1     M         1.529   1.539   1.642   1.770   1.786   1.940   1.687   1.701   1.860
2     K         0.192   0.207  -0.103   0.324   0.351  -0.102   0.202   0.226  -0.236
3     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
4     L         1.529   1.539   1.642   1.331   1.340   1.514   1.687   1.701   1.860
5     V         0.844   0.853   0.626   0.974   0.991   0.652   0.887   0.902   0.482
6     N        -0.108  -0.082  -0.206  -0.287  -0.235  -0.470  -0.255  -0.211  -0.392
7     F         1.529   1.539   1.642   1.835   1.850   2.003   1.687   1.701   1.860
8     L         1.529   1.539   1.642   1.331   1.340   1.514   1.687   1.701   1.860
9     K         0.326   0.344   0.427   0.264   0.305   0.382  -0.027   0.006   0.097
10    K         0.507   0.453   0.522   0.400   0.306   0.392   0.316   0.216   0.285
11    L         0.192   0.137  -0.068   0.168   0.087  -0.146   0.202   0.124  -0.184
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    R        -0.676  -0.631  -0.733  -0.674  -0.593  -0.770  -0.712  -0.657  -0.741
16    N         0.844   0.883   0.622   0.936   0.983   0.611   0.887   0.948   0.474
17    E         0.507   0.453   0.522   0.701   0.609   0.692   0.316   0.216   0.285
18    Q        -1.307  -1.292  -1.197  -1.255  -1.222  -1.111  -1.169  -1.152  -0.998
19    V         0.507   0.453   0.522   0.481   0.388   0.475   0.316   0.216   0.285
20    T        -0.108  -0.070  -0.198  -0.082  -0.022  -0.226  -0.255  -0.202  -0.385
21    I        -0.108  -0.145  -0.178  -0.131  -0.207  -0.294  -0.255  -0.319  -0.349
22    E         1.529   1.539   1.642   1.786   1.800   1.956   1.687   1.701   1.860
23    L         1.529   1.539   1.642   1.331   1.340   1.514   1.687   1.701   1.860
24    K         1.529   1.539   1.642   1.530   1.547   1.707   1.687   1.701   1.860
25    N         1.529   1.539   1.642   1.553   1.561   1.729   1.687   1.701   1.860
26    G         1.529   1.539   1.642   1.466   1.479   1.645   1.687   1.701   1.860
27    T         0.507   0.453   0.522   0.456   0.364   0.443   0.316   0.216   0.285
28    T        -0.754  -0.747  -0.746  -0.796  -0.781  -0.767  -0.826  -0.815  -0.760
29    V        -0.108  -0.127  -0.175  -0.144  -0.188  -0.297  -0.255  -0.297  -0.344
30    W        -1.188  -1.222  -1.167  -0.787  -0.837  -0.843  -1.055  -1.080  -0.970
31    G         1.529   1.539   1.642   1.466   1.479   1.645   1.687   1.701   1.860
32    T         0.192   0.177  -0.095   0.385   0.375  -0.028   0.202   0.184  -0.223
33    L        -0.439  -0.429  -0.304  -0.818  -0.812  -0.603  -0.712  -0.697  -0.527
34    Q        -1.622  -1.596  -1.520  -1.571  -1.560  -1.381  -1.283  -1.258  -1.119
35    S         1.529   1.539   1.642   1.598   1.611   1.773   1.687   1.701   1.860
36    V         0.507   0.453   0.522   0.584   0.508   0.612   0.316   0.216   0.285
37    S        -0.423  -0.462  -0.629  -0.206  -0.264  -0.527  -0.369  -0.417  -0.612
38    P        -0.423  -0.374  -0.650  -0.105  -0.031  -0.466  -0.369  -0.304  -0.637
39    Q        -0.992  -1.030  -1.104  -0.789  -0.856  -1.077  -0.826  -0.865  -0.908
40    M         1.529   1.539   1.642   1.770   1.786   1.940   1.687   1.701   1.860
41    N         0.844   0.872   0.625   0.957   0.989   0.662   0.887   0.930   0.479
42    A        -0.873  -0.870  -0.792  -1.061  -1.080  -0.906  -0.940  -0.939  -0.806
43    I        -1.307  -1.286  -1.172  -1.090  -1.047  -0.888  -1.169  -1.149  -0.979
44    L         0.192   0.184  -0.091   0.135   0.126  -0.243   0.202   0.194  -0.217
45    T        -0.242  -0.218  -0.234  -0.452  -0.403  -0.441  -0.484  -0.448  -0.439
46    D        -0.242  -0.222  -0.232  -0.267  -0.239  -0.202  -0.484  -0.453  -0.436
47    V         0.844   0.829   0.630   0.979   0.962   0.668   0.887   0.863   0.490
48    K        -0.108  -0.135  -0.189  -0.221  -0.274  -0.387  -0.255  -0.302  -0.374
49    L         0.326   0.350   0.435   0.007   0.039   0.190  -0.027   0.018   0.113
50    T        -0.108  -0.180  -0.202  -0.082  -0.174  -0.236  -0.255  -0.346  -0.392
51    L        -1.188  -1.171  -1.167  -1.217  -1.191  -1.128  -1.055  -1.041  -0.970
52    P         0.326   0.350   0.435   0.196   0.248   0.340  -0.027   0.018   0.113
53    Q        -1.937  -1.948  -1.804  -1.871  -1.900  -1.661  -1.397  -1.400  -1.212
54    P        -1.188  -1.151  -1.159  -1.115  -1.041  -1.084  -1.055  -1.012  -0.963
55    R        -1.503  -1.451  -1.484  -1.138  -1.042  -1.148  -1.169  -1.115  -1.089
56    L        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
57    N        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
58    K        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
