1     M         1.395   1.404   1.475   1.554   1.564   1.668   1.501   1.514   1.626
2     D        -0.774  -0.788  -0.758  -0.761  -0.786  -0.726  -0.841  -0.857  -0.791
3     T        -0.229  -0.247  -0.250  -0.251  -0.267  -0.296  -0.427  -0.439  -0.451
4     L        -1.111  -1.146  -1.132  -1.114  -1.170  -1.115  -0.978  -1.015  -0.967
5     F        -0.774  -0.841  -0.768  -0.698  -0.766  -0.676  -0.841  -0.901  -0.799
6     N        -0.774  -0.799  -0.760  -0.897  -0.959  -0.927  -0.841  -0.866  -0.793
7     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
8     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
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    S        -0.716  -0.752  -0.761  -0.496  -0.564  -0.596  -0.749  -0.796  -0.789
16    T        -0.960  -0.972  -1.057  -0.706  -0.720  -0.874  -0.819  -0.834  -0.895
17    E        -1.549  -1.576  -1.446  -1.582  -1.575  -1.381  -1.241  -1.253  -1.092
18    K        -0.666  -0.720  -0.711  -0.634  -0.692  -0.704  -0.714  -0.762  -0.737
19    N         1.395   1.404   1.475   1.427   1.454   1.546   1.501   1.514   1.626
20    A         0.755   0.802   0.547   0.986   1.042   0.682   0.763   0.834   0.388
21    R         1.395   1.404   1.475   1.483   1.492   1.600   1.501   1.514   1.626
22    G         1.395   1.404   1.475   1.567   1.593   1.680   1.501   1.514   1.626
23    I         1.395   1.404   1.475   1.477   1.492   1.594   1.501   1.514   1.626
24    P         1.395   1.404   1.475   1.539   1.550   1.653   1.501   1.514   1.626
25    Q        -1.143  -1.185  -1.117  -1.122  -1.154  -1.016  -1.030  -1.064  -0.956
26    A         1.395   1.404   1.475   1.383   1.399   1.504   1.501   1.514   1.626
27    P         0.755   0.687   0.540   0.995   0.907   0.690   0.763   0.655   0.375
28    F         1.395   1.404   1.475   1.527   1.537   1.642   1.501   1.514   1.626
29    I        -0.738  -0.742  -0.723  -0.692  -0.705  -0.670  -0.819  -0.817  -0.756
30    E         0.271   0.264   0.344  -0.113  -0.115   0.004  -0.081  -0.101   0.001
31    N        -0.666  -0.690  -0.713  -0.690  -0.710  -0.733  -0.714  -0.742  -0.743
32    V         0.145   0.118  -0.129   0.307   0.249  -0.105   0.130   0.088  -0.274
33    N        -0.429  -0.406  -0.649  -0.423  -0.380  -0.703  -0.397  -0.371  -0.660
34    E        -1.549  -1.507  -1.430  -1.641  -1.604  -1.470  -1.241  -1.204  -1.082
35    I        -1.143  -1.135  -1.098  -0.808  -0.815  -0.756  -1.030  -1.021  -0.939
36    I        -0.371  -0.348  -0.297  -0.359  -0.341  -0.257  -0.608  -0.576  -0.515
37    K        -0.565  -0.669  -0.714  -0.531  -0.677  -0.743  -0.565  -0.693  -0.737
38    D        -0.901  -0.865  -0.777  -0.991  -0.940  -0.813  -0.978  -0.940  -0.810
39    P        -0.079  -0.163  -0.233   0.098  -0.040  -0.206  -0.186  -0.314  -0.425
40    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
41    S        -1.549  -1.508  -1.430  -1.550  -1.489  -1.381  -1.241  -1.204  -1.082
42    D        -0.260  -0.291  -0.251  -0.465  -0.493  -0.418  -0.503  -0.534  -0.464
43    F        -0.134  -0.235  -0.246   0.010  -0.165  -0.198  -0.292  -0.434  -0.450
44    E        -0.738  -0.796  -0.731  -0.946  -1.016  -0.922  -0.819  -0.866  -0.764
45    L        -1.843  -1.836  -1.713  -1.735  -1.707  -1.522  -1.346  -1.335  -1.181
46    C        -1.254  -1.279  -1.139  -0.944  -0.975  -0.780  -1.135  -1.144  -0.976
47    F        -0.738  -0.665  -0.736  -0.737  -0.688  -0.699  -0.819  -0.740  -0.769
48    N        -0.960  -1.053  -1.084  -0.685  -0.844  -0.935  -0.819  -0.918  -0.921
