1     M         0.863   0.869   0.928   1.195   1.192   1.228   0.891   0.901   0.987
2     S         0.863   0.869   0.928   0.938   0.940   1.019   0.891   0.901   0.987
3     -        -1.557  -1.507  -1.131  -1.494  -1.442  -0.957  -1.709  -1.657  -1.178
4     -         0.863   0.869   0.928   1.019   1.021   1.085   0.891   0.901   0.987
5     Q        -0.620  -0.600  -0.372  -0.605  -0.589  -0.292  -0.981  -0.963  -0.638
6     P        -1.215  -1.258  -1.101  -1.464  -1.494  -1.212  -1.371  -1.401  -1.146
7     V         0.147   0.004  -0.294   0.138  -0.030  -0.508   0.189  -0.007  -0.504
8     V         0.863   0.869   0.928   0.722   0.737   0.843   0.891   0.901   0.987
9     V         0.147   0.004  -0.294   0.176   0.022  -0.370   0.189  -0.007  -0.504
10    I         0.863   0.869   0.928   1.071   1.068   1.127   0.891   0.901   0.987
11    D         0.863   0.869   0.928   1.152   1.153   1.193   0.891   0.901   0.987
12    A        -0.664  -0.630  -0.374  -1.085  -1.036  -0.633  -1.059  -1.017  -0.641
13    K         0.863   0.869   0.928   0.497   0.519   0.659   0.891   0.901   0.987
14    D         0.147   0.149  -0.281   0.365   0.366  -0.189   0.189   0.189  -0.483
15    H         0.863   0.869   0.928   1.140   1.140   1.184   0.891   0.901   0.987
16    L         0.863   0.869   0.928   0.741   0.749   0.858   0.891   0.901   0.987
17    L        -0.545  -0.596  -1.058  -0.371  -0.428  -1.049  -0.435  -0.514  -1.089
18    G         0.863   0.869   0.928   0.902   0.909   0.989   0.891   0.901   0.987
19    R         0.863   0.869   0.928   0.771   0.775   0.883   0.891   0.901   0.987
20    L         0.863   0.869   0.928   0.741   0.749   0.858   0.891   0.901   0.987
21    A         0.863   0.869   0.928   0.603   0.619   0.745   0.891   0.901   0.987
22    S         0.863   0.869   0.928   0.938   0.940   1.019   0.891   0.901   0.987
23    T        -1.461  -1.366  -1.106  -1.349  -1.223  -0.941  -1.605  -1.505  -1.150
24    I         0.147   0.149  -0.281   0.176   0.184  -0.351   0.189   0.189  -0.483
25    A         0.147   0.265  -0.278   0.041   0.171  -0.490   0.189   0.335  -0.478
26    K         0.863   0.869   0.928   0.497   0.519   0.659   0.891   0.901   0.987
27    Q         0.863   0.869   0.928   1.103   1.103   1.153   0.891   0.901   0.987
28    V        -0.903  -0.864  -1.079  -0.832  -0.788  -1.116  -0.903  -0.857  -1.117
29    L         0.863   0.869   0.928   0.741   0.749   0.858   0.891   0.901   0.987
30    N        -1.536  -1.605  -1.639  -1.029  -1.135  -1.350  -1.371  -1.433  -1.421
31    G         0.863   0.869   0.928   0.902   0.909   0.989   0.891   0.901   0.987
32    Q         0.863   0.869   0.928   1.103   1.103   1.153   0.891   0.901   0.987
33    K         0.147   0.102  -0.289  -0.043  -0.078  -0.504   0.189   0.127  -0.495
34    I        -0.620  -0.580  -0.371  -0.736  -0.682  -0.440  -0.981  -0.928  -0.635
35    V         0.147   0.222  -0.281   0.178   0.261  -0.346   0.189   0.282  -0.483
36    V         0.863   0.869   0.928   0.722   0.737   0.843   0.891   0.901   0.987
37    V         0.863   0.869   0.928   0.722   0.737   0.843   0.891   0.901   0.987
38    R         0.863   0.869   0.928   0.771   0.775   0.883   0.891   0.901   0.987
39    A        -0.483  -0.407  -0.341  -0.343  -0.223  -0.302  -0.747  -0.636  -0.584
40    E         0.863   0.869   0.928   0.977   0.983   1.050   0.891   0.901   0.987
41    A        -0.620  -0.580  -0.371  -0.993  -0.935  -0.592  -0.981  -0.928  -0.635
