.714
22    L         0.636   0.643   0.686   0.651   0.651   0.721   0.645   0.656   0.714
23    Q        -3.857  -3.715  -3.202  -3.261  -3.164  -2.501  -3.105  -2.973  -2.311
24    R         0.636   0.643   0.686  -0.090  -0.054   0.156   0.645   0.656   0.714
25    V         0.636   0.643   0.686   0.625   0.635   0.701   0.645   0.656   0.714
26    R         0.636   0.643   0.686  -0.090  -0.054   0.156   0.645   0.656   0.714
27    V        -2.494  -2.360  -1.957  -2.210  -1.991  -1.595  -2.500  -2.325  -1.794
28    W         0.636   0.643   0.686   0.986   0.985   0.977   0.645   0.656   0.714
29    E         0.636   0.643   0.686   0.887   0.890   0.901   0.645   0.656   0.714
30    Y        -0.393  -0.483  -0.952  -0.109  -0.217  -0.948  -0.322  -0.437  -1.118
31    R         0.636   0.643   0.686  -0.090  -0.054   0.156   0.645   0.656   0.714
32    Q         0.636   0.643   0.686   0.853   0.858   0.876   0.645   0.656   0.714
33    K        -1.868  -1.975  -1.953  -1.728  -1.844  -1.779  -1.774  -1.893  -1.790
34    N        -0.927  -1.023  -0.984  -0.732  -0.887  -0.899  -1.048  -1.198  -1.168
35    V        -0.393  -0.591  -0.956  -0.195  -0.435  -1.011  -0.322  -0.579  -1.124
36    I         0.636   0.643   0.686   0.891   0.885   0.904   0.645   0.656   0.714
37    H         0.636   0.643   0.686   0.899   0.894   0.911   0.645   0.656   0.714
38    R         0.636   0.643   0.686  -0.090  -0.054   0.156   0.645   0.656   0.714
39    A         0.636   0.643   0.686   0.698   0.713   0.757   0.645   0.656   0.714
40    A        -0.393  -0.209  -0.946  -0.053   0.138  -0.883  -0.322  -0.100  -1.108
41    R         0.636   0.643   0.686  -0.090  -0.054   0.156   0.645   0.656   0.714
42    P         0.636   0.643   0.686   0.887   0.884   0.901   0.645   0.656   0.714
43    T        -0.927  -0.704  -0.958  -0.695  -0.407  -0.836  -1.048  -0.733  -1.128
44    R         0.636   0.643   0.686  -0.090  -0.054   0.156   0.645   0.656   0.714
45    P         0.636   0.643   0.686   0.887   0.884   0.901   0.645   0.656   0.714
46    D         0.636   0.643   0.686   0.978   0.976   0.971   0.645   0.656   0.714
47    K         0.636   0.643   0.686   0.402   0.438   0.531   0.645   0.656   0.714
48    A         0.636   0.643   0.686   0.698   0.713   0.757   0.645   0.656   0.714
49    R         0.636   0.643   0.686  -0.090  -0.054   0.156   0.645   0.656   0.714
50    R         0.636   0.643   0.686  -0.090  -0.054   0.156   0.645   0.656   0.714
51    L        -0.393  -0.174  -0.946  -0.111   0.094  -0.774  -0.322  -0.060  -1.108
52    G         0.636   0.643   0.686   0.646   0.650   0.718   0.645   0.656   0.714
53    Y         0.636   0.643   0.686   0.710   0.720   0.767   0.645   0.656   0.714
54    K         0.636   0.643   0.686   0.402   0.438   0.531   0.645   0.656   0.714
55    A         0.636   0.643   0.686   0.698   0.713   0.757   0.645   0.656   0.714
56    K         0.636   0.643   0.686   0.402   0.438   0.531   0.645   0.656   0.714
57    Q         0.636   0.643   0.686   0.853   0.858   0.876   0.645   0.656   0.714
58    G         0.636   0.643   0.686   0.646   0.650   0.718   0.645   0.656   0.714
