1     M         1.589   1.632   1.732   1.810   1.871   2.023   1.733   1.798   1.966
2     A        -0.498  -0.549  -0.766  -0.337  -0.429  -0.769  -0.399  -0.469  -0.703
3     L         0.159   0.024  -0.184   0.111  -0.045  -0.302   0.193   0.000  -0.298
4     S        -1.000  -0.917  -0.860  -0.976  -0.855  -0.775  -0.995  -0.897  -0.810
5     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
6     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
7     L        -0.377  -0.282  -0.277  -0.873  -0.703  -0.706  -0.583  -0.450  -0.437
8     G        -1.894  -1.812  -1.686  -1.610  -1.567  -1.318  -1.425  -1.345  -1.180
9     Q        -0.996  -1.011  -0.881  -0.997  -1.063  -0.897  -1.004  -1.008  -0.834
10    F        -1.445  -1.445  -1.331  -1.270  -1.203  -1.070  -1.214  -1.205  -1.049
11    I        -0.996  -1.011  -0.881  -1.284  -1.212  -1.071  -1.004  -1.008  -0.834
12    N        -0.377  -0.457  -0.327  -0.351  -0.477  -0.306  -0.583  -0.674  -0.504
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    V        -1.445  -1.413  -1.316  -1.357  -1.249  -1.162  -1.214  -1.178  -1.036
16    G        -0.996  -1.028  -0.870  -0.986  -1.030  -0.797  -1.004  -1.024  -0.824
17    G         0.713   0.534   0.545   0.820   0.559   0.574   0.680   0.365   0.339
18    M        -0.546  -0.488  -0.360  -0.783  -0.708  -0.521  -0.793  -0.716  -0.546
19    V        -0.978  -0.995  -0.869  -1.150  -1.175  -0.976  -0.991  -0.992  -0.825
20    K        -1.779  -1.795  -1.672  -1.297  -1.314  -1.128  -1.346  -1.339  -1.171
21    D         0.303   0.295   0.414   0.456   0.433   0.597  -0.043  -0.081   0.085
22    L         0.303   0.341   0.432  -0.181  -0.132   0.009  -0.043   0.007   0.120
23    K         0.857   0.794   0.620   1.146   1.077   0.807   0.904   0.803   0.479
24    S        -0.432  -0.365  -0.316  -0.413  -0.333  -0.244  -0.635  -0.545  -0.487
25    F        -1.442  -1.455  -1.317  -1.099  -1.071  -0.890  -1.228  -1.216  -1.038
26    N         1.589   1.632   1.732   1.729   1.796   1.943   1.733   1.798   1.966
27    F         1.589   1.632   1.732   1.455   1.510   1.676   1.733   1.798   1.966
28    S         1.589   1.632   1.732   1.545   1.596   1.764   1.733   1.798   1.966
29    V        -0.432  -0.289  -0.282  -0.942  -0.690  -0.728  -0.635  -0.436  -0.438
30    Y         1.589   1.632   1.732   1.772   1.830   1.985   1.733   1.798   1.966
31    G         0.857   0.712   0.601   0.980   0.794   0.620   0.904   0.671   0.444
32    R         0.159   0.338  -0.144   0.629   0.851   0.258   0.193   0.438  -0.240
33    W         1.589   1.632   1.732   1.868   1.930   2.079   1.733   1.798   1.966
34    F        -0.432  -0.422  -0.333  -0.953  -0.974  -0.842  -0.635  -0.634  -0.511
35    G         0.496   0.560   0.484   0.484   0.574   0.423   0.312   0.411   0.223
36    Y        -0.851  -0.719  -0.817  -0.953  -0.805  -0.959  -0.872  -0.730  -0.770
37    I         0.496   0.625   0.540   0.092   0.299   0.121   0.312   0.523   0.329
38    N        -0.978  -0.909  -0.879  -0.773  -0.724  -0.622  -0.991  -0.922  -0.835
39    I         0.857   0.794   0.620   0.705   0.653   0.460   0.904   0.803   0.479
40    I         0.242   0.281   0.412  -0.289  -0.226  -0.019  -0.162  -0.108   0.081
41    L         0.857   0.891   0.630   0.663   0.709   0.354   0.904   0.953   0.496
42    C         1.589   1.632   1.732   1.783   1.843   1.996   1.733   1.798   1.966
43    I        -0.161  -0.187  -0.249  -0.528  -0.549  -0.697  -0.280  -0.303  -0.399
44    A         0.857   0.712   0.601   0.862   0.664   0.455   0.904   0.671   0.444
45    L         0.857   0.891   0.630   0.663   0.709   0.354   0.904   0.953   0.496
46    G         1.589   1.632   1.732   1.598   1.653   1.815   1.733   1.798   1.966