49    K        -0.429  -0.397  -0.650  -0.321  -0.276  -0.609  -0.397  -0.360  -0.661
50    F         1.395   1.404   1.475   1.527   1.537   1.642   1.501   1.514   1.626
51    Q         1.395   1.404   1.475   1.446   1.458   1.564   1.501   1.514   1.626
52    E         0.145   0.232  -0.128   0.075   0.200  -0.295   0.130   0.249  -0.272
53    R        -0.960  -1.035  -1.084  -0.609  -0.752  -0.814  -0.819  -0.900  -0.921
54    L         0.440   0.378   0.401   0.223   0.122   0.161   0.235   0.118   0.113
55    S        -0.443  -0.450  -0.326  -0.517  -0.540  -0.358  -0.714  -0.719  -0.556
56    K         0.440   0.498   0.439   0.279   0.376   0.267   0.235   0.335   0.186
57    Y         1.395   1.404   1.475   1.548   1.558   1.662   1.501   1.514   1.626
58    K         0.755   0.707   0.538   0.713   0.666   0.428   0.763   0.687   0.372
59    F         0.271   0.292   0.348   0.293   0.318   0.390  -0.081  -0.047   0.010
60    M         1.395   1.404   1.475   1.554   1.564   1.668   1.501   1.514   1.626
61    Q        -0.134  -0.041  -0.211  -0.361  -0.209  -0.488  -0.292  -0.156  -0.396
62    E        -1.438  -1.481  -1.436  -1.364  -1.409  -1.316  -1.135  -1.171  -1.084
63    S         0.145   0.048  -0.149   0.399   0.273  -0.037   0.130  -0.006  -0.302
64    K        -0.429  -0.573  -0.680  -0.406  -0.615  -0.807  -0.397  -0.574  -0.697
65    L        -0.849  -0.864  -0.762  -1.101  -1.116  -0.939  -0.925  -0.930  -0.795
66    A        -0.443  -0.450  -0.326  -0.541  -0.552  -0.365  -0.714  -0.719  -0.556
67    T        -0.849  -0.754  -0.760  -0.783  -0.646  -0.655  -0.925  -0.818  -0.792
68    I        -0.849  -0.824  -0.758  -0.930  -0.889  -0.783  -0.925  -0.883  -0.789
69    K        -1.143  -1.088  -1.105  -1.061  -0.974  -0.974  -1.030  -0.967  -0.943
70    Q        -0.849  -0.876  -0.777  -0.749  -0.769  -0.630  -0.925  -0.945  -0.810
71    L         1.395   1.404   1.475   1.187   1.198   1.316   1.501   1.514   1.626
72    K        -0.960  -0.917  -1.060  -0.793  -0.740  -0.907  -0.819  -0.774  -0.897
73    T        -1.254  -1.225  -1.139  -1.249  -1.234  -1.092  -1.135  -1.104  -0.976
74    R         0.440   0.493   0.430   0.292   0.379   0.271   0.235   0.327   0.170
75    I         0.755   0.707   0.538   0.949   0.894   0.665   0.763   0.687   0.372
76    P         1.395   1.404   1.475   1.539   1.550   1.653   1.501   1.514   1.626
77    D         1.395   1.404   1.475   1.386   1.398   1.507   1.501   1.514   1.626
78    L         0.755   0.802   0.547   0.898   0.960   0.566   0.763   0.834   0.388
79    E        -0.134  -0.235  -0.246  -0.301  -0.429  -0.428  -0.292  -0.434  -0.450
80    N         0.271   0.323   0.369  -0.007   0.093   0.142  -0.081   0.014   0.052
81    T        -0.134  -0.134  -0.214  -0.070  -0.050  -0.184  -0.292  -0.277  -0.400
82    L         1.395   1.404   1.475   1.187   1.198   1.316   1.501   1.514   1.626
83    K        -1.254  -1.241  -1.137  -1.291  -1.273  -1.148  -1.135  -1.116  -0.974
84    I        -1.254  -1.280  -1.137  -1.040  -1.079  -0.874  -1.135  -1.145  -0.974
85    C        -0.443  -0.399  -0.312  -0.382  -0.348  -0.211  -0.714  -0.654  -0.538
86    Q        -1.549  -1.498  -1.428  -1.416  -1.358  -1.274  -1.241  -1.197  -1.080
87    S        -1.143  -1.023  -1.110  -0.815  -0.653  -0.807  -1.030  -0.906  -0.948
88    L         0.440   0.498   0.439   0.223   0.304   0.220   0.235   0.335   0.186
89    R        -0.134  -0.144  -0.230  -0.213  -0.239  -0.333  -0.292  -0.325  -0.428
90    N        -1.143  -1.177  -1.112  -1.140  -1.209  -1.119  -1.030  -1.057  -0.952
