1     M         0.660   0.668   0.703   0.951   0.949   0.967   0.687   0.697   0.746
2     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
3     S         0.660   0.668   0.703   0.634   0.651   0.710   0.687   0.697   0.746
4     K         0.660   0.668   0.703   0.256   0.285   0.403   0.687   0.697   0.746
5     I        -0.602  -0.657  -0.692  -0.560  -0.679  -0.839  -0.757  -0.849  -0.941
6     T        -0.977  -0.937  -0.718  -1.190  -1.154  -0.812  -1.376  -1.316  -0.985
7     S        -2.234  -2.128  -2.125  -2.351  -2.233  -2.066  -2.098  -1.991  -1.840
8     S        -0.977  -0.833  -0.704  -1.251  -0.974  -0.810  -1.376  -1.139  -0.961
9     Q        -3.474  -3.398  -2.969  -3.047  -2.993  -2.407  -2.717  -2.614  -2.141
10    V        -0.171  -0.261  -0.666  -0.183  -0.273  -0.856  -0.138  -0.260  -0.898
11    R         0.660   0.668   0.703   0.883   0.884   0.913   0.687   0.697   0.746
12    E        -2.740  -2.801  -2.597  -2.366  -2.505  -2.227  -2.305  -2.342  -2.026
13    H        -1.572  -1.611  -1.530  -1.439  -1.484  -1.396  -1.686  -1.707  -1.542
14    V         0.660   0.668   0.703   0.516   0.548   0.615   0.687   0.697   0.746
15    K        -2.968  -2.910  -2.599  -2.942  -2.797  -2.236  -2.511  -2.434  -2.027
16    E        -2.830  -2.894  -2.596  -2.827  -2.895  -2.367  -2.408  -2.408  -2.026
17    L        -0.602  -0.657  -0.692  -0.927  -1.007  -1.009  -0.757  -0.849  -0.941
18    L         0.660   0.668   0.703   0.349   0.372   0.479   0.687   0.697   0.746
19    K        -0.977  -0.935  -0.721  -1.526  -1.426  -1.025  -1.376  -1.313  -0.989
20    Y        -2.077  -2.082  -2.123  -1.568  -1.629  -1.718  -1.892  -1.900  -1.838
21    S         0.660   0.668   0.703   0.634   0.651   0.710   0.687   0.697   0.746
22    N        -2.230  -2.006  -2.124  -1.973  -1.717  -1.834  -2.055  -1.849  -1.838
23    E         0.660   0.668   0.703   0.883   0.885   0.913   0.687   0.697   0.746
24    T         0.660   0.668   0.703   0.856   0.853   0.891   0.687   0.697   0.746
25    K         0.660   0.668   0.703   0.256   0.285   0.403   0.687   0.697   0.746
26    K         0.660   0.668   0.703   0.256   0.285   0.403   0.687   0.697   0.746
27    R         0.660   0.668   0.703   0.883   0.884   0.913   0.687   0.697   0.746
28    N         0.660   0.668   0.703   0.774   0.789   0.824   0.687   0.697   0.746
29    F         0.660   0.668   0.703   0.904   0.915   0.929   0.687   0.697   0.746
30    L        -0.602  -0.657  -0.692  -0.904  -0.976  -0.970  -0.757  -0.849  -0.941
31    E         0.660   0.668   0.703   0.883   0.885   0.913   0.687   0.697   0.746
32    T         0.660   0.668   0.703   0.880   0.883   0.910   0.687   0.697   0.746
33    V         0.660   0.668   0.703   0.516   0.548   0.615   0.687   0.697   0.746
34    E         0.660   0.668   0.703   0.883   0.885   0.913   0.687   0.697   0.746
35    L         0.660   0.668   0.703   0.349   0.372   0.479   0.687   0.697   0.746
36    Q         0.660   0.668   0.703   0.904   0.904   0.929   0.687   0.697   0.746
37    V        -0.977  -0.925  -0.715  -1.372  -1.244  -0.899  -1.376  -1.296  -0.979
