1     M         0.811   0.817   0.823   1.044   1.049   1.051   0.833   0.838   0.845
2     G         0.811   0.817   0.823   0.767   0.774   0.789   0.833   0.838   0.845
3     N         0.811   0.817   0.823   0.837   0.855   0.856   0.833   0.838   0.845
4     S         0.811   0.817   0.823   0.826   0.837   0.845   0.833   0.838   0.845
5     I        -1.952  -1.904  -1.856  -1.797  -1.699  -1.637  -1.758  -1.688  -1.614
6     S         0.811   0.817   0.823   0.826   0.837   0.845   0.833   0.838   0.845
7     K         0.811   0.817   0.823   0.623   0.641   0.653   0.833   0.838   0.845
8     V        -0.790  -0.863  -0.856  -0.822  -0.940  -0.914  -0.895  -0.996  -0.982
9     L         0.811   0.817   0.823   0.426   0.438   0.466   0.833   0.838   0.845
10    G        -0.790  -0.863  -0.856  -0.833  -0.947  -0.917  -0.895  -0.996  -0.982
11    K         0.811   0.817   0.823   0.623   0.641   0.653   0.833   0.838   0.845
12    L         0.811   0.817   0.823   0.426   0.438   0.466   0.833   0.838   0.845
13    F         0.811   0.817   0.823   1.022   1.028   1.030   0.833   0.838   0.845
14    G         0.811   0.817   0.823   0.767   0.774   0.789   0.833   0.838   0.845
15    S        -0.790  -0.728  -0.837  -0.790  -0.687  -0.857  -0.895  -0.795  -0.953
16    K        -0.790  -0.694  -0.833  -0.737  -0.568  -0.853  -0.895  -0.746  -0.948
17    E         0.811   0.817   0.823   0.849   0.859   0.867   0.833   0.838   0.845
18    M        -0.790  -0.863  -0.856  -0.455  -0.560  -0.542  -0.895  -0.996  -0.982
19    K        -0.790  -0.863  -0.856  -0.920  -1.012  -0.965  -0.895  -0.996  -0.982
20    I         0.811   0.817   0.823   0.907   0.913   0.922   0.833   0.838   0.845
21    L         0.811   0.817   0.823   0.426   0.438   0.466   0.833   0.838   0.845
22    M         0.811   0.817   0.823   1.044   1.049   1.051   0.833   0.838   0.845
23    L         0.811   0.817   0.823   0.426   0.438   0.466   0.833   0.838   0.845
24    G         0.811   0.817   0.823   0.767   0.774   0.789   0.833   0.838   0.845
25    L         0.811   0.817   0.823   0.426   0.438   0.466   0.833   0.838   0.845
26    D         0.811   0.817   0.823   0.976   0.974   0.987   0.833   0.838   0.845
27    K        -1.952  -1.904  -1.856  -2.012  -1.895  -1.841  -1.758  -1.688  -1.614
28    A         0.811   0.817   0.823   0.930   0.933   0.944   0.833   0.838   0.845
29    G         0.811   0.817   0.823   0.767   0.774   0.789   0.833   0.838   0.845
30    K         0.811   0.817   0.823   0.623   0.641   0.653   0.833   0.838   0.845
31    T         0.811   0.817   0.823   0.907   0.910   0.922   0.833   0.838   0.845
32    T         0.811   0.817   0.823   0.907   0.910   0.922   0.833   0.838   0.845
33    I         0.811   0.817   0.823   0.907   0.913   0.922   0.833   0.838   0.845
34    L         0.811   0.817   0.823   0.426   0.438   0.466   0.833   0.838   0.845
35    Y         0.811   0.817   0.823   1.145   1.149   1.147   0.833   0.838   0.845
36    K         0.811   0.817   0.823   0.623   0.641   0.653   0.833   0.838   0.845
37    L         0.811   0.817   0.823   0.426   0.438   0.466   0.833   0.838   0.845
