1     M         0.942   0.950   0.948   1.315   1.252   1.234   0.946   0.953   0.952
2     S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
3     F         0.942   0.950   0.948   0.823   0.871   0.871   0.946   0.953   0.952
4     L        -0.995  -1.020  -1.012  -0.737  -0.969  -1.011  -1.007  -1.032  -1.027
5     S        -0.995  -1.020  -1.012  -1.078  -1.084  -1.086  -1.007  -1.032  -1.027
6     I        -0.995  -1.020  -1.012  -1.304  -1.140  -1.191  -1.007  -1.032  -1.027
7     F        -0.995  -1.020  -1.012  -0.969  -1.059  -1.061  -1.007  -1.032  -1.027
8     T        -2.639  -1.940  -2.159  -2.934  -1.968  -2.185  -2.310  -1.487  -1.687
9     F        -0.995  -1.020  -1.012  -1.357  -1.238  -1.279  -1.007  -1.032  -1.027
10    F         0.942   0.950   0.948   0.823   0.871   0.871   0.946   0.953   0.952
11    S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
12    V        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
13    L        -0.995  -1.020  -1.012  -1.199  -1.237  -1.278  -1.007  -1.032  -1.027
14    I         0.942   0.950   0.948   0.979   1.002   0.986   0.946   0.953   0.952
15    S        -0.995  -1.020  -1.012  -0.927  -1.035  -1.001  -1.007  -1.032  -1.027
16    V        -0.995  -1.020  -1.012  -1.278  -1.143  -1.148  -1.007  -1.032  -1.027
17    A         0.942   0.950   0.948   0.923   0.899   0.946   0.946   0.953   0.952
18    T         0.942   0.950   0.948   0.525   0.633   0.652   0.946   0.953   0.952
19    T        -0.995  -1.020  -1.012  -1.118  -1.310  -1.252  -1.007  -1.032  -1.027
20    V        -0.995  -1.020  -1.012  -0.895  -0.967  -0.936  -1.007  -1.032  -1.027
21    R         0.942   0.950   0.948   1.251   1.220   1.187   0.946   0.953   0.952
22    F         0.942   0.950   0.948   0.823   0.871   0.871   0.946   0.953   0.952
23    D        -0.995  -1.020  -1.012  -0.987  -0.961  -0.937  -1.007  -1.032  -1.027
24    L         0.942   0.950   0.948   0.583   0.763   0.695   0.946   0.953   0.952
25    T         0.942   0.950   0.948   0.525   0.633   0.652   0.946   0.953   0.952
26    N        -0.995  -1.020  -1.012  -0.754  -0.958  -0.935  -1.007  -1.032  -1.027
27    V        -0.995  -1.020  -1.012  -1.278  -1.143  -1.148  -1.007  -1.032  -1.027
28    T        -0.995  -1.020  -1.012  -1.031  -1.184  -1.201  -1.007  -1.032  -1.027
29    C         0.942   0.950   0.948   1.251   1.189   1.187   0.946   0.953   0.952
30    K        -0.995  -1.020  -1.012  -0.870  -0.849  -0.838  -1.007  -1.032  -1.027
31    G        -0.995  -1.020  -1.012  -0.654  -0.830  -0.825  -1.007  -1.032  -1.027
32    L         0.942   0.950   0.948   0.583   0.763   0.695   0.946   0.953   0.952
33    H        -0.995  -1.020  -1.012  -0.509  -0.576  -0.587  -1.007  -1.032  -1.027
34    G         0.942   0.950   0.948   0.990   0.965   0.995   0.946   0.953   0.952
35    P         0.942   0.950   0.948   1.012   1.029   1.011   0.946   0.953   0.952
36    H         0.942   0.950   0.948   1.452   1.330   1.335   0.946   0.953   0.952
37    C         0.942   0.950   0.948   1.251   1.189   1.187   0.946   0.953   0.952
38    G         0.942   0.950   0.948   0.990   0.965   0.995   0.946   0.953   0.952
39    T         0.942   0.950   0.948   0.525   0.633   0.652   0.946   0.953   0.952
40    Y         0.942   0.950   0.948   1.283   1.205   1.210   0.946   0.953   0.952
41    V        -0.995  -1.020  -1.012  -1.278  -1.143  -1.148  -1.007  -1.032  -1.027
42    M        -0.995  -1.020  -1.012  -1.188  -0.953  -1.003  -1.007  -1.032  -1.027