42    L         0.147   0.222  -0.281   0.209   0.284  -0.288   0.189   0.282  -0.483
43    N         0.863   0.869   0.928   1.120   1.118   1.167   0.891   0.901   0.987
44    I         0.863   0.869   0.928   1.071   1.068   1.127   0.891   0.901   0.987
45    S         0.863   0.869   0.928   0.938   0.940   1.019   0.891   0.901   0.987
46    G         0.147   0.102  -0.289   0.359   0.309  -0.219   0.189   0.127  -0.495
47    E        -0.483  -0.474  -0.347  -0.369  -0.370  -0.239  -0.747  -0.747  -0.594
48    F         0.863   0.869   0.928   1.018   1.020   1.084   0.891   0.901   0.987
49    F         0.863   0.869   0.928   1.018   1.020   1.084   0.891   0.901   0.987
50    R         0.863   0.869   0.928   0.771   0.775   0.883   0.891   0.901   0.987
51    N        -0.545  -0.690  -1.068  -0.039  -0.240  -0.955  -0.435  -0.619  -1.102
52    K         0.863   0.869   0.928   0.497   0.519   0.659   0.891   0.901   0.987
53    L         0.863   0.869   0.928   0.741   0.749   0.858   0.891   0.901   0.987
54    K         0.863   0.869   0.928   0.497   0.519   0.659   0.891   0.901   0.987
55    Y         0.863   0.869   0.928   1.024   1.028   1.089   0.891   0.901   0.987
56    H        -1.115  -1.142  -1.104  -0.941  -1.007  -1.104  -1.215  -1.248  -1.147
57    D        -1.215  -1.266  -1.111  -1.208  -1.302  -1.092  -1.371  -1.414  -1.157
58    F        -0.239  -0.178  -0.318  -0.004   0.070  -0.215  -0.357  -0.273  -0.545
59    L         0.863   0.869   0.928   0.741   0.749   0.858   0.891   0.901   0.987
60    R         0.863   0.869   0.928   0.771   0.775   0.883   0.891   0.901   0.987
61    K         0.863   0.869   0.928   0.497   0.519   0.659   0.891   0.901   0.987
62    A         0.147   0.040  -0.293   0.072  -0.034  -0.401   0.189   0.043  -0.503
63    T        -0.483  -0.474  -0.347  -0.236  -0.240  -0.127  -0.747  -0.747  -0.594
64    A        -0.483  -0.407  -0.341  -0.779  -0.658  -0.629  -0.747  -0.636  -0.584
65    F        -0.620  -0.578  -0.366  -0.613  -0.561  -0.300  -0.981  -0.926  -0.627
66    N         0.863   0.869   0.928   1.120   1.118   1.167   0.891   0.901   0.987
67    K        -1.215  -1.226  -1.111  -1.493  -1.467  -1.265  -1.371  -1.379  -1.156
68    T        -1.115  -1.010  -1.096  -0.920  -0.808  -1.068  -1.215  -1.120  -1.137
69    R        -0.903  -0.831  -1.074  -0.903  -0.777  -1.176  -0.903  -0.802  -1.110
70    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
71    G         0.863   0.869   0.928   0.902   0.909   0.989   0.891   0.901   0.987
72    P        -0.483  -0.474  -0.347  -0.530  -0.540  -0.457  -0.747  -0.747  -0.594
73    F         0.863   0.869   0.928   1.018   1.020   1.084   0.891   0.901   0.987
74    H         0.863   0.869   0.928   1.140   1.140   1.184   0.891   0.901   0.987
75    F         0.863   0.869   0.928   1.018   1.020   1.084   0.891   0.901   0.987
76    R         0.863   0.869   0.928   0.771   0.775   0.883   0.891   0.901   0.987
77    A         0.863   0.869   0.928   0.603   0.619   0.745   0.891   0.901   0.987
78    P         0.863   0.869   0.928   1.030   1.031   1.094   0.891   0.901   0.987
79    S         0.863   0.869   0.928   0.938   0.940   1.019   0.891   0.901   0.987
80    R         0.863   0.869   0.928   0.771   0.775   0.883   0.891   0.901   0.987
81    I         0.863   0.869   0.928   1.071   1.068   1.127   0.891   0.901   0.987
82    L        -0.239  -0.163  -0.330  -0.076   0.024  -0.363  -0.357  -0.249  -0.566