38    K         0.811   0.817   0.823   0.623   0.641   0.653   0.833   0.838   0.845
39    L         0.811   0.817   0.823   0.426   0.438   0.466   0.833   0.838   0.845
40    N         0.811   0.817   0.823   0.837   0.855   0.856   0.833   0.838   0.845
41    K        -0.790  -0.863  -0.856  -0.904  -0.984  -0.943  -0.895  -0.996  -0.982
42    I        -0.790  -0.863  -0.856  -0.779  -0.919  -0.913  -0.895  -0.996  -0.982
43    K        -0.790  -0.863  -0.856  -0.976  -1.073  -1.040  -0.895  -0.996  -0.982
44    T        -0.790  -0.863  -0.856  -0.753  -0.886  -0.877  -0.895  -0.996  -0.982
45    S        -0.790  -0.863  -0.856  -0.790  -0.907  -0.888  -0.895  -0.996  -0.982
46    T        -1.952  -1.904  -1.856  -1.867  -1.807  -1.703  -1.758  -1.688  -1.614
47    P         0.811   0.817   0.823   1.078   1.086   1.083   0.833   0.838   0.845
48    T         0.811   0.817   0.823   0.907   0.910   0.922   0.833   0.838   0.845
49    V         0.811   0.817   0.823   0.790   0.796   0.811   0.833   0.838   0.845
50    G         0.811   0.817   0.823   0.767   0.774   0.789   0.833   0.838   0.845
51    F         0.811   0.817   0.823   1.022   1.028   1.030   0.833   0.838   0.845
52    N         0.811   0.817   0.823   0.837   0.855   0.856   0.833   0.838   0.845
53    V         0.811   0.817   0.823   0.790   0.796   0.811   0.833   0.838   0.845
54    E         0.811   0.817   0.823   0.849   0.859   0.867   0.833   0.838   0.845
55    T        -0.790  -0.863  -0.856  -0.769  -0.909  -0.898  -0.895  -0.996  -0.982
56    V        -0.790  -0.694  -0.833  -1.218  -1.063  -1.242  -0.895  -0.746  -0.948
57    T        -0.790  -0.728  -0.837  -0.753  -0.649  -0.840  -0.895  -0.795  -0.953
58    Y        -0.790  -0.728  -0.837  -0.450  -0.351  -0.546  -0.895  -0.795  -0.953
59    K         0.811   0.817   0.823   0.623   0.641   0.653   0.833   0.838   0.845
60    N         0.811   0.817   0.823   0.837   0.855   0.856   0.833   0.838   0.845
61    V        -0.790  -0.863  -0.856  -0.822  -0.940  -0.914  -0.895  -0.996  -0.982
62    K         0.811   0.817   0.823   0.623   0.641   0.653   0.833   0.838   0.845
63    F         0.811   0.817   0.823   1.022   1.028   1.030   0.833   0.838   0.845
64    N         0.811   0.817   0.823   0.837   0.855   0.856   0.833   0.838   0.845
65    M        -0.790  -0.863  -0.856  -0.642  -0.789  -0.794  -0.895  -0.996  -0.982
66    W         0.811   0.817   0.823   1.101   1.106   1.105   0.833   0.838   0.845
67    D         0.811   0.817   0.823   0.976   0.974   0.987   0.833   0.838   0.845
68    V         0.811   0.817   0.823   0.790   0.796   0.811   0.833   0.838   0.845
69    G         0.811   0.817   0.823   0.767   0.774   0.789   0.833   0.838   0.845
70    G         0.811   0.817   0.823   0.767   0.774   0.789   0.833   0.838   0.845
71    Q         0.811   0.817   0.823   1.056   1.062   1.062   0.833   0.838   0.845
72    Q        -1.952  -1.904  -1.856  -1.667  -1.602  -1.514  -1.758  -1.688  -1.614
73    R        -0.790  -0.863  -0.856  -0.737  -0.903  -0.912  -0.895  -0.996  -0.982
74    L        -0.790  -0.863  -0.856  -1.159  -1.249  -1.189  -0.895  -0.996  -0.982
