1     M         1.821   1.827   1.851   2.080   2.095   2.124   1.962   1.969   1.999
2     L         0.093   0.059   0.038   0.130   0.085   0.056  -0.020  -0.072  -0.107
3     K         0.093   0.101   0.069  -0.251  -0.234  -0.307  -0.020  -0.007  -0.058
4     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
5     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
6     S         0.093   0.101   0.069  -0.197  -0.184  -0.253  -0.020  -0.007  -0.058
7     T        -1.162  -1.157  -1.138  -1.118  -1.113  -1.073  -1.010  -1.001  -0.966
8     L         0.093   0.101   0.069   0.105   0.116   0.072  -0.020  -0.007  -0.058
9     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
10    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
11    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
12    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
13    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
14    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
15    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
16    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
17    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
18    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
19    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
20    R         0.093   0.134   0.072  -0.197  -0.120  -0.247  -0.020   0.045  -0.053
21    L         0.093   0.101   0.069   0.073   0.087   0.037  -0.020  -0.007  -0.058
22    S        -1.162  -1.157  -1.138  -0.967  -0.960  -0.921  -1.010  -1.001  -0.966
23    R         0.093   0.059   0.038  -0.327  -0.386  -0.425  -0.020  -0.072  -0.107
24    I        -1.162  -1.157  -1.138  -1.153  -1.145  -1.107  -1.010  -1.001  -0.966
25    S         0.093   0.134   0.072   0.161   0.232   0.116  -0.020   0.045  -0.053
26    L         1.821   1.827   1.851   1.807   1.816   1.851   1.962   1.969   1.999
27    R         0.093   0.101   0.069  -0.258  -0.250  -0.294  -0.020  -0.007  -0.058
28    R        -1.162  -1.157  -1.138  -1.214  -1.187  -1.168  -1.010  -1.001  -0.966
29    G         0.093   0.059   0.038   0.111   0.050  -0.000  -0.020  -0.072  -0.107
30    F        -1.162  -1.157  -1.138  -0.942  -0.926  -0.897  -1.010  -1.001  -0.966
31    T         1.821   1.827   1.851   2.012   2.019   2.057   1.962   1.969   1.999
32    T        -1.162  -1.157  -1.138  -0.886  -0.871  -0.840  -1.010  -1.001  -0.966
33    I         1.821   1.827   1.851   1.815   1.824   1.859   1.962   1.969   1.999
34    D        -0.061  -0.058  -0.035  -0.306  -0.301  -0.261  -0.267  -0.261  -0.225
35    C        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
36    L        -0.061  -0.058  -0.035  -0.113  -0.107  -0.068  -0.267  -0.261  -0.225
37    R        -0.061  -0.058  -0.035  -0.523  -0.518  -0.478  -0.267  -0.261  -0.225
38    Q        -0.061  -0.058  -0.035  -0.278  -0.273  -0.233  -0.267  -0.261  -0.225
39    Q        -0.061  -0.058  -0.035  -0.209  -0.203  -0.164  -0.267  -0.261  -0.225
40    N         1.821   1.827   1.851   1.720   1.729   1.765   1.962   1.969   1.999
41    S        -1.162  -1.157  -1.138  -1.187  -1.171  -1.142  -1.010  -1.001  -0.966
42    D        -1.162  -1.157  -1.138  -0.942  -0.943  -0.897  -1.010  -1.001  -0.966
43    I        -1.162  -1.157  -1.138  -1.067  -1.059  -1.021  -1.010  -1.001  -0.966
