1     M         1.189   1.190   1.234   1.430   1.431   1.488   1.270   1.272   1.332
2     S         0.187   0.195   0.002   0.290   0.301   0.026   0.140   0.153  -0.160
3     S         0.062   0.028  -0.039   0.107   0.057  -0.044  -0.054  -0.109  -0.229
4     S        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
5     Q        -0.924  -0.923  -0.901  -1.082  -1.078  -0.994  -0.990  -0.988  -0.928
6     V        -0.200  -0.186  -0.125  -0.216  -0.182  -0.103  -0.495  -0.472  -0.378
7     V        -0.894  -0.915  -0.886  -0.640  -0.658  -0.624  -0.937  -0.969  -0.907
8     R        -1.480  -1.465  -1.455  -1.354  -1.325  -1.340  -1.272  -1.256  -1.207
9     D         0.187   0.163  -0.004   0.252   0.222  -0.030   0.140   0.105  -0.170
10    S        -0.924  -0.923  -0.901  -0.895  -0.894  -0.840  -0.990  -0.988  -0.928
11    A        -0.715  -0.709  -0.846  -0.443  -0.435  -0.661  -0.707  -0.700  -0.857
12    K         0.187   0.195   0.002  -0.143  -0.130  -0.407   0.140   0.153  -0.160
13    K        -0.159  -0.152  -0.111  -0.557  -0.548  -0.455  -0.425  -0.412  -0.353
14    L        -0.924  -0.923  -0.901  -1.020  -1.020  -0.959  -0.990  -0.988  -0.928
15    V        -0.715  -0.709  -0.846  -0.538  -0.530  -0.791  -0.707  -0.700  -0.857
16    N        -0.924  -0.935  -0.901  -1.225  -1.234  -1.151  -0.990  -0.999  -0.928
17    L         0.187   0.187   0.001   0.176   0.176  -0.036   0.140   0.141  -0.162
18    L         1.189   1.190   1.234   1.020   1.022   1.091   1.270   1.272   1.332
19    E        -0.715  -0.709  -0.846  -0.586  -0.578  -0.771  -0.707  -0.700  -0.857
20    K        -0.924  -0.923  -0.901  -1.116  -1.116  -1.060  -0.990  -0.988  -0.928
21    Y        -0.924  -0.935  -0.901  -0.949  -0.962  -0.885  -0.990  -0.999  -0.928
22    P         1.189   1.190   1.234   1.386   1.388   1.445   1.270   1.272   1.332
23    K         0.187   0.187   0.001  -0.095  -0.095  -0.326   0.140   0.141  -0.162
24    D        -0.159  -0.152  -0.118  -0.247  -0.233  -0.200  -0.425  -0.413  -0.364
25    R         0.187   0.185   0.004   0.250   0.247  -0.113   0.140   0.139  -0.158
26    I        -1.480  -1.469  -1.447  -1.301  -1.287  -1.259  -1.272  -1.260  -1.199
27    H         0.187   0.163  -0.004  -0.054  -0.081  -0.261   0.140   0.105  -0.170
28    H         1.189   1.190   1.234   1.488   1.490   1.544   1.270   1.272   1.332
29    L        -0.159  -0.156  -0.110  -0.379  -0.375  -0.293  -0.425  -0.420  -0.351
30    V        -2.035  -2.033  -1.927  -1.652  -1.648  -1.498  -1.555  -1.551  -1.409
31    S         1.189   1.190   1.234   1.191   1.193   1.257   1.270   1.272   1.332
32    F         1.189   1.190   1.234   1.349   1.351   1.410   1.270   1.272   1.332
33    R         0.187   0.163  -0.004  -0.112  -0.143  -0.361   0.140   0.105  -0.170
34    D        -0.159  -0.149  -0.115  -0.247  -0.227  -0.195  -0.425  -0.407  -0.360
35    V        -1.480  -1.487  -1.448  -1.258  -1.269  -1.201  -1.272  -1.279  -1.200
36    Q         1.189   1.190   1.234   1.342   1.344   1.402   1.270   1.272   1.332
37    I         0.187   0.209   0.007   0.271   0.305  -0.047   0.140   0.175  -0.152
38    A        -2.035  -2.033  -1.927  -1.996  -1.990  -1.831  -1.555  -1.551  -1.409
39    R         1.189   1.190   1.234   1.282   1.282   1.345   1.270   1.272   1.332
40    F         1.189   1.190   1.234   1.349   1.351   1.410   1.270   1.272   1.332
41    R        -0.924  -0.923  -0.901  -0.882  -0.882  -0.828  -0.990  -0.988  -0.928