38    G         0.660   0.668   0.703   0.791   0.783   0.838   0.687   0.697   0.746
39    L         0.660   0.668   0.703   0.349   0.372   0.479   0.687   0.697   0.746
40    K         0.660   0.668   0.703   0.256   0.285   0.403   0.687   0.697   0.746
41    N         0.660   0.668   0.703   0.774   0.789   0.824   0.687   0.697   0.746
42    Y         0.660   0.668   0.703   1.001   1.001   1.008   0.687   0.697   0.746
43    D         0.660   0.668   0.703   0.777   0.788   0.826   0.687   0.697   0.746
44    P        -0.171  -0.240  -0.668   0.142   0.047  -0.690  -0.138  -0.231  -0.901
45    Q         0.660   0.668   0.703   0.904   0.904   0.929   0.687   0.697   0.746
46    R         0.660   0.668   0.703   0.883   0.884   0.913   0.687   0.697   0.746
47    D         0.660   0.668   0.703   0.777   0.788   0.826   0.687   0.697   0.746
48    K         0.660   0.668   0.703   0.256   0.285   0.403   0.687   0.697   0.746
49    R         0.660   0.668   0.703   0.883   0.884   0.913   0.687   0.697   0.746
50    F         0.660   0.668   0.703   0.904   0.915   0.929   0.687   0.697   0.746
51    S         0.660   0.668   0.703   0.634   0.651   0.710   0.687   0.697   0.746
52    G         0.660   0.668   0.703   0.791   0.783   0.838   0.687   0.697   0.746
53    S        -0.171  -0.054  -0.662   0.159   0.291  -0.665  -0.138   0.011  -0.891
54    L        -0.977  -0.925  -0.715  -1.507  -1.356  -0.989  -1.376  -1.296  -0.979
55    K        -0.171  -0.351  -0.672  -0.434  -0.635  -1.010  -0.138  -0.387  -0.908
56    L         0.660   0.668   0.703   0.349   0.372   0.479   0.687   0.697   0.746
57    P         0.660   0.668   0.703   0.863   0.864   0.896   0.687   0.697   0.746
58    N        -2.968  -2.904  -2.591  -3.011  -2.897  -2.565  -2.511  -2.403  -2.022
59    C        -1.572  -1.563  -1.526  -1.624  -1.578  -1.486  -1.686  -1.614  -1.536
60    P         0.660   0.668   0.703   0.863   0.864   0.896   0.687   0.697   0.746
61    R         0.660   0.668   0.703   0.883   0.884   0.913   0.687   0.697   0.746
62    P         0.660   0.668   0.703   0.863   0.864   0.896   0.687   0.697   0.746
63    N         0.660   0.668   0.703   0.774   0.789   0.824   0.687   0.697   0.746
64    M        -0.171  -0.040  -0.662   0.197   0.347  -0.733  -0.138   0.028  -0.891
65    S        -1.572  -1.517  -1.529  -1.620  -1.526  -1.501  -1.686  -1.594  -1.540
66    I         0.660   0.668   0.703   0.805   0.798   0.849   0.687   0.697   0.746
67    C         0.660   0.668   0.703   1.058   1.058   1.054   0.687   0.697   0.746
68    I        -0.171  -0.240  -0.668   0.070  -0.034  -0.783  -0.138  -0.231  -0.901
69    F        -0.856  -0.907  -0.720  -1.022  -1.197  -0.947  -1.170  -1.265  -0.987
70    G         0.660   0.668   0.703   0.791   0.783   0.838   0.687   0.697   0.746
71    D         0.660   0.668   0.703   0.777   0.788   0.826   0.687   0.697   0.746
72    A        -0.171  -0.351  -0.672   0.117  -0.118  -0.621  -0.138  -0.387  -0.908
73    F        -1.572  -1.631  -1.543  -1.375  -1.469  -1.463  -1.686  -1.745  -1.556