43    E        -0.995  -1.020  -1.012  -0.607  -0.763  -0.791  -1.007  -1.032  -1.027
44    V         0.942   0.950   0.948   1.056   0.998   1.043   0.946   0.953   0.952
45    V         0.942   0.950   0.948   1.056   0.998   1.043   0.946   0.953   0.952
46    G         0.942   0.950   0.948   0.990   0.965   0.995   0.946   0.953   0.952
47    Q        -0.995  -1.020  -1.012  -1.282  -1.116  -1.093  -1.007  -1.032  -1.027
48    N         0.942   0.950   0.948   0.834   0.898   0.880   0.946   0.953   0.952
49    G        -0.995  -1.020  -1.012  -0.969  -1.067  -1.001  -1.007  -1.032  -1.027
50    T         0.942   0.950   0.948   0.525   0.633   0.652   0.946   0.953   0.952
51    F        -0.995  -1.020  -1.012  -0.675  -0.906  -0.894  -1.007  -1.032  -1.027
52    L        -0.995  -1.020  -1.012  -0.969  -1.139  -1.145  -1.007  -1.032  -1.027
53    G         0.942   0.950   0.948   0.990   0.965   0.995   0.946   0.953   0.952
54    Q        -0.995  -1.020  -1.012  -0.814  -0.810  -0.838  -1.007  -1.032  -1.027
55    S        -0.995  -1.020  -1.012  -0.634  -0.845  -0.836  -1.007  -1.032  -1.027
56    T        -0.995  -1.020  -1.012  -1.118  -1.276  -1.252  -1.007  -1.032  -1.027
57    F         0.942   0.950   0.948   0.823   0.871   0.871   0.946   0.953   0.952
58    V        -0.995  -1.020  -1.012  -0.895  -0.967  -0.936  -1.007  -1.032  -1.027
59    G         0.942   0.950   0.948   0.990   0.965   0.995   0.946   0.953   0.952
60    A        -0.995  -1.020  -1.012  -1.323  -1.217  -1.222  -1.007  -1.032  -1.027
61    D         0.942   0.950   0.948   1.197   1.111   1.147   0.946   0.953   0.952
62    V        -0.995  -1.020  -1.012  -0.948  -1.043  -0.966  -1.007  -1.032  -1.027
63    L         0.942   0.950   0.948   0.583   0.763   0.695   0.946   0.953   0.952
64    T         0.942   0.950   0.948   0.525   0.633   0.652   0.946   0.953   0.952
65    E         0.942   0.950   0.948   1.012   1.061   1.011   0.946   0.953   0.952
66    S         0.942   0.950   0.948   0.923   0.942   0.946   0.946   0.953   0.952
67    A        -0.995  -1.020  -1.012  -0.634  -0.875  -0.836  -1.007  -1.032  -1.027
68    G         0.942   0.950   0.948   0.990   0.965   0.995   0.946   0.953   0.952
69    D        -0.995  -1.020  -1.012  -0.817  -0.843  -0.844  -1.007  -1.032  -1.027
70    A        -0.995  -1.020  -1.012  -1.089  -1.136  -1.092  -1.007  -1.032  -1.027
71    W        -0.995  -1.020  -1.012  -0.923  -0.831  -0.822  -1.007  -1.032  -1.027
72    A        -0.995  -1.020  -1.012  -0.716  -0.922  -0.883  -1.007  -1.032  -1.027
73    R         0.942   0.950   0.948   1.251   1.220   1.187   0.946   0.953   0.952
74    Y        -0.995  -1.020  -1.012  -0.502  -0.640  -0.641  -1.007  -1.032  -1.027
75    L         0.942   0.950   0.948   0.583   0.763   0.695   0.946   0.953   0.952
76    G        -0.995  -1.020  -1.012  -0.884  -0.947  -0.954  -1.007  -1.032  -1.027
77    Q         0.942   0.950   0.948   1.208   1.158   1.155   0.946   0.953   0.952
78    E         0.942   0.950   0.948   1.012   1.061   1.011   0.946   0.953   0.952
79    T        -0.995  -1.020  -1.012  -1.031  -1.208  -1.201  -1.007  -1.032  -1.027
80    R         0.942   0.950   0.948   1.251   1.220   1.187   0.946   0.953   0.952
81    F        -0.995  -1.020  -1.012  -1.357  -1.238  -1.279  -1.007  -1.032  -1.027
82    L        -0.995  -1.020  -1.012  -1.045  -1.136  -1.189  -1.007  -1.032  -1.027
83    P         0.942   0.950   0.948   1.012   1.029   1.011   0.946   0.953   0.952
84    K        -0.995  -1.020  -1.012  -0.559  -0.652  -0.669  -1.007  -1.032  -1.027