59    F        -1.242  -1.266  -0.989  -0.991  -1.081  -0.798  -1.532  -1.579  -1.175
60    V         0.636   0.643   0.686   0.625   0.635   0.701   0.645   0.656   0.714
61    I         0.636   0.643   0.686   0.891   0.885   0.904   0.645   0.656   0.714
62    Y         0.636   0.643   0.686   0.710   0.720   0.767   0.645   0.656   0.714
63    R         0.636   0.643   0.686  -0.090  -0.054   0.156   0.645   0.656   0.714
64    V        -2.128  -2.148  -1.961  -1.969  -1.993  -1.735  -2.137  -2.131  -1.799
65    R         0.636   0.643   0.686  -0.090  -0.054   0.156   0.645   0.656   0.714
66    V         0.636   0.643   0.686   0.625   0.635   0.701   0.645   0.656   0.714
67    R         0.636   0.643   0.686  -0.090  -0.054   0.156   0.645   0.656   0.714
68    R         0.636   0.643   0.686  -0.090  -0.054   0.156   0.645   0.656   0.714
69    G         0.636   0.643   0.686   0.646   0.650   0.718   0.645   0.656   0.714
70    N        -1.391  -1.305  -0.989  -1.598  -1.477  -1.015  -1.774  -1.643  -1.175
71    R         0.636   0.643   0.686  -0.090  -0.054   0.156   0.645   0.656   0.714
72    K         0.636   0.643   0.686   0.402   0.438   0.531   0.645   0.656   0.714
73    R        -0.393  -0.483  -0.952  -0.949  -1.032  -1.600  -0.322  -0.437  -1.118
74    P         0.636   0.643   0.686   0.887   0.884   0.901   0.645   0.656   0.714
75    V        -1.381  -1.546  -1.945  -0.985  -1.192  -1.779  -1.169  -1.363  -1.781
76    P        -1.381  -1.420  -1.941  -0.765  -0.863  -1.742  -1.169  -1.229  -1.777
77    K         0.636   0.643   0.686   0.402   0.438   0.531   0.645   0.656   0.714
78    G         0.636   0.643   0.686   0.646   0.650   0.718   0.645   0.656   0.714
79    A        -0.927  -0.968  -0.963  -0.756  -0.819  -0.882  -1.048  -1.114  -1.135
80    T         0.636   0.643   0.686   0.849   0.858   0.873   0.645   0.656   0.714
81    Y         0.636   0.643   0.686   0.710   0.720   0.767   0.645   0.656   0.714
82    G         0.636   0.643   0.686   0.646   0.650   0.718   0.645   0.656   0.714
83    K         0.636   0.643   0.686   0.402   0.438   0.531   0.645   0.656   0.714
84    P         0.636   0.643   0.686   0.887   0.884   0.901   0.645   0.656   0.714
85    T        -1.242  -1.236  -0.989  -1.197  -1.218  -0.949  -1.532  -1.530  -1.175
86    N        -0.927  -0.968  -0.963  -0.718  -0.793  -0.845  -1.048  -1.114  -1.135
87    Q        -0.393  -0.370  -0.950   0.064   0.082  -0.744  -0.322  -0.293  -1.116
88    G         0.636   0.643   0.686   0.646   0.650   0.718   0.645   0.656   0.714
89    V        -0.393  -0.591  -0.956  -0.164  -0.391  -0.899  -0.322  -0.579  -1.124
90    N         0.636   0.643   0.686   0.723   0.729   0.776   0.645   0.656   0.714
91    E        -2.299  -2.121  -1.952  -1.884  -1.671  -1.533  -2.258  -2.049  -1.789
92    L         0.636   0.643   0.686   0.651   0.651   0.721   0.645   0.656   0.714
93    K         0.636   0.643   0.686   0.402   0.438   0.531   0.645   0.656   0.714
94    Y        -0.393  -0.591  -0.956  -0.109  -0.349  -0.954  -0.322  -0.579  -1.124
95    Q         0.636   0.643   0.686   0.853   0.858   0.876   0.645   0.656   0.714