74    D         0.660   0.668   0.703   0.777   0.788   0.826   0.687   0.697   0.746
75    V        -1.362  -1.553  -1.537  -1.571  -1.857  -1.836  -1.376  -1.599  -1.548
76    D         0.660   0.668   0.703   0.777   0.788   0.826   0.687   0.697   0.746
77    R         0.660   0.668   0.703   0.883   0.884   0.913   0.687   0.697   0.746
78    A         0.660   0.668   0.703   0.805   0.802   0.849   0.687   0.697   0.746
79    K         0.660   0.668   0.703   0.256   0.285   0.403   0.687   0.697   0.746
80    S        -0.856  -0.907  -0.720  -0.951  -1.020  -0.713  -1.170  -1.265  -0.987
81    C        -2.234  -2.140  -2.133  -2.011  -1.942  -2.073  -2.098  -1.997  -1.847
82    G         0.660   0.668   0.703   0.791   0.783   0.838   0.687   0.697   0.746
83    V         0.660   0.668   0.703   0.516   0.548   0.615   0.687   0.697   0.746
84    D         0.660   0.668   0.703   0.777   0.788   0.826   0.687   0.697   0.746
85    A         0.660   0.668   0.703   0.805   0.802   0.849   0.687   0.697   0.746
86    M         0.660   0.668   0.703   0.951   0.949   0.967   0.687   0.697   0.746
87    S         0.660   0.668   0.703   0.634   0.651   0.710   0.687   0.697   0.746
88    V         0.660   0.668   0.703   0.516   0.548   0.615   0.687   0.697   0.746
89    D        -0.602  -0.565  -0.702  -0.486  -0.436  -0.698  -0.757  -0.705  -0.957
90    D         0.660   0.668   0.703   0.777   0.788   0.826   0.687   0.697   0.746
91    L         0.660   0.668   0.703   0.349   0.372   0.479   0.687   0.697   0.746
92    K         0.660   0.668   0.703   0.256   0.285   0.403   0.687   0.697   0.746
93    K         0.660   0.668   0.703   0.256   0.285   0.403   0.687   0.697   0.746
94    L         0.660   0.668   0.703   0.349   0.372   0.479   0.687   0.697   0.746
95    N         0.660   0.668   0.703   0.774   0.789   0.824   0.687   0.697   0.746
96    K         0.660   0.668   0.703   0.256   0.285   0.403   0.687   0.697   0.746
97    N         0.660   0.668   0.703   0.774   0.789   0.824   0.687   0.697   0.746
98    K         0.660   0.668   0.703   0.256   0.285   0.403   0.687   0.697   0.746
99    K         0.660   0.668   0.703   0.256   0.285   0.403   0.687   0.697   0.746
100   L         0.660   0.668   0.703   0.349   0.372   0.479   0.687   0.697   0.746
101   I        -0.602  -0.657  -0.692  -0.560  -0.679  -0.839  -0.757  -0.849  -0.941
102   K         0.660   0.668   0.703   0.256   0.285   0.403   0.687   0.697   0.746
103   K         0.660   0.668   0.703   0.256   0.285   0.403   0.687   0.697   0.746
104   L         0.660   0.668   0.703   0.349   0.372   0.479   0.687   0.697   0.746
105   S        -1.362  -1.092  -1.506  -1.184  -0.804  -1.441  -1.376  -1.028  -1.511
106   K        -0.171  -0.351  -0.672  -0.434  -0.635  -1.010  -0.138  -0.387  -0.908
107   K         0.660   0.668   0.703   0.256   0.285   0.403   0.687   0.697   0.746
108   Y         0.660   0.668   0.703   1.001   1.001   1.008   0.687   0.697   0.746
109   N        -1.572  -1.493  -1.540  -1.583  -1.514  -1.558  -1.686  -1.625  -1.552
110   A        -0.171  -0.070  -0.663   0.084   0.192  -0.721  -0.138  -0.009  -0.892