85    L         0.942   0.950   0.948   0.583   0.763   0.695   0.946   0.953   0.952
86    T        -0.995  -1.020  -1.012  -1.218  -1.332  -1.310  -1.007  -1.032  -1.027
87    T         0.942   0.950   0.948   0.525   0.633   0.652   0.946   0.953   0.952
88    I         0.942   0.950   0.948   0.979   1.002   0.986   0.946   0.953   0.952
89    A         0.942   0.950   0.948   0.923   0.899   0.946   0.946   0.953   0.952
90    S        -0.995  -1.020  -1.012  -0.905  -0.963  -0.989  -1.007  -1.032  -1.027
91    N         0.942   0.950   0.948   0.834   0.898   0.880   0.946   0.953   0.952
92    E        -0.995  -1.020  -1.012  -0.699  -0.843  -0.843  -1.007  -1.032  -1.027
93    T         0.942   0.950   0.948   0.525   0.633   0.652   0.946   0.953   0.952
94    K        -0.995  -1.020  -1.012  -0.870  -0.879  -0.838  -1.007  -1.032  -1.027
95    N         0.942   0.950   0.948   0.834   0.898   0.880   0.946   0.953   0.952
96    F         0.942   0.950   0.948   0.823   0.871   0.871   0.946   0.953   0.952
97    S        -0.995  -1.020  -1.012  -1.380  -1.281  -1.254  -1.007  -1.032  -1.027
98    P         0.942   0.950   0.948   1.012   1.029   1.011   0.946   0.953   0.952
99    L         0.942   0.950   0.948   0.583   0.763   0.695   0.946   0.953   0.952
100   I        -0.995  -1.020  -1.012  -1.361  -1.235  -1.223  -1.007  -1.032  -1.027
101   F         0.942   0.950   0.948   0.823   0.871   0.871   0.946   0.953   0.952
102   T         0.942   0.950   0.948   0.525   0.633   0.652   0.946   0.953   0.952
103   T         0.942   0.950   0.948   0.525   0.633   0.652   0.946   0.953   0.952
104   N        -0.995  -1.020  -1.012  -0.672  -0.887  -0.888  -1.007  -1.032  -1.027
105   I        -0.995  -1.020  -1.012  -1.304  -1.140  -1.191  -1.007  -1.032  -1.027
106   N        -0.995  -1.020  -1.012  -0.661  -0.875  -0.882  -1.007  -1.032  -1.027
107   T         0.942   0.950   0.948   0.525   0.633   0.652   0.946   0.953   0.952
108   C         0.942   0.950   0.948   1.251   1.189   1.187   0.946   0.953   0.952
109   N         0.942   0.950   0.948   0.834   0.898   0.880   0.946   0.953   0.952
110   P         0.942   0.950   0.948   1.012   1.029   1.011   0.946   0.953   0.952
111   Q         0.942   0.950   0.948   1.208   1.158   1.155   0.946   0.953   0.952
112   S         0.942   0.950   0.948   0.923   0.942   0.946   0.946   0.953   0.952
113   I         0.942   0.950   0.948   0.979   1.002   0.986   0.946   0.953   0.952
114   G        -0.995  -1.020  -1.012  -0.884  -0.947  -0.954  -1.007  -1.032  -1.027
115   D        -0.995  -1.020  -1.012  -0.987  -0.961  -0.937  -1.007  -1.032  -1.027
116   A         0.942   0.950   0.948   0.923   0.899   0.946   0.946   0.953   0.952
117   M         0.942   0.950   0.948   1.315   1.252   1.234   0.946   0.953   0.952
118   V        -0.995  -1.020  -1.012  -0.895  -0.967  -0.936  -1.007  -1.032  -1.027
119   P         0.942   0.950   0.948   1.012   1.029   1.011   0.946   0.953   0.952
120   F         0.942   0.950   0.948   0.823   0.871   0.871   0.946   0.953   0.952
121   A        -0.995  -1.020  -1.012  -0.863  -1.041  -0.965  -1.007  -1.032  -1.027
122   N         0.942   0.950   0.948   0.834   0.898   0.880   0.946   0.953   0.952
123   T         0.942   0.950   0.948   0.525   0.633   0.652   0.946   0.953   0.952
124   V         0.942   0.950   0.948   1.056   0.998   1.043   0.946   0.953   0.952
125   T         0.942   0.950   0.948   0.525   0.633   0.652   0.946   0.953   0.952