83    Y        -0.903  -0.937  -1.082  -0.499  -0.533  -0.799  -0.903  -0.931  -1.118
84    K         0.863   0.869   0.928   0.497   0.519   0.659   0.891   0.901   0.987
85    A         0.863   0.869   0.928   0.603   0.619   0.745   0.891   0.901   0.987
86    I        -0.483  -0.397  -0.346  -0.632  -0.511  -0.440  -0.747  -0.619  -0.592
87    R         0.863   0.869   0.928   0.771   0.775   0.883   0.891   0.901   0.987
88    G         0.863   0.869   0.928   0.902   0.909   0.989   0.891   0.901   0.987
89    M         0.863   0.869   0.928   1.195   1.192   1.228   0.891   0.901   0.987
90    V        -1.711  -1.642  -1.643  -1.446  -1.400  -1.398  -1.605  -1.548  -1.425
91    S        -0.483  -0.407  -0.341  -0.400  -0.295  -0.288  -0.747  -0.636  -0.584
92    H         0.863   0.869   0.928   1.140   1.140   1.184   0.891   0.901   0.987
93    K         0.863   0.869   0.928   0.497   0.519   0.659   0.891   0.901   0.987
94    T         0.863   0.869   0.928   1.085   1.088   1.139   0.891   0.901   0.987
95    A         0.147   0.004  -0.294   0.058  -0.093  -0.450   0.189  -0.007  -0.504
96    R         0.863   0.869   0.928   0.771   0.775   0.883   0.891   0.901   0.987
97    G         0.863   0.869   0.928   0.902   0.909   0.989   0.891   0.901   0.987
98    K        -1.536  -1.653  -1.644  -1.570  -1.709  -1.651  -1.371  -1.482  -1.425
99    A         0.147   0.004  -0.294   0.057  -0.096  -0.456   0.189  -0.007  -0.504
100   A         0.863   0.869   0.928   0.603   0.619   0.745   0.891   0.901   0.987
101   L         0.863   0.869   0.928   0.741   0.749   0.858   0.891   0.901   0.987
102   E         0.147   0.004  -0.294   0.368   0.181  -0.413   0.189  -0.007  -0.504
103   R        -0.903  -0.937  -1.082  -0.724  -0.759  -0.925  -0.903  -0.931  -1.118
104   L         0.863   0.869   0.928   0.741   0.749   0.858   0.891   0.901   0.987
105   K        -0.483  -0.474  -0.347  -0.828  -0.811  -0.576  -0.747  -0.747  -0.594
106   I        -1.115  -1.104  -1.098  -1.325  -1.319  -1.237  -1.215  -1.211  -1.140
107   F        -0.903  -0.937  -1.082  -0.655  -0.694  -1.084  -0.903  -0.931  -1.118
108   E         0.863   0.869   0.928   0.977   0.983   1.050   0.891   0.901   0.987
109   G         0.863   0.869   0.928   0.902   0.909   0.989   0.891   0.901   0.987
110   I        -0.664  -0.627  -0.372  -0.872  -0.808  -0.443  -1.059  -1.010  -0.637
111   P         0.863   0.869   0.928   1.030   1.031   1.094   0.891   0.901   0.987
112   P         0.863   0.869   0.928   1.030   1.031   1.094   0.891   0.901   0.987
113   P         0.863   0.869   0.928   1.030   1.031   1.094   0.891   0.901   0.987
114   Y        -0.483  -0.474  -0.347  -0.374  -0.379  -0.266  -0.747  -0.747  -0.594
115   D         0.863   0.869   0.928   1.152   1.153   1.193   0.891   0.901   0.987
116   K         0.863   0.869   0.928   0.497   0.519   0.659   0.891   0.901   0.987
117   K        -0.483  -0.474  -0.347  -0.828  -0.811  -0.576  -0.747  -0.747  -0.594
118   K         0.863   0.869   0.928   0.497   0.519   0.659   0.891   0.901   0.987
119   R         0.147   0.040  -0.293   0.161   0.020  -0.569   0.189   0.043  -0.503
120   V        -0.903  -1.104  -1.102  -0.810  -1.073  -1.084  -0.903  -1.160  -1.145
121   V         0.863   0.869   0.928   0.722   0.737   0.843   0.891   0.901   0.987
122   V         0.863   0.869   0.928   0.722   0.737   0.843   0.891   0.901   0.987