42    R        -1.480  -1.465  -1.455  -1.213  -1.193  -1.179  -1.272  -1.256  -1.207
43    V        -0.894  -0.933  -0.894  -0.848  -0.952  -0.885  -0.937  -0.990  -0.917
44    A         1.189   1.190   1.234   1.286   1.289   1.348   1.270   1.272   1.332
45    G         1.189   1.190   1.234   1.253   1.254   1.316   1.270   1.272   1.332
46    L        -1.012  -1.009  -0.924  -1.090  -1.089  -0.953  -1.084  -1.080  -0.952
47    P        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
48    N        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
49    V        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
50    D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
51    D        -1.012  -1.009  -0.924  -1.284  -1.283  -1.142  -1.084  -1.080  -0.952
52    K        -1.012  -1.009  -0.924  -1.196  -1.201  -1.056  -1.084  -1.080  -0.952
53    G        -0.086  -0.095  -0.097  -0.130  -0.146  -0.176  -0.299  -0.314  -0.329
54    K        -1.012  -1.009  -0.924  -1.277  -1.277  -1.134  -1.084  -1.080  -0.952
55    S        -0.086  -0.095  -0.097  -0.094  -0.110  -0.142  -0.299  -0.314  -0.329
56    I        -1.012  -1.009  -0.924  -1.015  -1.007  -0.880  -1.084  -1.080  -0.952
57    K        -1.012  -1.009  -0.924  -1.262  -1.261  -1.120  -1.084  -1.080  -0.952
58    E        -0.086  -0.063  -0.089  -0.135  -0.096  -0.143  -0.299  -0.260  -0.314
59    K        -0.086  -0.063  -0.089  -0.499  -0.463  -0.492  -0.299  -0.260  -0.314
60    K         1.189   1.190   1.234   0.851   0.853   0.927   1.270   1.272   1.332
61    P         1.189   1.190   1.234   1.340   1.342   1.401   1.270   1.272   1.332
62    S         1.189   1.190   1.234   1.186   1.188   1.252   1.270   1.272   1.332
63    L         1.189   1.190   1.234   1.062   1.063   1.132   1.270   1.272   1.332
64    D        -2.035  -2.033  -1.927  -1.718  -1.715  -1.562  -1.555  -1.551  -1.409
65    E        -0.715  -0.709  -0.846  -0.835  -0.825  -1.137  -0.707  -0.700  -0.857
66    I        -0.159  -0.159  -0.115  -0.162  -0.163  -0.108  -0.425  -0.424  -0.360
67    K         0.187   0.185   0.004  -0.101  -0.103  -0.333   0.140   0.139  -0.158
68    S        -0.715  -0.734  -0.833  -0.501  -0.532  -0.691  -0.707  -0.732  -0.841
69    I         0.187   0.187   0.001   0.371   0.371   0.115   0.140   0.141  -0.162
70    I         1.189   1.190   1.234   1.275   1.278   1.338   1.270   1.272   1.332
71    N        -0.086  -0.095  -0.097  -0.064  -0.083  -0.115  -0.299  -0.314  -0.329
72    R         1.189   1.190   1.234   1.264   1.264   1.327   1.270   1.272   1.332
73    T         1.189   1.190   1.234   1.340   1.342   1.401   1.270   1.272   1.332
74    S         1.189   1.190   1.234   1.186   1.188   1.252   1.270   1.272   1.332
75    G         1.189   1.190   1.234   1.253   1.254   1.316   1.270   1.272   1.332
76    P         1.189   1.190   1.234   1.340   1.342   1.401   1.270   1.272   1.332
77    L         1.189   1.190   1.234   1.062   1.063   1.132   1.270   1.272   1.332
78    G         1.189   1.190   1.234   1.253   1.254   1.316   1.270   1.272   1.332
79    L         1.189   1.190   1.234   1.062   1.063   1.132   1.270   1.272   1.332
80    N        -1.012  -1.009  -0.924  -1.167  -1.151  -1.028  -1.084  -1.080  -0.952
81    K         1.189   1.190   1.234   0.851   0.853   0.927   1.270   1.272   1.332
82    E        -0.086  -0.095  -0.097  -0.099  -0.116  -0.149  -0.299  -0.314  -0.329