91    H        -1.143  -1.059  -1.100  -0.947  -0.842  -0.876  -1.030  -0.948  -0.941
92    S        -0.565  -0.536  -0.688  -0.473  -0.432  -0.618  -0.565  -0.533  -0.706
93    D        -0.774  -0.786  -0.745  -0.998  -1.005  -0.933  -0.841  -0.855  -0.778
94    E        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
95    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
96    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
97    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
98    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
99    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
100   G        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
101   D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
102   E         0.545   0.547   0.429   0.407   0.412   0.257   0.421   0.421   0.168
103   S        -0.960  -0.991  -1.058  -0.895  -0.931  -0.996  -0.819  -0.853  -0.895
104   D        -0.666  -0.709  -0.730  -0.567  -0.619  -0.673  -0.714  -0.773  -0.761
105   E        -0.666  -0.604  -0.701  -0.732  -0.648  -0.820  -0.714  -0.648  -0.730
106   P        -1.549  -1.510  -1.431  -1.303  -1.252  -1.166  -1.241  -1.205  -1.082
107   I        -1.143  -1.162  -1.101  -1.010  -1.027  -0.928  -1.030  -1.037  -0.940
108   L        -1.254  -1.247  -1.140  -1.540  -1.515  -1.354  -1.135  -1.122  -0.976
109   L        -0.960  -0.902  -1.066  -0.720  -0.653  -0.910  -0.819  -0.758  -0.904
110   H        -0.134  -0.151  -0.220  -0.029  -0.072  -0.136  -0.292  -0.337  -0.413
111   Y         0.440   0.442   0.399   0.586   0.580   0.487   0.235   0.234   0.109
112   Q        -0.134  -0.041  -0.211  -0.347  -0.195  -0.463  -0.292  -0.156  -0.396
113   L         1.395   1.404   1.475   1.187   1.198   1.316   1.501   1.514   1.626
114   N         1.395   1.404   1.475   1.427   1.454   1.546   1.501   1.514   1.626
115   D         0.271   0.293   0.353  -0.032   0.013   0.063  -0.081  -0.045   0.020
116   T         1.395   1.404   1.475   1.414   1.430   1.534   1.501   1.514   1.626
117   L         1.395   1.404   1.475   1.187   1.198   1.316   1.501   1.514   1.626
118   Y        -0.134  -0.138  -0.205   0.080   0.083  -0.038  -0.292  -0.281  -0.389
119   T        -0.371  -0.365  -0.295  -0.426  -0.430  -0.330  -0.608  -0.604  -0.513
120   K        -0.429  -0.476  -0.658  -0.388  -0.455  -0.740  -0.397  -0.458  -0.672
121   A         1.395   1.404   1.475   1.383   1.399   1.504   1.501   1.514   1.626
122   Q        -1.549  -1.497  -1.443  -1.520  -1.478  -1.383  -1.241  -1.195  -1.090
123   V         0.271   0.264   0.344   0.156   0.125   0.252  -0.081  -0.101   0.001
124   D        -0.666  -0.689  -0.726  -0.679  -0.748  -0.778  -0.714  -0.754  -0.756
125   I        -1.143  -1.064  -1.098  -1.010  -0.911  -0.958  -1.030  -0.952  -0.939
126   P        -1.254  -1.211  -1.135  -1.180  -1.131  -0.994  -1.135  -1.096  -0.972
127   E        -1.649  -1.615  -1.471  -1.625  -1.544  -1.378  -1.311  -1.278  -1.110
128   D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
129   R        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
130   A        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
131   D        -0.864  -0.873  -0.787  -1.151  -1.137  -1.033  -0.936  -0.943  -0.819
132   L        -1.143  -1.136  -1.129  -1.280  -1.261  -1.245  -1.030  -1.026  -0.966
133   K        -0.849  -0.852  -0.768  -0.935  -0.922  -0.848  -0.925  -0.919  -0.801
134   V         1.395   1.404   1.475   1.411   1.411   1.531   1.501   1.514   1.626
135   G         0.271   0.323   0.369   0.321   0.408   0.455  -0.081   0.014   0.052