123   P         0.863   0.869   0.928   1.030   1.031   1.094   0.891   0.901   0.987
124   Q        -1.115  -1.030  -1.095  -0.981  -0.907  -1.024  -1.215  -1.140  -1.136
125   A         0.863   0.869   0.928   0.603   0.619   0.745   0.891   0.901   0.987
126   L         0.863   0.869   0.928   0.741   0.749   0.858   0.891   0.901   0.987
127   R         0.863   0.869   0.928   0.771   0.775   0.883   0.891   0.901   0.987
128   V         0.147   0.222  -0.281   0.176   0.259  -0.352   0.189   0.282  -0.483
129   L         0.863   0.869   0.928   0.741   0.749   0.858   0.891   0.901   0.987
130   R         0.863   0.869   0.928   0.771   0.775   0.883   0.891   0.901   0.987
131   L         0.863   0.869   0.928   0.741   0.749   0.858   0.891   0.901   0.987
132   K         0.147   0.040  -0.293  -0.045  -0.149  -0.518   0.189   0.043  -0.503
133   P         0.863   0.869   0.928   1.030   1.031   1.094   0.891   0.901   0.987
134   G         0.147   0.004  -0.294   0.341   0.172  -0.294   0.189  -0.007  -0.504
135   R         0.863   0.869   0.928   0.771   0.775   0.883   0.891   0.901   0.987
136   K         0.863   0.869   0.928   0.497   0.519   0.659   0.891   0.901   0.987
137   Y         0.147   0.040  -0.293   0.471   0.346  -0.173   0.189   0.043  -0.503
138   T        -0.664  -0.618  -0.366  -0.506  -0.440  -0.139  -1.059  -0.995  -0.628
139   T         0.863   0.869   0.928   1.085   1.088   1.139   0.891   0.901   0.987
140   L        -1.115  -1.167  -1.094  -1.260  -1.289  -1.170  -1.215  -1.252  -1.135
141   G         0.147   0.240  -0.280   0.304   0.408  -0.398   0.189   0.305  -0.480
142   K        -0.620  -0.541  -0.356  -1.129  -0.973  -0.717  -0.981  -0.860  -0.609
143   L         0.147   0.102  -0.289   0.154   0.101  -0.492   0.189   0.127  -0.495
144   S         0.863   0.869   0.928   0.938   0.940   1.019   0.891   0.901   0.987
145   T        -1.115  -1.088  -1.091  -0.893  -0.852  -0.852  -1.215  -1.168  -1.132
146   S        -1.405  -1.257  -1.109  -1.446  -1.214  -1.129  -1.527  -1.353  -1.152
147   V         0.147   0.102  -0.289   0.170   0.127  -0.384   0.189   0.127  -0.495
148   G         0.863   0.869   0.928   0.902   0.909   0.989   0.891   0.901   0.987
149   W         0.863   0.869   0.928   1.240   1.239   1.265   0.891   0.901   0.987
150   K         0.863   0.869   0.928   0.497   0.519   0.659   0.891   0.901   0.987
151   Y         0.863   0.869   0.928   1.024   1.028   1.089   0.891   0.901   0.987
152   E        -1.841  -1.867  -2.061  -1.244  -1.333  -1.691  -1.449  -1.491  -1.592
153   D        -0.903  -0.918  -1.078  -0.417  -0.420  -0.768  -0.903  -0.906  -1.115
154   V        -0.483  -0.474  -0.347  -0.632  -0.625  -0.442  -0.747  -0.747  -0.594
155   V         0.863   0.869   0.928   0.722   0.737   0.843   0.891   0.901   0.987
156   A        -1.711  -1.589  -1.636  -1.717  -1.607  -1.490  -1.605  -1.523  -1.420
157   K        -0.545  -0.690  -1.068  -0.621  -0.787  -1.237  -0.435  -0.619  -1.102
158   L         0.863   0.869   0.928   0.741   0.749   0.858   0.891   0.901   0.987
159   E         0.863   0.869   0.928   0.977   0.983   1.050   0.891   0.901   0.987
160   D         0.147   0.149  -0.281   0.439   0.438  -0.135   0.189   0.189  -0.483
161   K        -0.620  -0.615  -0.374  -1.212  -1.205  -0.781  -0.981  -0.990  -0.641
162   R         0.863   0.869   0.928   0.771   0.775   0.883   0.891   0.901   0.987
163   K         0.863   0.869   0.928   0.497   0.519   0.659   0.891   0.901   0.987