59    L        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
60    N        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
61    S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
62    N        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
63    G        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
64    I        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
65    A        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
66    M        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
67    A        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
68    S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
69    L        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
70    Y        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
71    L        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
72    T        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
73    G        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
74    G        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
75    Q        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
76    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
77    Q        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
78    P        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
79    T        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
80    A        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
81    S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
82    D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
83    N        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
84    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
85    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
86    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
87    I        -0.992  -0.943  -1.118  -0.660  -0.582  -0.881  -0.826  -0.768  -0.922
88    A        -1.188  -1.221  -1.148  -1.059  -1.100  -0.975  -1.055  -1.079  -0.955
89    S        -0.676  -0.687  -0.721  -0.695  -0.746  -0.732  -0.712  -0.733  -0.725
90    L         0.844   0.865   0.630   0.713   0.738   0.414   0.887   0.920   0.489
91    Q        -0.361  -0.334  -0.284  -0.254  -0.208  -0.150  -0.598  -0.555  -0.500
92    Y        -0.676  -0.658  -0.715  -0.236  -0.206  -0.312  -0.712  -0.691  -0.724
93    I        -0.108  -0.078  -0.200  -0.062  -0.018  -0.243  -0.255  -0.209  -0.388
94    N         0.844   0.865   0.630   0.936   0.961   0.625   0.887   0.920   0.489
95    I         1.529   1.539   1.642   1.615   1.624   1.790   1.687   1.701   1.860
96    R         1.529   1.539   1.642   1.443   1.463   1.623   1.687   1.701   1.860
97    G         1.529   1.539   1.642   1.466   1.479   1.645   1.687   1.701   1.860
98    N         0.844   0.872   0.625   0.936   0.968   0.616   0.887   0.930   0.479
99    T        -0.108  -0.142  -0.173  -0.067  -0.123  -0.175  -0.255  -0.315  -0.341
100   I         0.844   0.766   0.650   0.998   0.892   0.716   0.887   0.763   0.526
101   R         1.529   1.539   1.642   1.443   1.463   1.623   1.687   1.701   1.860
102   Q        -0.108  -0.061  -0.203   0.176   0.238   0.064  -0.255  -0.187  -0.386
103   I        -0.108  -0.067  -0.206   0.068   0.124  -0.029  -0.255  -0.191  -0.392
104   I         0.507   0.453   0.522   0.413   0.299   0.375   0.316   0.216   0.285
105   L         1.529   1.539   1.642   1.331   1.340   1.514   1.687   1.701   1.860
106   P         1.529   1.539   1.642   1.693   1.709   1.865   1.687   1.701   1.860
107   D         1.529   1.539   1.642   1.737   1.756   1.908   1.687   1.701   1.860
108   S         0.507   0.453   0.522   0.543   0.458   0.555   0.316   0.216   0.285
109   L         0.844   0.853   0.626   0.717   0.725   0.415   0.887   0.902   0.482
110   N         0.326   0.350   0.435   0.158   0.196   0.320  -0.027   0.018   0.113
111   L         0.192   0.098  -0.097   0.107  -0.024  -0.309   0.202   0.071  -0.227
112   D         0.844   0.766   0.650   1.147   1.056   0.889   0.887   0.763   0.526
113   S        -0.754  -0.764  -0.751  -0.770  -0.775  -0.725  -0.826  -0.830  -0.763
114   L         0.507   0.453   0.522   0.219   0.125   0.229   0.316   0.216   0.285
115   L         1.529   1.539   1.642   1.331   1.340   1.514   1.687   1.701   1.860
116   V        -0.361  -0.379  -0.253  -0.409  -0.429  -0.252  -0.598  -0.621  -0.454
117   D         0.192   0.098  -0.097   0.476   0.349  -0.017   0.202   0.071  -0.227
118   Q        -0.873  -0.879  -0.793  -0.750  -0.766  -0.614  -0.940  -0.946  -0.807