75    R         0.811   0.817   0.823   1.022   1.016   1.030   0.833   0.838   0.845
76    P         0.811   0.817   0.823   1.078   1.086   1.083   0.833   0.838   0.845
77    L         0.811   0.817   0.823   0.426   0.438   0.466   0.833   0.838   0.845
78    W         0.811   0.817   0.823   1.101   1.106   1.105   0.833   0.838   0.845
79    R         0.811   0.817   0.823   1.022   1.016   1.030   0.833   0.838   0.845
80    H         0.811   0.817   0.823   1.179   1.178   1.178   0.833   0.838   0.845
81    Y         0.811   0.817   0.823   1.145   1.149   1.147   0.833   0.838   0.845
82    F         0.811   0.817   0.823   1.022   1.028   1.030   0.833   0.838   0.845
83    P        -0.790  -0.863  -0.856  -0.560  -0.696  -0.699  -0.895  -0.996  -0.982
84    A        -0.790  -0.863  -0.856  -0.758  -0.901  -0.895  -0.895  -0.996  -0.982
85    T         0.811   0.817   0.823   0.907   0.910   0.922   0.833   0.838   0.845
86    T        -1.952  -1.904  -1.856  -1.896  -1.817  -1.730  -1.758  -1.688  -1.614
87    A        -0.790  -0.863  -0.856  -0.758  -0.901  -0.895  -0.895  -0.996  -0.982
88    L         0.811   0.817   0.823   0.426   0.438   0.466   0.833   0.838   0.845
89    I         0.811   0.817   0.823   0.907   0.913   0.922   0.833   0.838   0.845
90    F         0.811   0.817   0.823   1.022   1.028   1.030   0.833   0.838   0.845
91    V         0.811   0.817   0.823   0.790   0.796   0.811   0.833   0.838   0.845
92    I        -0.790  -0.863  -0.856  -0.769  -0.906  -0.898  -0.895  -0.996  -0.982
93    D         0.811   0.817   0.823   0.976   0.974   0.987   0.833   0.838   0.845
94    S         0.811   0.817   0.823   0.826   0.837   0.845   0.833   0.838   0.845
95    S        -1.952  -1.904  -1.856  -1.888  -1.792  -1.723  -1.758  -1.688  -1.614
96    A        -0.790  -0.694  -0.833  -0.642  -0.496  -0.720  -0.895  -0.746  -0.948
97    R        -0.790  -0.728  -0.837  -0.737  -0.629  -0.861  -0.895  -0.795  -0.953
98    N        -1.952  -1.904  -1.856  -1.874  -1.780  -1.710  -1.758  -1.688  -1.614
99    R         0.811   0.817   0.823   1.022   1.016   1.030   0.833   0.838   0.845
100   M        -1.952  -1.904  -1.856  -2.012  -1.919  -1.841  -1.758  -1.688  -1.614
101   E        -0.790  -0.694  -0.833  -0.679  -0.525  -0.765  -0.895  -0.746  -0.948
102   E        -0.790  -0.728  -0.837  -0.700  -0.602  -0.753  -0.895  -0.795  -0.953
103   A         0.811   0.817   0.823   0.930   0.933   0.944   0.833   0.838   0.845
104   K        -0.790  -0.863  -0.856  -0.920  -1.012  -0.965  -0.895  -0.996  -0.982
105   E        -0.790  -0.863  -0.856  -0.700  -0.802  -0.778  -0.895  -0.996  -0.982
106   E         0.811   0.817   0.823   0.849   0.859   0.867   0.833   0.838   0.845
107   L         0.811   0.817   0.823   0.426   0.438   0.466   0.833   0.838   0.845
108   Y        -1.952  -1.904  -1.856  -1.446  -1.369  -1.305  -1.758  -1.688  -1.614
109   S        -0.790  -0.863  -0.856  -0.737  -0.847  -0.816  -0.895  -0.996  -0.982
110   I         0.811   0.817   0.823   0.907   0.913   0.922   0.833   0.838   0.845
111   I         0.811   0.817   0.823   0.907   0.913   0.922   0.833   0.838   0.845