136   L         0.755   0.707   0.538   0.648   0.588   0.374   0.763   0.687   0.372
137   W         1.395   1.404   1.475   1.645   1.659   1.755   1.501   1.514   1.626
138   L         1.395   1.404   1.475   1.187   1.198   1.316   1.501   1.514   1.626
139   G         1.395   1.404   1.475   1.567   1.593   1.680   1.501   1.514   1.626
140   A         1.395   1.404   1.475   1.383   1.399   1.504   1.501   1.514   1.626
141   D        -0.443  -0.399  -0.312  -0.696  -0.597  -0.506  -0.714  -0.654  -0.538
142   V         1.395   1.404   1.475   1.411   1.411   1.531   1.501   1.514   1.626
143   M         1.395   1.404   1.475   1.554   1.564   1.668   1.501   1.514   1.626
144   L         1.395   1.404   1.475   1.187   1.198   1.316   1.501   1.514   1.626
145   E         0.755   0.707   0.538   0.626   0.588   0.355   0.763   0.687   0.372
146   Y         1.395   1.404   1.475   1.548   1.558   1.662   1.501   1.514   1.626
147   P        -0.429  -0.500  -0.652  -0.083  -0.193  -0.446  -0.397  -0.487  -0.665
148   I        -0.443  -0.450  -0.325  -0.684  -0.694  -0.494  -0.714  -0.719  -0.554
149   D        -0.260  -0.299  -0.259  -0.506  -0.570  -0.502  -0.503  -0.547  -0.475
150   E         0.755   0.801   0.545   0.611   0.685   0.332   0.763   0.831   0.385
151   A         1.395   1.404   1.475   1.383   1.399   1.504   1.501   1.514   1.626
152   I        -0.666  -0.710  -0.727  -0.662  -0.772  -0.817  -0.714  -0.774  -0.757
153   E        -0.371  -0.409  -0.317  -0.661  -0.704  -0.562  -0.608  -0.663  -0.543
154   L         1.395   1.404   1.475   1.187   1.198   1.316   1.501   1.514   1.626
155   L         1.395   1.404   1.475   1.187   1.198   1.316   1.501   1.514   1.626
156   K        -1.843  -1.838  -1.716  -1.716  -1.689  -1.578  -1.346  -1.337  -1.183
157   K        -1.254  -1.239  -1.140  -1.397  -1.359  -1.205  -1.135  -1.116  -0.976
158   K         0.271   0.287   0.352   0.024   0.052   0.149  -0.081  -0.057   0.017
159   L         1.395   1.404   1.475   1.187   1.198   1.316   1.501   1.514   1.626
160   A        -0.849  -0.860  -0.767  -1.127  -1.120  -1.001  -0.925  -0.925  -0.800
161   D        -1.143  -1.178  -1.125  -1.002  -1.040  -0.976  -1.030  -1.058  -0.963
162   S        -0.371  -0.298  -0.273  -0.434  -0.316  -0.297  -0.608  -0.504  -0.482
163   E        -0.960  -0.942  -0.804  -1.222  -1.196  -0.995  -1.030  -1.008  -0.836
164   Q        -1.143  -1.125  -1.111  -1.117  -1.104  -1.083  -1.030  -1.012  -0.951
165   S        -1.143  -1.149  -1.109  -0.890  -0.889  -0.837  -1.030  -1.028  -0.947
166   L         0.755   0.704   0.533   0.659   0.596   0.392   0.763   0.681   0.364
167   T        -1.549  -1.514  -1.429  -1.338  -1.314  -1.173  -1.241  -1.209  -1.081
168   V        -1.438  -1.480  -1.419  -1.194  -1.273  -1.231  -1.135  -1.170  -1.071
169   S        -0.960  -0.933  -0.799  -0.856  -0.810  -0.632  -1.030  -0.998  -0.831
170   T        -0.666  -0.619  -0.715  -0.829  -0.786  -0.902  -0.714  -0.677  -0.744
171   E         0.755   0.830   0.549   0.620   0.727   0.358   0.763   0.874   0.392
172   D         1.395   1.404   1.475   1.386   1.398   1.507   1.501   1.514   1.626
173   V         0.217   0.231   0.335  -0.148  -0.150   0.037  -0.186  -0.166  -0.016
174   E         0.145   0.048  -0.149   0.030  -0.091  -0.421   0.130  -0.006  -0.302
175   F         1.395   1.404   1.475   1.527   1.537   1.642   1.501   1.514   1.626
176   L         1.395   1.404   1.475   1.187   1.198   1.316   1.501   1.514   1.626
177   R         0.440   0.498   0.439   0.439   0.532   0.389   0.235   0.335   0.186