119   K        -1.937  -1.948  -1.804  -1.630  -1.625  -1.432  -1.397  -1.400  -1.212
120   Q        -1.307  -1.294  -1.179  -1.186  -1.169  -0.982  -1.169  -1.154  -0.983
121   L        -0.108  -0.070  -0.208  -0.213  -0.149  -0.427  -0.255  -0.203  -0.396
122   N        -1.307  -1.289  -1.197  -1.255  -1.234  -1.078  -1.169  -1.150  -0.998
123   S        -0.108  -0.070  -0.208  -0.220  -0.156  -0.411  -0.255  -0.203  -0.396
124   L        -1.188  -1.171  -1.167  -1.479  -1.463  -1.421  -1.055  -1.041  -0.970
125   R        -0.754  -0.811  -0.736  -0.976  -1.041  -0.924  -0.826  -0.875  -0.750
126   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
127   R        -0.361  -0.376  -0.264  -0.683  -0.708  -0.568  -0.598  -0.617  -0.472
128   S        -1.307  -1.294  -1.177  -1.222  -1.188  -1.011  -1.169  -1.154  -0.982
129   G        -0.242  -0.222  -0.236  -0.345  -0.318  -0.311  -0.484  -0.450  -0.440
130   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
131   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
132   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
133   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
134   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
135   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
136   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
137   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
138   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
139   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
140   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
141   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
142   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
143   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
144   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
145   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
146   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
147   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
148   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
149   -        -0.893  -0.858  -0.778  -0.771  -0.723  -0.629  -0.945  -0.905  -0.788
150   Q        -1.649  -1.646  -1.519  -1.477  -1.483  -1.271  -1.297  -1.292  -1.117
151   I        -1.153  -1.197  -1.175  -1.186  -1.247  -1.210  -0.999  -1.044  -0.976
152   A        -0.793  -0.842  -0.752  -0.895  -0.983  -0.807  -0.850  -0.898  -0.765
153   N        -1.649  -1.662  -1.528  -1.603  -1.628  -1.393  -1.297  -1.304  -1.124
154   D        -0.209  -0.174  -0.227  -0.325  -0.269  -0.349  -0.402  -0.347  -0.422
155   P        -0.929  -0.916  -0.797  -1.190  -1.179  -0.987  -0.999  -0.981  -0.811
156   S        -2.009  -1.997  -1.814  -1.913  -1.904  -1.633  -1.446  -1.433  -1.218
157   K        -0.433  -0.443  -0.297  -0.880  -0.896  -0.673  -0.700  -0.712  -0.518
158   K         0.288   0.304   0.419  -0.091  -0.062   0.114  -0.104  -0.072   0.081
159   R         1.529   1.539   1.642   1.424   1.445   1.605   1.687   1.701   1.860
160   R        -0.793  -0.856  -0.778  -1.015  -1.092  -0.972  -0.850  -0.911  -0.791
161   R        -1.289  -1.258  -1.181  -1.578  -1.501  -1.438  -1.148  -1.115  -0.983
162   D        -0.310  -0.294  -0.256  -0.389  -0.359  -0.283  -0.547  -0.525  -0.464
163   F        -0.793  -0.744  -0.759  -0.777  -0.719  -0.706  -0.850  -0.788  -0.770
164   G        -0.730  -0.796  -0.774  -0.885  -0.983  -0.988  -0.750  -0.825  -0.783
165   A         0.784   0.829   0.624   0.808   0.862   0.605   0.791   0.864   0.479
166   P        -0.108  -0.070  -0.208  -0.242  -0.183  -0.389  -0.255  -0.203  -0.396
167   A        -0.108  -0.079  -0.206  -0.146  -0.100  -0.278  -0.255  -0.209  -0.393
168   N        -1.188  -1.150  -1.152  -1.078  -1.027  -0.984  -1.055  -1.013  -0.959
169   K        -1.188  -1.207  -1.158  -1.140  -1.149  -1.070  -1.055  -1.069  -0.964
170   R         1.529   1.539   1.642   1.443   1.463   1.623   1.687   1.701   1.860
171   P        -0.108  -0.079  -0.206  -0.180  -0.134  -0.320  -0.255  -0.209  -0.393
172   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
173   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
174   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
175   R        -0.793  -0.831  -0.753  -1.024  -1.078  -0.967  -0.850  -0.882  -0.764
176   R         0.441   0.438   0.464   0.185   0.175   0.175   0.195   0.188   0.171
177   G        -0.433  -0.413  -0.294  -0.614  -0.568  -0.425  -0.700  -0.670  -0.512
178   L        -0.676  -0.663  -0.705  -0.516  -0.504  -0.644  -0.712  -0.704  -0.712
* 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/Q02260
Output conservation file - output/Q02260
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