112   G        -0.790  -0.863  -0.856  -0.876  -0.993  -0.976  -0.895  -0.996  -0.982
113   E        -0.790  -0.863  -0.856  -0.737  -0.852  -0.827  -0.895  -0.996  -0.982
114   K        -0.790  -0.863  -0.856  -0.920  -1.012  -0.965  -0.895  -0.996  -0.982
115   E         0.811   0.817   0.823   0.849   0.859   0.867   0.833   0.838   0.845
116   M         0.811   0.817   0.823   1.044   1.049   1.051   0.833   0.838   0.845
117   E        -0.790  -0.863  -0.856  -0.898  -1.041  -1.047  -0.895  -0.996  -0.982
118   N        -1.952  -1.904  -1.856  -1.983  -1.870  -1.813  -1.758  -1.688  -1.614
119   V         0.811   0.817   0.823   0.790   0.796   0.811   0.833   0.838   0.845
120   V        -0.790  -0.863  -0.856  -1.044  -1.213  -1.216  -0.895  -0.996  -0.982
121   L         0.811   0.817   0.823   0.426   0.438   0.466   0.833   0.838   0.845
122   L         0.811   0.817   0.823   0.426   0.438   0.466   0.833   0.838   0.845
123   V         0.811   0.817   0.823   0.790   0.796   0.811   0.833   0.838   0.845
124   W        -1.952  -1.904  -1.856  -1.903  -1.802  -1.737  -1.758  -1.688  -1.614
125   A         0.811   0.817   0.823   0.930   0.933   0.944   0.833   0.838   0.845
126   N         0.811   0.817   0.823   0.837   0.855   0.856   0.833   0.838   0.845
127   K         0.811   0.817   0.823   0.623   0.641   0.653   0.833   0.838   0.845
128   Q         0.811   0.817   0.823   1.056   1.062   1.062   0.833   0.838   0.845
129   D         0.811   0.817   0.823   0.976   0.974   0.987   0.833   0.838   0.845
130   L         0.811   0.817   0.823   0.426   0.438   0.466   0.833   0.838   0.845
131   K        -0.790  -0.728  -0.837  -0.893  -0.792  -0.914  -0.895  -0.795  -0.953
132   D        -1.952  -1.904  -1.856  -1.888  -1.817  -1.723  -1.758  -1.688  -1.614
133   A         0.811   0.817   0.823   0.930   0.933   0.944   0.833   0.838   0.845
134   M        -0.790  -0.728  -0.837  -0.801  -0.676  -0.951  -0.895  -0.795  -0.953
135   K        -1.952  -1.904  -1.856  -1.860  -1.722  -1.696  -1.758  -1.688  -1.614
136   P         0.811   0.817   0.823   1.078   1.086   1.083   0.833   0.838   0.845
137   Q        -1.952  -1.904  -1.856  -1.932  -1.880  -1.764  -1.758  -1.688  -1.614
138   E         0.811   0.817   0.823   0.849   0.859   0.867   0.833   0.838   0.845
139   V         0.811   0.817   0.823   0.790   0.796   0.811   0.833   0.838   0.845
140   S        -0.790  -0.863  -0.856  -0.790  -0.907  -0.888  -0.895  -0.996  -0.982
141   D        -0.790  -0.863  -0.856  -0.679  -0.819  -0.811  -0.895  -0.996  -0.982
142   F        -0.790  -0.863  -0.856  -0.737  -0.892  -0.912  -0.895  -0.996  -0.982
143   L         0.811   0.817   0.823   0.426   0.438   0.466   0.833   0.838   0.845
144   E        -0.790  -0.694  -0.833  -0.606  -0.442  -0.702  -0.895  -0.746  -0.948
145   L         0.811   0.817   0.823   0.426   0.438   0.466   0.833   0.838   0.845
146   E        -0.933  -0.915  -0.867  -1.107  -1.074  -0.984  -1.110  -1.075  -0.999
147   K        -1.952  -1.904  -1.856  -2.065  -1.952  -1.890  -1.758  -1.688  -1.614
148   N        -0.790  -0.863  -0.856  -0.817  -0.934  -0.930  -0.895  -0.996  -0.982