126   G        -0.995  -1.020  -1.012  -0.969  -1.035  -1.001  -1.007  -1.032  -1.027
127   E         0.942   0.950   0.948   1.012   1.061   1.011   0.946   0.953   0.952
128   I         0.942   0.950   0.948   0.979   1.002   0.986   0.946   0.953   0.952
129   E        -0.995  -1.020  -1.012  -0.962  -0.965  -0.990  -1.007  -1.032  -1.027
130   Y        -0.995  -1.020  -1.012  -0.969  -0.911  -0.896  -1.007  -1.032  -1.027
131   N        -0.995  -1.020  -1.012  -0.754  -0.958  -0.935  -1.007  -1.032  -1.027
132   S        -0.995  -1.020  -1.012  -0.991  -1.083  -1.037  -1.007  -1.032  -1.027
133   W         0.942   0.950   0.948   1.420   1.315   1.312   0.946   0.953   0.952
134   A         0.942   0.950   0.948   0.923   0.899   0.946   0.946   0.953   0.952
135   D        -0.995  -1.020  -1.012  -0.559  -0.739  -0.702  -1.007  -1.032  -1.027
136   T         0.942   0.950   0.948   0.525   0.633   0.652   0.946   0.953   0.952
137   A         0.942   0.950   0.948   0.923   0.899   0.946   0.946   0.953   0.952
138   D        -0.995  -1.020  -1.012  -0.631  -0.773  -0.741  -1.007  -1.032  -1.027
139   N         0.942   0.950   0.948   0.834   0.898   0.880   0.946   0.953   0.952
140   A        -0.995  -1.020  -1.012  -0.991  -1.083  -1.037  -1.007  -1.032  -1.027
141   S         0.942   0.950   0.948   0.923   0.942   0.946   0.946   0.953   0.952
142   F        -0.995  -1.020  -1.012  -0.706  -0.895  -0.912  -1.007  -1.032  -1.027
143   I         0.942   0.950   0.948   0.979   1.002   0.986   0.946   0.953   0.952
144   T         0.942   0.950   0.948   0.525   0.633   0.652   0.946   0.953   0.952
145   G         0.942   0.950   0.948   0.990   0.965   0.995   0.946   0.953   0.952
146   L         0.942   0.950   0.948   0.583   0.763   0.695   0.946   0.953   0.952
147   A        -0.995  -1.020  -1.012  -0.991  -1.083  -1.037  -1.007  -1.032  -1.027
148   N         0.942   0.950   0.948   0.834   0.898   0.880   0.946   0.953   0.952
149   Q         0.942   0.950   0.948   1.208   1.158   1.155   0.946   0.953   0.952
150   L         0.942   0.950   0.948   0.583   0.763   0.695   0.946   0.953   0.952
151   F        -0.995  -1.020  -1.012  -0.644  -0.871  -0.877  -1.007  -1.032  -1.027
152   N         0.942   0.950   0.948   0.834   0.898   0.880   0.946   0.953   0.952
153   S         0.942   0.950   0.948   0.923   0.942   0.946   0.946   0.953   0.952
154   T         0.942   0.950   0.948   0.525   0.633   0.652   0.946   0.953   0.952
155   D        -0.995  -1.020  -1.012  -1.229  -1.058  -1.069  -1.007  -1.032  -1.027
156   Y         0.942   0.950   0.948   1.283   1.205   1.210   0.946   0.953   0.952
157   G        -0.995  -1.020  -1.012  -1.056  -1.068  -1.050  -1.007  -1.032  -1.027
158   V         0.942   0.950   0.948   1.056   0.998   1.043   0.946   0.953   0.952
159   Q         0.942   0.950   0.948   1.208   1.158   1.155   0.946   0.953   0.952
160   V         0.942   0.950   0.948   1.056   0.998   1.043   0.946   0.953   0.952
161   A         0.942   0.950   0.948   0.923   0.899   0.946   0.946   0.953   0.952
162   S        -0.995  -1.020  -1.012  -1.380  -1.281  -1.254  -1.007  -1.032  -1.027
163   C         0.942   0.950   0.948   1.251   1.189   1.187   0.946   0.953   0.952
164   Y        -0.995  -1.020  -1.012  -1.255  -1.079  -1.051  -1.007  -1.032  -1.027
165   P         0.942   0.950   0.948   1.012   1.029   1.011   0.946   0.953   0.952
166   N        -0.995  -1.020  -1.012  -0.955  -1.067  -1.049  -1.007  -1.032  -1.027