44    D         1.821   1.827   1.851   1.972   1.981   2.016   1.962   1.969   1.999
45    K         0.093   0.059   0.038  -0.030  -0.077  -0.107  -0.020  -0.072  -0.107
46    I         0.093   0.134   0.072   0.034   0.104   0.000  -0.020   0.045  -0.053
47    I        -1.162  -1.157  -1.138  -1.187  -1.179  -1.142  -1.010  -1.001  -0.966
48    L        -1.162  -1.157  -1.138  -1.187  -1.182  -1.142  -1.010  -1.001  -0.966
49    N        -1.162  -1.157  -1.138  -1.276  -1.261  -1.231  -1.010  -1.001  -0.966
50    P        -1.162  -1.157  -1.138  -0.814  -0.811  -0.768  -1.010  -1.001  -0.966
51    I        -1.162  -1.157  -1.138  -1.240  -1.234  -1.195  -1.010  -1.001  -0.966
52    K        -1.162  -1.157  -1.138  -1.214  -1.192  -1.168  -1.010  -1.001  -0.966
53    L         1.821   1.827   1.851   1.807   1.816   1.851   1.962   1.969   1.999
54    A        -1.162  -1.157  -1.138  -1.017  -1.016  -0.971  -1.010  -1.001  -0.966
55    Q        -1.162  -1.157  -1.138  -0.877  -0.868  -0.832  -1.010  -1.001  -0.966
56    G         0.093   0.059   0.038   0.086   0.025  -0.030  -0.020  -0.072  -0.107
57    S         0.093   0.101   0.069   0.066   0.080   0.039  -0.020  -0.007  -0.058
58    N        -1.162  -1.157  -1.138  -0.942  -0.928  -0.897  -1.010  -1.001  -0.966
59    S         0.093   0.059   0.038   0.034  -0.017  -0.042  -0.020  -0.072  -0.107
60    D        -1.162  -1.157  -1.138  -0.926  -0.915  -0.881  -1.010  -1.001  -0.966
61    R        -1.162  -1.157  -1.138  -1.276  -1.263  -1.231  -1.010  -1.001  -0.966
62    G         0.093   0.059   0.038   0.217   0.165   0.127  -0.020  -0.072  -0.107
63    Q        -1.162  -1.157  -1.138  -1.008  -1.007  -0.963  -1.010  -1.001  -0.966
64    T        -1.162  -1.157  -1.138  -1.179  -1.173  -1.133  -1.010  -1.001  -0.966
65    S        -1.162  -1.157  -1.138  -1.050  -1.035  -1.005  -1.010  -1.001  -0.966
66    K         0.093   0.101   0.069  -0.037  -0.021  -0.069  -0.020  -0.007  -0.058
67    S         0.093   0.101   0.069  -0.123  -0.108  -0.171  -0.020  -0.007  -0.058
68    K         0.093   0.059   0.038  -0.017  -0.064  -0.091  -0.020  -0.072  -0.107
69    T        -1.162  -1.157  -1.138  -1.161  -1.161  -1.116  -1.010  -1.001  -0.966
70    D         0.093   0.134   0.072   0.092   0.152   0.062  -0.020   0.045  -0.053
71    N        -0.061  -0.058  -0.035  -0.334  -0.329  -0.289  -0.267  -0.261  -0.225
72    A        -0.061  -0.058  -0.035   0.033   0.039   0.078  -0.267  -0.261  -0.225
73    D         1.821   1.827   1.851   2.000   2.010   2.045   1.962   1.969   1.999
74    I        -0.061  -0.058  -0.035  -0.264  -0.259  -0.219  -0.267  -0.261  -0.225
75    L         1.821   1.827   1.851   1.815   1.824   1.859   1.962   1.969   1.999
76    S         1.821   1.827   1.851   1.624   1.633   1.668   1.962   1.969   1.999
77    M        -0.061  -0.058  -0.035  -0.100  -0.094  -0.055  -0.267  -0.261  -0.225
78    E        -0.061  -0.058  -0.035  -0.264  -0.259  -0.219  -0.267  -0.261  -0.225
79    I         1.821   1.827   1.851   1.815   1.824   1.859   1.962   1.969   1.999
80    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
81    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
82    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