83    M        -1.012  -1.009  -0.924  -0.975  -0.964  -0.841  -1.084  -1.080  -0.952
84    L         1.189   1.190   1.234   1.062   1.063   1.132   1.270   1.272   1.332
85    T        -0.086  -0.095  -0.097  -0.421  -0.433  -0.406  -0.299  -0.314  -0.329
86    K         1.189   1.190   1.234   0.851   0.853   0.927   1.270   1.272   1.332
87    I        -1.012  -1.009  -0.924  -1.090  -1.090  -0.953  -1.084  -1.080  -0.952
88    Q         1.189   1.190   1.234   1.318   1.321   1.380   1.270   1.272   1.332
89    N        -1.012  -1.009  -0.924  -1.015  -1.008  -0.880  -1.084  -1.080  -0.952
90    K        -0.086  -0.095  -0.097  -0.243  -0.263  -0.330  -0.299  -0.314  -0.329
91    M        -0.086  -0.095  -0.097  -0.191  -0.205  -0.190  -0.299  -0.314  -0.329
92    V        -1.012  -1.009  -0.924  -0.896  -0.894  -0.765  -1.084  -1.080  -0.952
93    D        -1.012  -1.009  -0.924  -0.995  -0.987  -0.861  -1.084  -1.080  -0.952
94    E        -0.086  -0.095  -0.097  -0.150  -0.164  -0.176  -0.299  -0.314  -0.329
95    K        -1.012  -1.009  -0.924  -0.995  -1.001  -0.861  -1.084  -1.080  -0.952
96    F        -0.086  -0.095  -0.097  -0.010  -0.026  -0.051  -0.299  -0.314  -0.329
97    T        -0.715  -0.715  -0.844  -0.543  -0.544  -0.720  -0.707  -0.708  -0.855
98    E         0.187   0.209   0.007   0.252   0.285  -0.014   0.140   0.175  -0.152
99    E        -1.480  -1.465  -1.455  -1.451  -1.426  -1.423  -1.272  -1.256  -1.207
100   S        -1.480  -1.480  -1.470  -1.219  -1.223  -1.208  -1.272  -1.272  -1.221
101   I        -0.159  -0.159  -0.115  -0.425  -0.425  -0.347  -0.425  -0.424  -0.360
102   N        -1.480  -1.480  -1.470  -1.539  -1.539  -1.432  -1.272  -1.272  -1.221
103   E        -0.924  -0.923  -0.901  -1.280  -1.277  -1.273  -0.990  -0.988  -0.928
104   Q         1.189   1.190   1.234   1.342   1.344   1.402   1.270   1.272   1.332
105   I        -0.924  -0.923  -0.901  -0.984  -0.984  -0.999  -0.990  -0.988  -0.928
106   R        -0.159  -0.156  -0.110  -0.200  -0.197  -0.133  -0.425  -0.420  -0.351
107   A        -0.159  -0.165  -0.121  -0.226  -0.235  -0.164  -0.425  -0.436  -0.369
108   L         1.189   1.190   1.234   1.020   1.022   1.091   1.270   1.272   1.332
109   S        -2.035  -2.033  -1.927  -2.009  -2.011  -1.843  -1.555  -1.551  -1.409
110   T        -2.035  -2.033  -1.927  -1.577  -1.575  -1.425  -1.555  -1.551  -1.409
111   I        -0.159  -0.159  -0.115  -0.425  -0.425  -0.347  -0.425  -0.424  -0.360
112   M        -0.715  -0.709  -0.846  -0.263  -0.256  -0.451  -0.707  -0.700  -0.857
113   N        -0.159  -0.152  -0.111  -0.202  -0.190  -0.141  -0.425  -0.412  -0.353
114   N         0.187   0.163  -0.004   0.373   0.341   0.087   0.140   0.105  -0.170
115   K         1.189   1.190   1.234   0.801   0.804   0.879   1.270   1.272   1.332
116   F         0.187   0.163  -0.004   0.424   0.393   0.139   0.140   0.105  -0.170
117   R         0.187   0.163  -0.004  -0.112  -0.143  -0.361   0.140   0.105  -0.170
118   N         0.187   0.185   0.004   0.401   0.397   0.116   0.140   0.139  -0.158
119   Y         1.189   1.190   1.234   1.327   1.329   1.388   1.270   1.272   1.332
120   Y         1.189   1.190   1.234   1.327   1.329   1.388   1.270   1.272   1.332
121   D        -1.480  -1.476  -1.453  -1.481  -1.473  -1.454  -1.272  -1.267  -1.205
122   I        -0.924  -0.935  -0.901  -0.992  -1.008  -0.936  -0.990  -0.999  -0.928
123   G        -0.159  -0.156  -0.110  -0.158  -0.154  -0.091  -0.425  -0.420  -0.351