96    R        -0.393  -0.224  -0.946  -0.949  -0.732  -1.592  -0.322  -0.118  -1.110
97    S        -0.393  -0.370  -0.950  -0.053  -0.032  -0.891  -0.322  -0.293  -1.116
98    L        -0.927  -0.968  -0.963  -0.845  -0.926  -0.984  -1.048  -1.114  -1.135
99    R        -0.393  -0.483  -0.952  -0.949  -1.032  -1.600  -0.322  -0.437  -1.118
100   A        -2.299  -2.279  -1.962  -1.989  -1.970  -1.595  -2.258  -2.229  -1.799
101   T        -0.393  -0.591  -0.956   0.026  -0.216  -0.877  -0.322  -0.579  -1.124
102   A         0.636   0.643   0.686   0.698   0.713   0.757   0.645   0.656   0.714
103   E         0.636   0.643   0.686   0.887   0.890   0.901   0.645   0.656   0.714
104   E         0.636   0.643   0.686   0.887   0.890   0.901   0.645   0.656   0.714
105   R         0.636   0.643   0.686  -0.090  -0.054   0.156   0.645   0.656   0.714
106   V         0.636   0.643   0.686   0.625   0.635   0.701   0.645   0.656   0.714
107   G         0.636   0.643   0.686   0.646   0.650   0.718   0.645   0.656   0.714
108   R         0.636   0.643   0.686  -0.090  -0.054   0.156   0.645   0.656   0.714
109   R        -0.927  -0.968  -0.963  -1.574  -1.614  -1.450  -1.048  -1.114  -1.135
110   A        -1.242  -1.266  -0.989  -1.114  -1.153  -0.783  -1.532  -1.579  -1.175
111   A        -2.128  -2.189  -1.959  -1.961  -2.023  -1.775  -2.137  -2.155  -1.797
112   N         0.636   0.643   0.686   0.723   0.729   0.776   0.645   0.656   0.714
113   L         0.636   0.643   0.686   0.651   0.651   0.721   0.645   0.656   0.714
114   R         0.636   0.643   0.686  -0.090  -0.054   0.156   0.645   0.656   0.714
115   V         0.636   0.643   0.686   0.625   0.635   0.701   0.645   0.656   0.714
116   L         0.636   0.643   0.686   0.651   0.651   0.721   0.645   0.656   0.714
117   N         0.636   0.643   0.686   0.723   0.729   0.776   0.645   0.656   0.714
118   S         0.636   0.643   0.686   0.761   0.766   0.805   0.645   0.656   0.714
119   Y         0.636   0.643   0.686   0.710   0.720   0.767   0.645   0.656   0.714
120   W         0.636   0.643   0.686   0.986   0.985   0.977   0.645   0.656   0.714
121   V        -0.927  -0.884  -0.979  -0.816  -0.769  -0.929  -1.048  -0.991  -1.160
122   N         0.636   0.643   0.686   0.723   0.729   0.776   0.645   0.656   0.714
123   Q        -0.393  -0.370  -0.950   0.063   0.082  -0.749  -0.322  -0.293  -1.116
124   D         0.636   0.643   0.686   0.978   0.976   0.971   0.645   0.656   0.714
125   S        -0.927  -0.968  -0.963  -0.738  -0.815  -0.914  -1.048  -1.114  -1.135
126   T         0.636   0.643   0.686   0.849   0.858   0.873   0.645   0.656   0.714
127   Y         0.636   0.643   0.686   0.710   0.720   0.767   0.645   0.656   0.714
128   K         0.636   0.643   0.686   0.402   0.438   0.531   0.645   0.656   0.714
129   Y        -0.927  -0.968  -0.963  -0.692  -0.756  -0.789  -1.048  -1.114  -1.135
130   F         0.636   0.643   0.686   1.035   1.034   1.014   0.645   0.656   0.714
131   E         0.636   0.643   0.686   0.887   0.890   0.901   0.645   0.656   0.714
132   V         0.636   0.643   0.686   0.625   0.635   0.701   0.645   0.656   0.714