83    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
84    P        -0.061  -0.058  -0.035   0.097   0.104   0.142  -0.267  -0.261  -0.225
85    V        -0.061  -0.058  -0.035  -0.264  -0.259  -0.219  -0.267  -0.261  -0.225
86    D        -0.061  -0.058  -0.035   0.097   0.104   0.142  -0.267  -0.261  -0.225
87    M        -1.162  -1.157  -1.138  -0.926  -0.915  -0.881  -1.010  -1.001  -0.966
88    M        -1.162  -1.157  -1.138  -1.118  -1.118  -1.073  -1.010  -1.001  -0.966
89    Q        -1.162  -1.157  -1.138  -1.000  -1.004  -0.954  -1.010  -1.001  -0.966
90    S         1.821   1.827   1.851   1.737   1.745   1.781   1.962   1.969   1.999
91    A         0.093   0.059   0.038   0.242   0.191   0.156  -0.020  -0.072  -0.107
92    G         0.093   0.101   0.069   0.242   0.259   0.206  -0.020  -0.007  -0.058
93    R        -1.162  -1.157  -1.138  -1.187  -1.165  -1.142  -1.010  -1.001  -0.966
94    I        -1.162  -1.157  -1.138  -0.798  -0.774  -0.753  -1.010  -1.001  -0.966
95    N        -1.162  -1.157  -1.138  -1.025  -1.015  -0.979  -1.010  -1.001  -0.966
96    K         0.093   0.101   0.069  -0.116  -0.099  -0.156  -0.020  -0.007  -0.058
97    R         0.093   0.059   0.038  -0.156  -0.204  -0.221  -0.020  -0.072  -0.107
98    E         0.093   0.059   0.038   0.273   0.221   0.178  -0.020  -0.072  -0.107
99    L        -0.061  -0.058  -0.035  -0.113  -0.107  -0.068  -0.267  -0.261  -0.225
100   L        -0.061  -0.058  -0.035  -0.127  -0.121  -0.082  -0.267  -0.261  -0.225
101   S        -0.061  -0.058  -0.035  -0.278  -0.273  -0.233  -0.267  -0.261  -0.225
102   E        -0.061  -0.058  -0.035   0.046   0.052   0.091  -0.267  -0.261  -0.225
103   A        -0.061  -0.058  -0.035  -0.278  -0.273  -0.233  -0.267  -0.261  -0.225
104   E        -0.061  -0.058  -0.035  -0.007  -0.001   0.038  -0.267  -0.261  -0.225
105   I        -0.061  -0.058  -0.035  -0.033  -0.027   0.012  -0.267  -0.261  -0.225
106   A        -0.061  -0.058  -0.035   0.072   0.078   0.117  -0.267  -0.261  -0.225
107   R        -0.061  -0.058  -0.035  -0.209  -0.203  -0.164  -0.267  -0.261  -0.225
108   S        -1.162  -1.157  -1.138  -1.331  -1.331  -1.285  -1.010  -1.001  -0.966
109   S        -1.162  -1.157  -1.138  -1.058  -1.036  -1.013  -1.010  -1.001  -0.966
110   V         0.093   0.101   0.069   0.193   0.203   0.144  -0.020  -0.007  -0.058
111   E         0.093   0.059   0.038   0.273   0.221   0.178  -0.020  -0.072  -0.107
112   N        -1.162  -1.157  -1.138  -1.187  -1.187  -1.142  -1.010  -1.001  -0.966
113   A        -1.162  -1.157  -1.138  -0.950  -0.949  -0.905  -1.010  -1.001  -0.966
114   Q         0.093   0.134   0.072   0.149   0.217   0.118  -0.020   0.045  -0.053
115   M         0.093   0.134   0.072  -0.129  -0.072  -0.147  -0.020   0.045  -0.053
116   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
117   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
118   R         0.093   0.134   0.072   0.015   0.098  -0.039  -0.020   0.045  -0.053
119   F         0.093   0.134   0.072   0.291   0.353   0.259  -0.020   0.045  -0.053
120   N         0.093   0.101   0.069   0.098   0.105   0.064  -0.020  -0.007  -0.058
121   S         0.093   0.134   0.072   0.111   0.188   0.067  -0.020   0.045  -0.053