124   D         1.189   1.190   1.234   1.282   1.283   1.345   1.270   1.272   1.332
125   K         1.189   1.190   1.234   0.801   0.804   0.879   1.270   1.272   1.332
126   L         1.189   1.190   1.234   1.020   1.022   1.091   1.270   1.272   1.332
127   Y        -0.159  -0.156  -0.110  -0.291  -0.285  -0.235  -0.425  -0.420  -0.351
128   K         0.187   0.185   0.004  -0.112  -0.113  -0.351   0.140   0.139  -0.158
129   P         1.189   1.190   1.234   1.386   1.388   1.445   1.270   1.272   1.332
130   A        -0.924  -0.923  -0.901  -1.107  -1.105  -1.027  -0.990  -0.988  -0.928
131   G         1.189   1.190   1.234   1.312   1.314   1.374   1.270   1.272   1.332
132   N         1.189   1.190   1.234   1.319   1.319   1.381   1.270   1.272   1.332
133   P         1.189   1.190   1.234   1.386   1.388   1.445   1.270   1.272   1.332
134   Q        -1.480  -1.480  -1.451  -1.213  -1.211  -1.150  -1.272  -1.272  -1.204
135   Y         1.189   1.190   1.234   1.327   1.329   1.388   1.270   1.272   1.332
136   Y         1.189   1.190   1.234   1.327   1.329   1.388   1.270   1.272   1.332
137   Q        -1.480  -1.465  -1.455  -1.389  -1.357  -1.395  -1.272  -1.256  -1.207
138   R         1.189   1.190   1.234   1.282   1.282   1.345   1.270   1.272   1.332
139   L         0.187   0.195   0.002   0.098   0.110  -0.167   0.140   0.153  -0.160
140   I        -1.480  -1.476  -1.453  -1.130  -1.128  -1.116  -1.272  -1.267  -1.205
141   N        -0.924  -0.919  -0.890  -0.837  -0.831  -0.787  -0.990  -0.983  -0.915
142   A         0.187   0.163  -0.004   0.267   0.238  -0.004   0.140   0.105  -0.170
143   V        -0.715  -0.733  -0.840  -0.586  -0.614  -0.807  -0.707  -0.731  -0.849
144   D        -2.035  -2.033  -1.927  -1.919  -1.910  -1.757  -1.555  -1.551  -1.409
145   G         1.189   1.190   1.234   1.312   1.314   1.374   1.270   1.272   1.332
146   K        -0.159  -0.156  -0.110  -0.668  -0.663  -0.572  -0.425  -0.420  -0.351
147   K         0.187   0.209   0.007  -0.104  -0.073  -0.332   0.140   0.175  -0.152
148   K         1.189   1.190   1.234   0.801   0.804   0.879   1.270   1.272   1.332
149   E         1.189   1.190   1.234   1.168   1.172   1.234   1.270   1.272   1.332
150   S        -0.924  -0.935  -0.890  -0.791  -0.807  -0.744  -0.990  -0.999  -0.915
151   L        -0.159  -0.149  -0.115  -0.366  -0.352  -0.283  -0.425  -0.407  -0.360
152   F         0.187   0.195   0.002   0.466   0.477   0.202   0.140   0.153  -0.160
153   T         0.187   0.185   0.004   0.408   0.407   0.106   0.140   0.139  -0.158
154   A         0.187   0.187   0.001   0.430   0.430   0.144   0.140   0.141  -0.162
155   M        -0.159  -0.159  -0.117  -0.200  -0.202  -0.171  -0.425  -0.424  -0.363
156   R         1.189   1.190   1.234   1.282   1.282   1.345   1.270   1.272   1.332
157   T         1.189   1.190   1.234   1.349   1.351   1.410   1.270   1.272   1.332
158   V         1.189   1.190   1.234   1.327   1.328   1.388   1.270   1.272   1.332
159   L        -1.480  -1.487  -1.448  -1.270  -1.288  -1.242  -1.272  -1.279  -1.200
160   F         1.189   1.190   1.234   1.349   1.351   1.410   1.270   1.272   1.332
161   G         1.189   1.190   1.234   1.312   1.314   1.374   1.270   1.272   1.332
162   K         1.189   1.190   1.234   0.801   0.804   0.879   1.270   1.272   1.332
* 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/P07253
Output conservation file - output/P07253
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