178   E         0.755   0.687   0.540   0.610   0.543   0.322   0.763   0.655   0.375
179   N         0.440   0.378   0.401   0.444   0.349   0.350   0.235   0.118   0.113
180   I         0.755   0.687   0.540   0.928   0.842   0.623   0.763   0.655   0.375
181   T         1.395   1.404   1.475   1.414   1.430   1.534   1.501   1.514   1.626
182   T         1.395   1.404   1.475   1.414   1.430   1.534   1.501   1.514   1.626
183   M         0.755   0.704   0.533   1.005   0.935   0.683   0.763   0.681   0.364
184   E         1.395   1.404   1.475   1.164   1.196   1.294   1.501   1.514   1.626
185   V         1.395   1.404   1.475   1.411   1.411   1.531   1.501   1.514   1.626
186   N         0.755   0.707   0.538   0.874   0.828   0.565   0.763   0.687   0.372
187   C        -0.738  -0.786  -0.745  -0.521  -0.593  -0.532  -0.819  -0.856  -0.777
188   A         1.395   1.404   1.475   1.383   1.399   1.504   1.501   1.514   1.626
189   R         1.395   1.404   1.475   1.483   1.492   1.600   1.501   1.514   1.626
190   L         0.271   0.243   0.341  -0.078  -0.138   0.036  -0.081  -0.143  -0.005
191   Y         0.755   0.704   0.533   1.035   0.974   0.758   0.763   0.681   0.364
192   N         1.395   1.404   1.475   1.427   1.454   1.546   1.501   1.514   1.626
193   W         0.755   0.687   0.540   1.114   1.032   0.818   0.763   0.655   0.375
194   D         0.755   0.687   0.540   0.838   0.752   0.539   0.763   0.655   0.375
195   V         1.395   1.404   1.475   1.411   1.411   1.531   1.501   1.514   1.626
196   Q        -1.143  -1.211  -1.122  -1.267  -1.363  -1.230  -1.030  -1.080  -0.959
197   R        -0.134  -0.190  -0.226  -0.101  -0.202  -0.286  -0.292  -0.368  -0.422
198   R         0.755   0.707   0.538   0.913   0.847   0.578   0.763   0.687   0.372
199   Q        -0.134  -0.120  -0.204  -0.213  -0.172  -0.293  -0.292  -0.257  -0.386
200   D        -0.429  -0.300  -0.647  -0.364  -0.188  -0.680  -0.397  -0.238  -0.658
201   L        -1.254  -1.194  -1.138  -1.442  -1.368  -1.242  -1.135  -1.082  -0.975
202   K         0.440   0.439   0.397   0.292   0.298   0.218   0.235   0.231   0.107
203   Q        -1.143  -1.131  -1.117  -1.170  -1.167  -1.136  -1.030  -1.022  -0.956
204   A        -0.397  -0.361  -0.302  -0.699  -0.666  -0.549  -0.659  -0.614  -0.526
205   Q        -0.219  -0.204  -0.236  -0.424  -0.415  -0.447  -0.389  -0.369  -0.428
206   E        -0.079  -0.051  -0.200  -0.227  -0.189  -0.406  -0.186  -0.148  -0.376
207   G        -0.716  -0.763  -0.743  -0.586  -0.670  -0.716  -0.749  -0.805  -0.770
208   T        -0.323  -0.268  -0.269  -0.381  -0.317  -0.299  -0.561  -0.495  -0.483
209   K        -0.219  -0.195  -0.237  -0.390  -0.356  -0.449  -0.389  -0.357  -0.429
210   N         0.314   0.312   0.361   0.270   0.269   0.330   0.001  -0.008   0.035
211   L        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
212   K        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
213   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
214   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
215   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
216   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
217   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
218   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
219   I        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
* 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/P48363
Output conservation file - output/P48363
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