122   G         1.821   1.827   1.851   1.958   1.970   2.003   1.962   1.969   1.999
123   K         0.093   0.134   0.072  -0.327  -0.257  -0.365  -0.020   0.045  -0.053
124   S         0.093   0.134   0.072   0.161   0.233   0.116  -0.020   0.045  -0.053
125   I         0.093   0.134   0.072   0.224   0.293   0.185  -0.020   0.045  -0.053
126   I        -1.162  -1.157  -1.138  -1.008  -0.991  -0.963  -1.010  -1.001  -0.966
127   V         1.821   1.827   1.851   2.012   2.018   2.057   1.962   1.969   1.999
128   N        -1.162  -1.157  -1.138  -1.240  -1.235  -1.195  -1.010  -1.001  -0.966
129   K        -1.162  -1.157  -1.138  -1.067  -1.041  -1.021  -1.010  -1.001  -0.966
130   N         0.093   0.101   0.069   0.086   0.095   0.050  -0.020  -0.007  -0.058
131   N         0.093   0.101   0.069   0.092   0.100   0.057  -0.020  -0.007  -0.058
132   P        -1.162  -1.157  -1.138  -0.886  -0.885  -0.840  -1.010  -1.001  -0.966
133   A         0.093   0.059   0.038   0.111   0.050  -0.000  -0.020  -0.072  -0.107
134   E        -1.162  -1.157  -1.138  -1.153  -1.164  -1.107  -1.010  -1.001  -0.966
135   S         0.093   0.101   0.069   0.009   0.022  -0.025  -0.020  -0.007  -0.058
136   F         0.093   0.101   0.069   0.297   0.307   0.259  -0.020  -0.007  -0.058
137   K        -1.162  -1.157  -1.138  -1.414  -1.389  -1.368  -1.010  -1.001  -0.966
138   R         0.093   0.059   0.038  -0.176  -0.226  -0.245  -0.020  -0.072  -0.107
139   L         0.093   0.059   0.038   0.098   0.046   0.018  -0.020  -0.072  -0.107
140   N        -1.162  -1.157  -1.138  -1.187  -1.187  -1.142  -1.010  -1.001  -0.966
141   R         0.093   0.101   0.069  -0.163  -0.154  -0.188  -0.020  -0.007  -0.058
142   I        -1.162  -1.157  -1.138  -1.153  -1.134  -1.107  -1.010  -1.001  -0.966
143   M        -1.162  -1.157  -1.138  -0.950  -0.942  -0.905  -1.010  -1.001  -0.966
144   F        -1.162  -1.157  -1.138  -1.058  -1.058  -1.013  -1.010  -1.001  -0.966
145   E        -1.162  -1.157  -1.138  -0.918  -0.907  -0.872  -1.010  -1.001  -0.966
146   N         1.821   1.827   1.851   1.821   1.825   1.865   1.962   1.969   1.999
147   N        -1.162  -1.157  -1.138  -1.223  -1.218  -1.177  -1.010  -1.001  -0.966
148   I         0.093   0.101   0.069   0.161   0.176   0.127  -0.020  -0.007  -0.058
149   P         0.093   0.059   0.038   0.168   0.093   0.031  -0.020  -0.072  -0.107
150   G        -1.162  -1.157  -1.138  -0.751  -0.731  -0.706  -1.010  -1.001  -0.966
151   D         0.093   0.059   0.038   0.155   0.094   0.050  -0.020  -0.072  -0.107
152   K         0.093   0.059   0.038  -0.030  -0.077  -0.107  -0.020  -0.072  -0.107
153   R         1.821   1.827   1.851   1.521   1.528   1.566   1.962   1.969   1.999
154   S        -1.162  -1.157  -1.138  -1.331  -1.310  -1.285  -1.010  -1.001  -0.966
155   Q         1.821   1.827   1.851   1.985   1.992   2.030   1.962   1.969   1.999
156   R         0.093   0.059   0.038  -0.299  -0.358  -0.391  -0.020  -0.072  -0.107
157   F         0.093   0.059   0.038   0.079   0.005  -0.053  -0.020  -0.072  -0.107
158   Y        -1.162  -1.157  -1.138  -0.607  -0.606  -0.561  -1.010  -1.001  -0.966
159   M         0.093   0.059   0.038   0.285   0.232   0.181  -0.020  -0.072  -0.107