47    I         0.857   0.948   0.642   0.653   0.779   0.370   0.904   1.039   0.519
48    A         0.857   0.712   0.601   0.889   0.705   0.526   0.904   0.671   0.444
49    N         1.589   1.632   1.732   1.729   1.796   1.943   1.733   1.798   1.966
50    L         0.303   0.326   0.418  -0.287  -0.259  -0.137  -0.043  -0.021   0.095
51    F         1.589   1.632   1.732   1.455   1.510   1.676   1.733   1.798   1.966
52    H         0.857   0.794   0.620   1.258   1.192   0.936   0.904   0.803   0.479
53    V        -0.978  -0.901  -0.868  -1.213  -1.097  -1.076  -0.991  -0.905  -0.823
54    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
55    S        -0.498  -0.648  -0.782  -0.191  -0.395  -0.549  -0.399  -0.585  -0.722
56    G        -1.779  -1.700  -1.641  -1.837  -1.774  -1.626  -1.346  -1.270  -1.149
57    V         0.496   0.502   0.472   0.278   0.280   0.152   0.312   0.308   0.199
58    I         0.857   0.712   0.601   0.653   0.477   0.303   0.904   0.671   0.444
59    A        -0.769  -0.745  -0.815  -0.900  -0.868  -1.053  -0.754  -0.713  -0.761
60    F         1.589   1.632   1.732   1.455   1.510   1.676   1.733   1.798   1.966
61    G         0.496   0.625   0.540   0.450   0.632   0.499   0.312   0.523   0.329
62    I         0.159  -0.060  -0.205   0.036  -0.252  -0.487   0.193  -0.112  -0.327
63    I         0.159   0.086  -0.171  -0.003  -0.118  -0.522   0.193   0.079  -0.279
64    S        -1.315  -1.233  -1.287  -0.949  -0.880  -0.950  -1.109  -1.035  -1.013
65    I         0.857   0.794   0.620   0.625   0.552   0.266   0.904   0.803   0.479
66    I        -0.161  -0.257  -0.272  -0.265  -0.408  -0.455  -0.280  -0.412  -0.435
67    Q         0.159  -0.060  -0.205   0.578   0.305   0.055   0.193  -0.112  -0.327
68    G         0.857   0.794   0.620   0.984   0.909   0.663   0.904   0.803   0.479
69    L         0.159  -0.060  -0.205   0.039  -0.265  -0.499   0.193  -0.112  -0.327
70    V        -0.305  -0.377  -0.274  -0.693  -0.791  -0.668  -0.517  -0.582  -0.442
71    I        -0.305  -0.362  -0.287  -0.737  -0.813  -0.716  -0.517  -0.558  -0.453
72    L        -0.161  -0.207  -0.250  -0.475  -0.541  -0.649  -0.280  -0.320  -0.397
73    F         1.589   1.632   1.732   1.455   1.510   1.676   1.733   1.798   1.966
74    I         0.242   0.282   0.413  -0.273  -0.211  -0.014  -0.162  -0.106   0.084
75    E         1.589   1.632   1.732   1.783   1.846   1.996   1.733   1.798   1.966
76    I        -0.305  -0.394  -0.290  -0.737  -0.858  -0.707  -0.517  -0.609  -0.462
77    P         1.589   1.632   1.732   1.806   1.865   2.019   1.733   1.798   1.966
78    F         0.857   0.794   0.620   0.805   0.720   0.439   0.904   0.803   0.479
79    L         1.589   1.632   1.732   1.291   1.347   1.515   1.733   1.798   1.966
80    L         0.857   0.712   0.601   0.676   0.493   0.342   0.904   0.671   0.444
81    K         0.303   0.295   0.414   0.421   0.403   0.570  -0.043  -0.081   0.085
82    I         1.589   1.632   1.732   1.278   1.345   1.503   1.733   1.798   1.966
83    C         1.589   1.632   1.732   1.783   1.843   1.996   1.733   1.798   1.966
84    P         1.589   1.632   1.732   1.806   1.865   2.019   1.733   1.798   1.966
85    L        -0.161  -0.259  -0.273  -0.401  -0.546  -0.544  -0.280  -0.416  -0.435
86    S         0.303   0.400   0.457   0.146   0.286   0.374  -0.043   0.120   0.170
87    D         0.159   0.177  -0.138   0.670   0.701   0.308   0.193   0.212  -0.231
88    N        -1.106  -1.057  -0.909  -0.802  -0.737  -0.525  -1.109  -1.049  -0.863
89    F         1.589   1.632   1.732   1.455   1.510   1.676   1.733   1.798   1.966
90    I        -1.652  -1.659  -1.648  -1.479  -1.425  -1.381  -1.228  -1.228  -1.152