111   F         0.660   0.668   0.703   0.904   0.915   0.929   0.687   0.697   0.746
112   I        -0.602  -0.639  -0.710  -0.560  -0.647  -0.885  -0.757  -0.820  -0.971
113   A         0.660   0.668   0.703   0.805   0.802   0.849   0.687   0.697   0.746
114   S         0.660   0.668   0.703   0.634   0.651   0.710   0.687   0.697   0.746
115   E         0.660   0.668   0.703   0.883   0.885   0.913   0.687   0.697   0.746
116   V        -0.602  -0.733  -0.713  -0.762  -0.960  -0.923  -0.757  -0.972  -0.976
117   L         0.660   0.668   0.703   0.349   0.372   0.479   0.687   0.697   0.746
118   I         0.660   0.668   0.703   0.805   0.798   0.849   0.687   0.697   0.746
119   K         0.660   0.668   0.703   0.256   0.285   0.403   0.687   0.697   0.746
120   Q         0.660   0.668   0.703   0.904   0.904   0.929   0.687   0.697   0.746
121   V        -0.977  -0.938  -0.719  -1.372  -1.286  -0.913  -1.376  -1.317  -0.986
122   P         0.660   0.668   0.703   0.863   0.864   0.896   0.687   0.697   0.746
123   R         0.660   0.668   0.703   0.883   0.884   0.913   0.687   0.697   0.746
124   L         0.660   0.668   0.703   0.349   0.372   0.479   0.687   0.697   0.746
125   L         0.660   0.668   0.703   0.349   0.372   0.479   0.687   0.697   0.746
126   G         0.660   0.668   0.703   0.791   0.783   0.838   0.687   0.697   0.746
127   P         0.660   0.668   0.703   0.863   0.864   0.896   0.687   0.697   0.746
128   Q        -1.572  -1.474  -1.539  -1.421  -1.376  -1.381  -1.686  -1.610  -1.552
129   L         0.660   0.668   0.703   0.349   0.372   0.479   0.687   0.697   0.746
130   S         0.660   0.668   0.703   0.634   0.651   0.710   0.687   0.697   0.746
131   K         0.660   0.668   0.703   0.256   0.285   0.403   0.687   0.697   0.746
132   A         0.660   0.668   0.703   0.805   0.802   0.849   0.687   0.697   0.746
133   G         0.660   0.668   0.703   0.791   0.783   0.838   0.687   0.697   0.746
134   K         0.660   0.668   0.703   0.256   0.285   0.403   0.687   0.697   0.746
135   F         0.660   0.668   0.703   0.904   0.915   0.929   0.687   0.697   0.746
136   P         0.660   0.668   0.703   0.863   0.864   0.896   0.687   0.697   0.746
137   T        -0.602  -0.657  -0.692  -0.455  -0.564  -0.732  -0.757  -0.849  -0.941
138   P         0.660   0.668   0.703   0.863   0.864   0.896   0.687   0.697   0.746
139   V         0.660   0.668   0.703   0.516   0.548   0.615   0.687   0.697   0.746
140   S         0.660   0.668   0.703   0.634   0.651   0.710   0.687   0.697   0.746
141   H         0.660   0.668   0.703   1.051   1.041   1.049   0.687   0.697   0.746
142   N        -1.362  -1.490  -1.539  -1.226  -1.466  -1.557  -1.376  -1.555  -1.551
143   D        -0.171  -0.240  -0.668   0.087   0.007  -0.641  -0.138  -0.231  -0.901
144   D         0.660   0.668   0.703   0.777   0.788   0.826   0.687   0.697   0.746
145   L         0.660   0.668   0.703   0.349   0.372   0.479   0.687   0.697   0.746
146   Y        -0.969  -1.201  -1.516  -0.348  -0.654  -1.174  -0.860  -1.144  -1.524
147   G        -2.077  -1.899  -2.116  -1.821  -1.571  -1.886  -1.892  -1.679  -1.831