164   V        -1.536  -1.606  -1.636  -1.505  -1.612  -1.704  -1.371  -1.460  -1.419
165   R        -1.405  -1.257  -1.109  -1.776  -1.580  -1.291  -1.527  -1.353  -1.152
166   S        -0.545  -0.579  -1.060  -0.162  -0.223  -0.884  -0.435  -0.489  -1.092
167   A         0.863   0.869   0.928   0.603   0.619   0.745   0.891   0.901   0.987
168   E        -0.664  -0.618  -0.366  -1.028  -0.983  -0.590  -1.059  -0.995  -0.628
169   Y        -0.483  -0.474  -0.347  -0.374  -0.379  -0.266  -0.747  -0.747  -0.594
170   Y         0.863   0.869   0.928   1.024   1.028   1.089   0.891   0.901   0.987
171   A        -1.711  -1.718  -1.651  -1.700  -1.702  -1.589  -1.605  -1.617  -1.433
172   K        -1.115  -1.190  -1.108  -1.596  -1.694  -1.536  -1.215  -1.297  -1.151
173   K         0.863   0.869   0.928   0.497   0.519   0.659   0.891   0.901   0.987
174   R        -2.072  -2.017  -1.659  -2.444  -2.355  -1.815  -1.917  -1.870  -1.441
175   A         0.147   0.040  -0.293   0.015  -0.106  -0.605   0.189   0.043  -0.503
176   F        -2.873  -2.867  -2.428  -2.786  -2.770  -2.175  -2.229  -2.210  -1.721
177   T        -2.567  -2.500  -2.089  -2.176  -2.125  -1.664  -2.151  -2.086  -1.614
178   K        -0.545  -0.579  -1.057  -0.692  -0.729  -1.448  -0.435  -0.489  -1.088
179   K        -1.209  -1.365  -1.623  -1.149  -1.316  -1.585  -0.981  -1.169  -1.405
180   V        -1.956  -1.955  -1.665  -1.929  -1.921  -1.523  -1.839  -1.832  -1.446
181   S        -2.492  -2.417  -2.072  -2.288  -2.198  -1.823  -2.094  -2.029  -1.601
182   S        -1.711  -1.835  -1.648  -1.798  -1.948  -1.664  -1.605  -1.705  -1.431
183   A         0.147   0.222  -0.279   0.063   0.146  -0.415   0.189   0.282  -0.479
184   S        -1.209  -1.170  -1.608  -1.118  -1.073  -1.499  -0.981  -0.950  -1.390
185   A        -1.841  -1.928  -2.051  -1.648  -1.790  -1.959  -1.449  -1.552  -1.584
186   A        -1.711  -1.808  -1.641  -1.814  -1.951  -1.689  -1.605  -1.687  -1.425
187   A        -1.349  -1.350  -1.118  -1.454  -1.470  -1.105  -1.497  -1.486  -1.164
188   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
189   S        -1.242  -1.257  -1.118  -1.547  -1.590  -1.335  -1.337  -1.371  -1.163
190   E        -1.679  -1.773  -1.661  -1.220  -1.360  -1.278  -1.497  -1.617  -1.441
191   S        -0.903  -0.900  -1.078  -0.576  -0.564  -0.830  -0.903  -0.886  -1.114
192   D        -2.452  -2.434  -2.081  -2.065  -2.097  -1.716  -2.073  -2.051  -1.608
193   V        -1.215  -1.243  -1.103  -1.545  -1.533  -1.257  -1.371  -1.379  -1.147
194   A        -1.115  -1.045  -1.096  -1.208  -1.134  -1.118  -1.215  -1.154  -1.136
195   K        -1.956  -1.826  -1.653  -2.052  -1.892  -1.551  -1.839  -1.730  -1.436
196   Q        -1.230  -1.256  -1.118  -1.555  -1.621  -1.377  -1.293  -1.341  -1.162
197   L         0.863   0.869   0.928   0.741   0.749   0.858   0.891   0.901   0.987
198   A        -0.545  -0.585  -1.057  -0.574  -0.639  -1.340  -0.435  -0.496  -1.088
199   S        -2.873  -2.813  -2.421  -2.639  -2.602  -2.019  -2.229  -2.182  -1.717
200   F        -0.483  -0.428  -0.353  -0.488  -0.411  -0.415  -0.747  -0.670  -0.605
201   G         0.863   0.869   0.928   0.902   0.909   0.989   0.891   0.901   0.987
202   Y         0.863   0.869   0.928   1.024   1.028   1.089   0.891   0.901   0.987
* 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/P26785
Output conservation file - output/P26785
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