167   F         0.942   0.950   0.948   0.823   0.871   0.871   0.946   0.953   0.952
168   A        -0.995  -1.020  -1.012  -0.991  -1.083  -1.037  -1.007  -1.032  -1.027
169   S        -0.995  -1.020  -1.012  -0.991  -1.083  -1.037  -1.007  -1.032  -1.027
170   V        -0.995  -1.020  -1.012  -1.278  -1.143  -1.148  -1.007  -1.032  -1.027
171   I        -0.995  -1.020  -1.012  -1.304  -1.140  -1.191  -1.007  -1.032  -1.027
172   L         0.942   0.950   0.948   0.583   0.763   0.695   0.946   0.953   0.952
173   S        -0.995  -1.020  -1.012  -0.727  -0.926  -0.889  -1.007  -1.032  -1.027
174   T        -0.995  -1.020  -1.012  -1.118  -1.276  -1.252  -1.007  -1.032  -1.027
175   P         0.942   0.950   0.948   1.012   1.029   1.011   0.946   0.953   0.952
176   A        -0.995  -1.020  -1.012  -1.380  -1.314  -1.254  -1.007  -1.032  -1.027
177   V        -0.995  -1.020  -1.012  -0.895  -0.967  -0.936  -1.007  -1.032  -1.027
178   N         0.942   0.950   0.948   0.834   0.898   0.880   0.946   0.953   0.952
179   I        -0.995  -1.020  -1.012  -0.845  -0.967  -0.936  -1.007  -1.032  -1.027
180   F         0.942   0.950   0.948   0.823   0.871   0.871   0.946   0.953   0.952
181   G        -0.995  -1.020  -1.012  -1.056  -1.068  -1.050  -1.007  -1.032  -1.027
182   K        -0.995  -1.020  -1.012  -0.955  -0.880  -0.885  -1.007  -1.032  -1.027
183   D        -0.995  -1.020  -1.012  -0.817  -0.843  -0.844  -1.007  -1.032  -1.027
184   D        -0.995  -1.020  -1.012  -0.817  -0.843  -0.844  -1.007  -1.032  -1.027
185   T        -0.995  -1.020  -1.012  -1.052  -1.259  -1.214  -1.007  -1.032  -1.027
186   L        -0.995  -1.020  -1.012  -0.716  -0.945  -0.999  -1.007  -1.032  -1.027
187   P         0.942   0.950   0.948   1.012   1.029   1.011   0.946   0.953   0.952
188   D        -0.995  -1.020  -1.012  -0.902  -0.929  -0.890  -1.007  -1.032  -1.027
189   Y        -0.995  -1.020  -1.012  -0.403  -0.595  -0.586  -1.007  -1.032  -1.027
190   C         0.942   0.950   0.948   1.251   1.189   1.187   0.946   0.953   0.952
191   T        -0.995  -1.020  -1.012  -0.838  -1.108  -1.090  -1.007  -1.032  -1.027
192   A        -0.995  -1.020  -1.012  -0.905  -1.018  -0.989  -1.007  -1.032  -1.027
193   I         0.942   0.950   0.948   0.979   1.002   0.986   0.946   0.953   0.952
194   Q        -0.995  -1.020  -1.012  -0.814  -0.810  -0.838  -1.007  -1.032  -1.027
195   L         0.942   0.950   0.948   0.583   0.763   0.695   0.946   0.953   0.952
196   K        -2.639  -1.940  -2.159  -2.823  -1.572  -1.931  -2.310  -1.487  -1.687
197   A        -0.995  -1.020  -1.012  -0.905  -1.018  -0.989  -1.007  -1.032  -1.027
198   V         0.942   0.950   0.948   1.056   0.998   1.043   0.946   0.953   0.952
199   C         0.942   0.950   0.948   1.251   1.189   1.187   0.946   0.953   0.952
200   P         0.942   0.950   0.948   1.012   1.029   1.011   0.946   0.953   0.952
201   P        -0.995  -1.020  -1.012  -1.293  -1.120  -1.173  -1.007  -1.032  -1.027
202   E        -0.995  -1.020  -1.012  -0.699  -0.843  -0.843  -1.007  -1.032  -1.027
203   A        -0.995  -1.020  -1.012  -0.905  -0.994  -0.989  -1.007  -1.032  -1.027
204   G         0.942   0.950   0.948   0.990   0.965   0.995   0.946   0.953   0.952
205   F         0.942   0.950   0.948   0.823   0.871   0.871   0.946   0.953   0.952
206   D        -0.995  -1.020  -1.012  -0.987  -0.961  -0.937  -1.007  -1.032  -1.027
* 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/P53058
Output conservation file - output/P53058
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