148   K         0.660   0.668   0.703   0.256   0.285   0.403   0.687   0.697   0.746
149   V        -1.362  -1.553  -1.537  -1.495  -1.786  -1.820  -1.376  -1.599  -1.548
150   T        -1.572  -1.633  -1.532  -1.463  -1.567  -1.422  -1.686  -1.741  -1.544
151   D        -0.856  -0.907  -0.720  -0.901  -1.004  -0.725  -1.170  -1.265  -0.987
152   V         0.660   0.668   0.703   0.516   0.548   0.615   0.687   0.697   0.746
153   R        -0.856  -0.759  -0.707  -1.375  -1.213  -1.042  -1.170  -1.014  -0.966
154   S         0.660   0.668   0.703   0.634   0.651   0.710   0.687   0.697   0.746
155   T         0.660   0.668   0.703   0.880   0.883   0.910   0.687   0.697   0.746
156   I        -0.171  -0.240  -0.668   0.070  -0.034  -0.783  -0.138  -0.231  -0.901
157   K         0.660   0.668   0.703   0.256   0.285   0.403   0.687   0.697   0.746
158   F         0.660   0.668   0.703   0.904   0.915   0.929   0.687   0.697   0.746
159   Q         0.660   0.668   0.703   0.904   0.904   0.929   0.687   0.697   0.746
160   L         0.660   0.668   0.703   0.349   0.372   0.479   0.687   0.697   0.746
161   K         0.660   0.668   0.703   0.256   0.285   0.403   0.687   0.697   0.746
162   K         0.660   0.668   0.703   0.256   0.285   0.403   0.687   0.697   0.746
163   V         0.660   0.668   0.703   0.516   0.548   0.615   0.687   0.697   0.746
164   L         0.660   0.668   0.703   0.349   0.372   0.479   0.687   0.697   0.746
165   C         0.660   0.668   0.703   1.058   1.058   1.054   0.687   0.697   0.746
166   L        -0.602  -0.733  -0.713  -0.883  -1.064  -0.946  -0.757  -0.972  -0.976
167   A        -0.856  -0.907  -0.720  -0.918  -1.053  -0.761  -1.170  -1.265  -0.987
168   V         0.660   0.668   0.703   0.516   0.548   0.615   0.687   0.697   0.746
169   A         0.660   0.668   0.703   0.805   0.802   0.849   0.687   0.697   0.746
170   V        -0.171  -0.070  -0.663  -0.183  -0.046  -0.850  -0.138  -0.009  -0.892
171   G         0.660   0.668   0.703   0.791   0.783   0.838   0.687   0.697   0.746
172   N        -0.856  -0.883  -0.719  -0.827  -0.873  -0.632  -1.170  -1.223  -0.986
173   V         0.660   0.668   0.703   0.516   0.548   0.615   0.687   0.697   0.746
174   E        -1.362  -1.480  -1.528  -1.079  -1.250  -1.413  -1.376  -1.500  -1.539
175   M         0.660   0.668   0.703   0.951   0.949   0.967   0.687   0.697   0.746
176   E        -2.968  -2.912  -2.595  -2.676  -2.598  -2.217  -2.511  -2.423  -2.024
177   E        -0.602  -0.653  -0.711  -0.378  -0.473  -0.635  -0.757  -0.843  -0.972
178   D        -0.856  -0.907  -0.720  -0.901  -1.004  -0.725  -1.170  -1.265  -0.987
179   V        -2.968  -2.736  -2.595  -2.725  -2.343  -2.224  -2.511  -2.267  -2.024
180   L         0.660   0.668   0.703   0.349   0.372   0.479   0.687   0.697   0.746
181   V        -1.729  -1.878  -2.117  -1.534  -1.714  -2.005  -1.479  -1.634  -1.832
182   N        -2.077  -2.276  -2.136  -1.796  -2.090  -1.897  -1.892  -2.079  -1.850
183   Q        -0.856  -0.907  -0.720  -0.836  -0.965  -0.711  -1.170  -1.265  -0.987