133   I         0.636   0.643   0.686   0.891   0.885   0.904   0.645   0.656   0.714
134   L         0.636   0.643   0.686   0.651   0.651   0.721   0.645   0.656   0.714
135   V        -0.393  -0.370  -0.950  -0.195  -0.171  -1.000  -0.322  -0.293  -1.116
136   D         0.636   0.643   0.686   0.978   0.976   0.971   0.645   0.656   0.714
137   P         0.636   0.643   0.686   0.887   0.884   0.901   0.645   0.656   0.714
138   Q        -0.927  -0.872  -0.978  -0.694  -0.633  -0.866  -1.048  -0.973  -1.159
139   H         0.636   0.643   0.686   0.899   0.894   0.911   0.645   0.656   0.714
140   K        -0.393  -0.591  -0.956  -0.421  -0.634  -1.166  -0.322  -0.579  -1.124
141   A        -0.393  -0.591  -0.956  -0.125  -0.359  -0.974  -0.322  -0.579  -1.124
142   I         0.636   0.643   0.686   0.891   0.885   0.904   0.645   0.656   0.714
143   R         0.636   0.643   0.686  -0.090  -0.054   0.156   0.645   0.656   0.714
144   R        -0.393  -0.591  -0.956  -0.904  -1.111  -1.438  -0.322  -0.579  -1.124
145   D         0.636   0.643   0.686   0.978   0.976   0.971   0.645   0.656   0.714
146   A        -1.391  -1.339  -0.988  -1.452  -1.365  -0.888  -1.774  -1.699  -1.174
147   R        -0.393  -0.232  -0.946  -0.949  -0.741  -1.592  -0.322  -0.127  -1.110
148   Y        -1.391  -1.339  -0.988  -1.439  -1.360  -0.879  -1.774  -1.699  -1.174
149   N         0.636   0.643   0.686   0.723   0.729   0.776   0.645   0.656   0.714
150   W         0.636   0.643   0.686   0.986   0.985   0.977   0.645   0.656   0.714
151   I         0.636   0.643   0.686   0.891   0.885   0.904   0.645   0.656   0.714
152   C        -2.211  -2.129  -1.961  -1.916  -1.841  -1.628  -2.258  -2.148  -1.799
153   N         0.636   0.643   0.686   0.723   0.729   0.776   0.645   0.656   0.714
154   P         0.636   0.643   0.686   0.887   0.884   0.901   0.645   0.656   0.714
155   V         0.636   0.643   0.686   0.625   0.635   0.701   0.645   0.656   0.714
156   H         0.636   0.643   0.686   0.899   0.894   0.911   0.645   0.656   0.714
157   K         0.636   0.643   0.686   0.402   0.438   0.531   0.645   0.656   0.714
158   H         0.636   0.643   0.686   0.899   0.894   0.911   0.645   0.656   0.714
159   R         0.636   0.643   0.686  -0.090  -0.054   0.156   0.645   0.656   0.714
160   E         0.636   0.643   0.686   0.887   0.890   0.901   0.645   0.656   0.714
161   A        -1.391  -1.339  -0.988  -1.533  -1.457  -0.961  -1.774  -1.699  -1.174
162   R         0.636   0.643   0.686  -0.090  -0.054   0.156   0.645   0.656   0.714
163   G         0.636   0.643   0.686   0.646   0.650   0.718   0.645   0.656   0.714
164   L         0.636   0.643   0.686   0.651   0.651   0.721   0.645   0.656   0.714
165   T         0.636   0.643   0.686   0.849   0.858   0.873   0.645   0.656   0.714
166   A        -1.391  -1.305  -0.989  -1.522  -1.390  -0.962  -1.774  -1.643  -1.175
167   T        -2.299  -2.327  -1.962  -1.957  -2.031  -1.637  -2.258  -2.286  -1.800
168   G         0.636   0.643   0.686   0.646   0.650   0.718   0.645   0.656   0.714
169   K         0.636   0.643   0.686   0.402   0.438   0.531   0.645   0.656   0.714