91    E        -1.315  -1.313  -1.281  -0.891  -0.897  -0.861  -1.109  -1.089  -1.005
92    F         0.857   0.794   0.620   0.805   0.720   0.439   0.904   0.803   0.479
93    I        -0.161  -0.252  -0.259  -0.414  -0.515  -0.534  -0.280  -0.388  -0.414
94    K        -0.769  -0.808  -0.833  -0.332  -0.361  -0.427  -0.754  -0.777  -0.782
95    R        -1.315  -1.261  -1.268  -0.867  -0.798  -0.824  -1.109  -1.044  -0.993
96    F         0.857   0.794   0.620   0.803   0.719   0.435   0.904   0.803   0.479
97    E        -1.315  -1.350  -1.284  -0.814  -0.883  -0.793  -1.109  -1.124  -1.008
98    T        -1.106  -1.062  -1.237  -0.642  -0.629  -0.808  -0.872  -0.830  -0.963
99    N         1.589   1.632   1.732   1.729   1.796   1.943   1.733   1.798   1.966
100   G        -1.106  -1.034  -0.903  -0.998  -0.873  -0.710  -1.109  -1.025  -0.856
101   W        -1.315  -1.309  -1.283  -0.700  -0.710  -0.629  -1.109  -1.097  -1.010
102   R         1.589   1.632   1.732   1.799   1.860   2.011   1.733   1.798   1.966
103   C        -0.305  -0.393  -0.292  -0.218  -0.340  -0.201  -0.517  -0.606  -0.464
104   L        -0.978  -0.885  -0.852  -1.290  -1.159  -1.119  -0.991  -0.886  -0.805
105   F         0.159  -0.060  -0.205   0.217  -0.086  -0.323   0.193  -0.112  -0.327
106   Y         1.589   1.632   1.732   1.772   1.830   1.985   1.733   1.798   1.966
107   L        -1.315  -1.363  -1.273  -1.583  -1.644  -1.480  -1.109  -1.135  -1.000
108   A        -1.315  -1.296  -1.272  -1.552  -1.566  -1.486  -1.109  -1.090  -1.001
109   M         0.159   0.075  -0.167   0.603   0.478   0.128   0.193   0.066  -0.274
110   A        -0.498  -0.568  -0.764  -0.246  -0.350  -0.592  -0.399  -0.490  -0.700
111   I        -0.978  -0.836  -0.841  -1.214  -0.974  -0.969  -0.991  -0.829  -0.793
112   I         0.303   0.293   0.410  -0.181  -0.199  -0.014  -0.043  -0.085   0.078
113   Q         0.159  -0.060  -0.205   0.557   0.267   0.007   0.193  -0.112  -0.327
114   Y        -0.432  -0.455  -0.353  -0.253  -0.344  -0.176  -0.635  -0.675  -0.537
115   I        -0.305  -0.175  -0.268  -0.517  -0.355  -0.458  -0.517  -0.352  -0.432
116   S         1.589   1.632   1.732   1.545   1.596   1.764   1.733   1.798   1.966
117   I        -0.432  -0.447  -0.346  -0.781  -0.747  -0.623  -0.635  -0.664  -0.528
118   A        -0.432  -0.289  -0.282  -0.758  -0.546  -0.528  -0.635  -0.436  -0.438
119   V        -0.769  -0.806  -0.823  -0.796  -0.845  -0.881  -0.754  -0.799  -0.777
120   M        -0.305  -0.324  -0.280  -0.005   0.003   0.072  -0.517  -0.520  -0.447
121   A        -0.851  -0.785  -0.802  -0.827  -0.751  -0.746  -0.872  -0.797  -0.758
122   T         1.589   1.632   1.732   1.634   1.675   1.850   1.733   1.798   1.966
123   S         1.589   1.632   1.732   1.545   1.596   1.764   1.733   1.798   1.966
124   L         1.589   1.632   1.732   1.291   1.347   1.515   1.733   1.798   1.966
125   I         0.242   0.282   0.412  -0.419  -0.355  -0.150  -0.162  -0.106   0.083
126   V         0.857   0.712   0.601   0.858   0.678   0.505   0.904   0.671   0.444
127   V        -0.769  -0.823  -0.822  -0.672  -0.733  -0.745  -0.754  -0.813  -0.772
128   A         0.303   0.293   0.410   0.098   0.066   0.248  -0.043  -0.085   0.078
129   V         0.242   0.293   0.417  -0.273  -0.200  -0.010  -0.162  -0.086   0.093
130   G        -1.315  -1.295  -1.278  -1.316  -1.305  -1.280  -1.109  -1.079  -1.004
131   L         0.496   0.599   0.518   0.152   0.306   0.163   0.312   0.479   0.288
132   T        -0.161  -0.315  -0.285  -0.066  -0.321  -0.293  -0.280  -0.484  -0.451
133   I        -0.161  -0.267  -0.276  -0.528  -0.707  -0.756  -0.280  -0.428  -0.441
134   S        -0.305  -0.182  -0.263  -0.339  -0.164  -0.257  -0.517  -0.349  -0.424