149   L         0.811   0.817   0.823   0.426   0.438   0.466   0.833   0.838   0.845
150   K         0.811   0.817   0.823   0.623   0.641   0.653   0.833   0.838   0.845
151   N        -0.790  -0.863  -0.856  -0.844  -0.969  -0.966  -0.895  -0.996  -0.982
152   Q        -0.790  -0.863  -0.856  -0.530  -0.658  -0.647  -0.895  -0.996  -0.982
153   P        -1.952  -1.904  -1.856  -1.990  -1.901  -1.820  -1.758  -1.688  -1.614
154   W         0.811   0.817   0.823   1.101   1.106   1.105   0.833   0.838   0.845
155   C        -0.790  -0.728  -0.837  -0.475  -0.369  -0.600  -0.895  -0.795  -0.953
156   V         0.811   0.817   0.823   0.790   0.796   0.811   0.833   0.838   0.845
157   I        -0.790  -0.863  -0.856  -0.769  -0.906  -0.898  -0.895  -0.996  -0.982
158   G        -0.790  -0.863  -0.856  -0.833  -0.947  -0.917  -0.895  -0.996  -0.982
159   S         0.811   0.817   0.823   0.826   0.837   0.845   0.833   0.838   0.845
160   N        -0.790  -0.863  -0.856  -0.779  -0.892  -0.879  -0.895  -0.996  -0.982
161   A         0.811   0.817   0.823   0.930   0.933   0.944   0.833   0.838   0.845
162   L        -0.790  -0.863  -0.856  -1.302  -1.419  -1.381  -0.895  -0.996  -0.982
163   S        -0.790  -0.694  -0.833  -0.753  -0.594  -0.833  -0.895  -0.746  -0.948
164   G         0.811   0.817   0.823   0.767   0.774   0.789   0.833   0.838   0.845
165   Q        -0.790  -0.863  -0.856  -0.606  -0.744  -0.751  -0.895  -0.996  -0.982
166   G         0.811   0.817   0.823   0.767   0.774   0.789   0.833   0.838   0.845
167   L         0.811   0.817   0.823   0.426   0.438   0.466   0.833   0.838   0.845
168   V        -0.790  -0.728  -0.837  -0.822  -0.723  -0.885  -0.895  -0.795  -0.953
169   E         0.811   0.817   0.823   0.849   0.859   0.867   0.833   0.838   0.845
170   G         0.811   0.817   0.823   0.767   0.774   0.789   0.833   0.838   0.845
171   L         0.811   0.817   0.823   0.426   0.438   0.466   0.833   0.838   0.845
172   S         0.811   0.817   0.823   0.826   0.837   0.845   0.833   0.838   0.845
173   W         0.811   0.817   0.823   1.101   1.106   1.105   0.833   0.838   0.845
174   I        -0.790  -0.863  -0.856  -0.931  -1.106  -1.122  -0.895  -0.996  -0.982
175   S        -0.790  -0.728  -0.837  -0.779  -0.677  -0.844  -0.895  -0.795  -0.953
176   N        -1.952  -1.904  -1.856  -2.080  -1.974  -1.905  -1.758  -1.688  -1.614
177   N         0.811   0.817   0.823   0.837   0.855   0.856   0.833   0.838   0.845
178   T        -0.790  -0.863  -0.856  -0.931  -1.109  -1.122  -0.895  -0.996  -0.982
179   N        -1.952  -1.904  -1.856  -1.797  -1.681  -1.637  -1.758  -1.688  -1.614
180   V        -0.933  -0.915  -0.867  -1.109  -1.076  -0.986  -1.110  -1.075  -0.999
181   P        -1.952  -1.904  -1.856  -1.587  -1.516  -1.439  -1.758  -1.688  -1.614
182   K        -1.952  -1.904  -1.856  -1.990  -1.874  -1.820  -1.758  -1.688  -1.614
183   K        -0.790  -0.728  -0.837  -0.844  -0.751  -0.853  -0.895  -0.795  -0.953
* 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/P40994
Output conservation file - output/P40994
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