170   K        -0.393  -0.483  -0.952  -0.510  -0.607  -1.494  -0.322  -0.437  -1.118
171   S        -0.393  -0.591  -0.956  -0.049  -0.290  -0.889  -0.322  -0.579  -1.124
172   R         0.636   0.643   0.686  -0.090  -0.054   0.156   0.645   0.656   0.714
173   G         0.636   0.643   0.686   0.646   0.650   0.718   0.645   0.656   0.714
174   I        -0.393  -0.483  -0.952   0.071  -0.053  -0.831  -0.322  -0.437  -1.118
175   N        -0.927  -0.968  -0.963  -0.789  -0.871  -0.962  -1.048  -1.114  -1.135
176   K         0.636   0.643   0.686   0.402   0.438   0.531   0.645   0.656   0.714
177   G         0.636   0.643   0.686   0.646   0.650   0.718   0.645   0.656   0.714
178   H         0.636   0.643   0.686   0.899   0.894   0.911   0.645   0.656   0.714
179   K        -2.494  -2.360  -1.967  -3.344  -3.143  -2.385  -2.500  -2.338  -1.804
180   F        -1.391  -1.347  -0.991  -1.296  -1.272  -0.813  -1.774  -1.711  -1.179
181   N        -1.868  -1.703  -1.951  -1.460  -1.314  -1.613  -1.774  -1.621  -1.788
182   N        -0.927  -0.880  -0.977  -0.856  -0.796  -1.106  -1.048  -0.985  -1.156
183   T        -0.927  -0.968  -0.963  -0.635  -0.711  -0.830  -1.048  -1.114  -1.135
184   K        -3.574  -3.631  -3.203  -3.332  -3.444  -2.905  -2.863  -2.891  -2.312
185   A         0.636   0.643   0.686   0.688   0.707   0.749   0.645   0.656   0.714
186   G         0.636   0.643   0.686   0.655   0.657   0.724   0.645   0.656   0.714
187   R        -0.927  -0.968  -0.963  -1.527  -1.563  -1.374  -1.048  -1.114  -1.135
188   R        -0.927  -0.968  -0.963  -1.512  -1.549  -1.350  -1.048  -1.114  -1.135
189   K        -2.494  -2.460  -1.964  -2.595  -2.523  -1.834  -2.500  -2.446  -1.802
190   T         0.636   0.643   0.686   0.849   0.858   0.873   0.645   0.656   0.714
191   W         0.636   0.643   0.686   0.986   0.985   0.977   0.645   0.656   0.714
192   K        -0.927  -0.968  -0.963  -1.103  -1.154  -1.164  -1.048  -1.114  -1.135
193   R        -1.381  -1.413  -1.941  -1.774  -1.802  -2.378  -1.169  -1.222  -1.777
194   Q        -2.128  -2.054  -1.957  -1.749  -1.673  -1.599  -2.137  -2.039  -1.795
195   N         0.636   0.643   0.686   0.723   0.729   0.776   0.645   0.656   0.714
196   T         0.636   0.643   0.686   0.849   0.858   0.873   0.645   0.656   0.714
197   L         0.636   0.643   0.686   0.651   0.651   0.721   0.645   0.656   0.714
198   S         0.636   0.643   0.686   0.761   0.766   0.805   0.645   0.656   0.714
199   L         0.636   0.643   0.686   0.651   0.651   0.721   0.645   0.656   0.714
200   W        -0.927  -0.968  -0.963  -0.721  -0.831  -1.118  -1.048  -1.114  -1.135
201   R         0.636   0.643   0.686  -0.090  -0.054   0.156   0.645   0.656   0.714
202   Y         0.636   0.643   0.686   0.710   0.720   0.767   0.645   0.656   0.714
203   R         0.636   0.643   0.686  -0.090  -0.054   0.156   0.645   0.656   0.714
204   K        -1.350  -1.340  -0.991  -1.718  -1.689  -1.127  -1.706  -1.700  -1.179
* 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/P54780
Output conservation file - output/P54780
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