135   S        -0.515  -0.445  -0.347  -0.674  -0.562  -0.426  -0.754  -0.661  -0.529
136   I        -1.652  -1.607  -1.601  -1.660  -1.650  -1.576  -1.228  -1.181  -1.115
137   S        -0.161  -0.053  -0.223   0.069   0.246  -0.054  -0.280  -0.116  -0.356
138   Y         1.589   1.632   1.732   1.772   1.830   1.985   1.733   1.798   1.966
139   A         0.159   0.086  -0.171   0.316   0.216  -0.124   0.193   0.079  -0.279
140   V        -0.498  -0.488  -0.774  -0.623  -0.624  -1.103  -0.399  -0.398  -0.712
141   A         0.857   0.891   0.630   0.907   0.957   0.616   0.904   0.953   0.496
142   Y        -0.498  -0.488  -0.774  -0.266  -0.268  -0.644  -0.399  -0.398  -0.712
143   T        -1.315  -1.313  -1.281  -1.493  -1.541  -1.481  -1.109  -1.089  -1.005
144   K         0.159   0.245  -0.135   0.580   0.694   0.186   0.193   0.312  -0.227
145   H         0.303   0.287   0.410   0.402   0.332   0.495  -0.043  -0.098   0.078
146   Q         1.589   1.632   1.732   1.775   1.841   1.989   1.733   1.798   1.966
147   E         0.496   0.390   0.439   0.653   0.450   0.470   0.312   0.100   0.136
148   F         0.496   0.599   0.518   0.421   0.561   0.462   0.312   0.479   0.288
149   Q        -1.779  -1.717  -1.649  -1.605  -1.513  -1.363  -1.346  -1.281  -1.155
150   N        -0.978  -1.019  -0.884  -0.742  -0.798  -0.618  -0.991  -1.011  -0.839
151   T         0.303   0.407   0.447   0.146   0.296   0.356  -0.043   0.132   0.150
152   N        -0.769  -0.753  -0.810  -0.567  -0.525  -0.595  -0.754  -0.712  -0.755
153   I        -0.826  -0.877  -0.864  -1.077  -1.142  -1.162  -0.793  -0.859  -0.814
154   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
155   I        -0.546  -0.477  -0.346  -1.140  -1.024  -0.832  -0.793  -0.701  -0.528
156   K        -1.445  -1.445  -1.331  -1.165  -1.199  -1.049  -1.214  -1.205  -1.049
157   N        -0.377  -0.273  -0.287  -0.277  -0.114  -0.118  -0.583  -0.427  -0.447
158   P        -0.996  -0.916  -0.865  -0.625  -0.543  -0.431  -1.004  -0.906  -0.817
159   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
160   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
161   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
162   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
163   T        -1.000  -1.009  -0.905  -0.949  -0.990  -0.873  -0.995  -0.998  -0.858
164   D        -0.462  -0.453  -0.351  -0.634  -0.645  -0.488  -0.692  -0.674  -0.534
165   D        -0.258  -0.210  -0.287   0.018   0.075  -0.065  -0.389  -0.328  -0.445
166   D        -1.442  -1.380  -1.298  -1.159  -1.098  -0.980  -1.228  -1.159  -1.023
167   F        -1.442  -1.455  -1.317  -1.575  -1.641  -1.433  -1.228  -1.216  -1.038
168   P        -1.106  -1.050  -0.899  -1.013  -0.946  -0.725  -1.109  -1.042  -0.853
169   H        -0.769  -0.808  -0.833  -0.444  -0.492  -0.494  -0.754  -0.777  -0.782
170   E        -0.432  -0.360  -0.312  -0.243  -0.136  -0.085  -0.635  -0.538  -0.481
171   A        -0.978  -1.019  -0.884  -0.830  -0.878  -0.666  -0.991  -1.011  -0.839
172   V        -0.161  -0.207  -0.250  -0.260  -0.261  -0.377  -0.280  -0.320  -0.397
173   V        -0.161  -0.284  -0.269  -0.171  -0.312  -0.292  -0.280  -0.436  -0.425
174   R         0.159  -0.060  -0.205   0.613   0.330   0.104   0.193  -0.112  -0.327
175   E        -1.779  -1.795  -1.672  -1.083  -1.098  -0.910  -1.346  -1.339  -1.171
176   M        -0.432  -0.365  -0.316  -0.454  -0.338  -0.349  -0.635  -0.545  -0.487
177   L         0.496   0.390   0.439   0.160  -0.030   0.035   0.312   0.100   0.136
* 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/Q04767
Output conservation file - output/Q04767
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