160   K         0.093   0.059   0.038  -0.251  -0.315  -0.370  -0.020  -0.072  -0.107
161   P         1.821   1.827   1.851   2.120   2.128   2.164   1.962   1.969   1.999
162   G         0.093   0.059   0.038   0.211   0.160   0.119  -0.020  -0.072  -0.107
163   K         1.821   1.827   1.851   1.680   1.693   1.724   1.962   1.969   1.999
164   V        -1.162  -1.157  -1.138  -0.790  -0.777  -0.745  -1.010  -1.001  -0.966
165   A         0.093   0.059   0.038   0.015  -0.054  -0.115  -0.020  -0.072  -0.107
166   E         0.093   0.059   0.038   0.149   0.088   0.030  -0.020  -0.072  -0.107
167   L         0.093   0.059   0.038   0.086   0.033   0.003  -0.020  -0.072  -0.107
168   K         0.093   0.059   0.038  -0.116  -0.168  -0.209  -0.020  -0.072  -0.107
169   R         0.093   0.059   0.038  -0.327  -0.386  -0.425  -0.020  -0.072  -0.107
170   S         0.093   0.059   0.038  -0.197  -0.266  -0.318  -0.020  -0.072  -0.107
171   Q         0.093   0.059   0.038   0.267   0.213   0.179  -0.020  -0.072  -0.107
172   R         0.093   0.059   0.038  -0.024  -0.062  -0.065  -0.020  -0.072  -0.107
173   H         0.093   0.059   0.038   0.633   0.583   0.554  -0.020  -0.072  -0.107
174   R         1.821   1.827   1.851   1.521   1.528   1.566   1.962   1.969   1.999
175   K         0.093   0.134   0.072  -0.327  -0.257  -0.365  -0.020   0.045  -0.053
176   E        -1.162  -1.157  -1.138  -1.179  -1.188  -1.133  -1.010  -1.001  -0.966
177   F         1.821   1.827   1.851   2.026   2.034   2.070   1.962   1.969   1.999
178   M        -1.162  -1.157  -1.138  -1.196  -1.193  -1.151  -1.010  -1.001  -0.966
179   M        -1.162  -1.157  -1.138  -1.042  -1.030  -0.996  -1.010  -1.001  -0.966
180   G         1.821   1.827   1.851   1.958   1.970   2.003   1.962   1.969   1.999
181   F         1.821   1.827   1.851   2.026   2.034   2.070   1.962   1.969   1.999
182   K         1.821   1.827   1.851   1.680   1.693   1.724   1.962   1.969   1.999
183   R         0.093   0.059   0.038  -0.156  -0.202  -0.221  -0.020  -0.072  -0.107
184   L         1.821   1.827   1.851   1.807   1.816   1.851   1.962   1.969   1.999
185   I         0.093   0.059   0.038   0.066   0.011  -0.035  -0.020  -0.072  -0.107
186   E         0.093   0.059   0.038   0.412   0.369   0.342  -0.020  -0.072  -0.107
187   I         0.093   0.059   0.038   0.143   0.093   0.056  -0.020  -0.072  -0.107
188   V         1.821   1.827   1.851   2.012   2.018   2.057   1.962   1.969   1.999
189   K         0.093   0.059   0.038  -0.109  -0.164  -0.201  -0.020  -0.072  -0.107
190   D         1.821   1.827   1.851   1.972   1.981   2.016   1.962   1.969   1.999
191   A         1.821   1.827   1.851   1.958   1.970   2.003   1.962   1.969   1.999
192   K         0.093   0.134   0.072  -0.327  -0.257  -0.365  -0.020   0.045  -0.053
193   R         1.821   1.827   1.851   1.521   1.528   1.566   1.962   1.969   1.999
194   K         0.093   0.059   0.038  -0.251  -0.315  -0.370  -0.020  -0.072  -0.107
195   G         1.821   1.827   1.851   1.958   1.970   2.003   1.962   1.969   1.999
196   Y         1.821   1.827   1.851   2.199   2.205   2.243   1.962   1.969   1.999
* 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/P38175
Output conservation file - output/P38175
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