184   I        -0.171  -0.261  -0.666   0.050  -0.089  -0.851  -0.138  -0.260  -0.898
185   L        -1.572  -1.492  -1.521  -1.644  -1.424  -1.603  -1.686  -1.535  -1.530
186   M        -0.856  -0.907  -0.720  -0.978  -1.168  -0.916  -1.170  -1.265  -0.987
187   S        -0.977  -0.848  -0.706  -1.251  -1.003  -0.815  -1.376  -1.163  -0.964
188   V        -1.867  -1.862  -1.552  -2.141  -2.116  -1.624  -1.995  -1.972  -1.565
189   N         0.660   0.668   0.703   0.774   0.789   0.824   0.687   0.697   0.746
190   F        -0.171  -0.351  -0.672   0.228   0.012  -0.510  -0.138  -0.387  -0.908
191   F        -0.171  -0.054  -0.662  -0.338  -0.193  -0.921  -0.138   0.011  -0.891
192   V         0.660   0.668   0.703   0.516   0.548   0.615   0.687   0.697   0.746
193   S         0.660   0.668   0.703   0.634   0.651   0.710   0.687   0.697   0.746
194   L         0.660   0.668   0.703   0.349   0.372   0.479   0.687   0.697   0.746
195   L         0.660   0.668   0.703   0.349   0.372   0.479   0.687   0.697   0.746
196   K         0.660   0.668   0.703   0.256   0.285   0.403   0.687   0.697   0.746
197   K         0.660   0.668   0.703   0.256   0.285   0.403   0.687   0.697   0.746
198   N        -1.572  -1.631  -1.543  -1.503  -1.596  -1.382  -1.686  -1.745  -1.556
199   W         0.660   0.668   0.703   1.110   1.104   1.097   0.687   0.697   0.746
200   Q         0.660   0.668   0.703   0.904   0.904   0.929   0.687   0.697   0.746
201   N         0.660   0.668   0.703   0.774   0.789   0.824   0.687   0.697   0.746
202   V        -0.856  -0.883  -0.719  -1.175  -1.215  -0.927  -1.170  -1.223  -0.986
203   G         0.660   0.668   0.703   0.791   0.783   0.838   0.687   0.697   0.746
204   S         0.660   0.668   0.703   0.634   0.651   0.710   0.687   0.697   0.746
205   L         0.660   0.668   0.703   0.349   0.372   0.479   0.687   0.697   0.746
206   V        -0.171  -0.351  -0.672  -0.173  -0.373  -0.830  -0.138  -0.387  -0.908
207   V        -0.602  -0.538  -0.705  -0.560  -0.474  -0.872  -0.757  -0.663  -0.963
208   K         0.660   0.668   0.703   0.256   0.285   0.403   0.687   0.697   0.746
209   S        -0.171  -0.351  -0.672  -0.065  -0.286  -0.783  -0.138  -0.387  -0.908
210   S        -0.171  -0.054  -0.662   0.159   0.291  -0.665  -0.138   0.011  -0.891
211   M         0.660   0.668   0.703   0.951   0.949   0.967   0.687   0.697   0.746
212   G        -0.171  -0.351  -0.672   0.070  -0.184  -0.750  -0.138  -0.387  -0.908
213   P        -0.602  -0.657  -0.692  -0.571  -0.699  -0.921  -0.757  -0.849  -0.941
214   A        -1.867  -1.628  -1.535  -1.938  -1.541  -1.488  -1.995  -1.687  -1.546
215   F        -2.077  -2.195  -2.128  -1.665  -1.874  -1.856  -1.892  -1.992  -1.843
216   R         0.660   0.668   0.703   0.883   0.884   0.913   0.687   0.697   0.746
217   L        -0.602  -0.437  -0.684  -0.927  -0.682  -0.998  -0.757  -0.510  -0.927
218   Y         0.660   0.668   0.703   1.001   1.001   1.008   0.687   0.697   0.746
* 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/P0CX43
Output conservation file - output/P0CX43
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
