1     M         1.336   1.337   1.356   1.760   1.763   1.787   1.400   1.402   1.424
2     N        -0.205  -0.195  -0.247  -0.067  -0.045  -0.159  -0.316  -0.299  -0.377
3     L        -1.324  -1.321  -1.285  -1.174  -1.151  -1.110  -1.174  -1.169  -1.110
4     Y        -0.205  -0.178  -0.244  -0.048  -0.006  -0.105  -0.316  -0.274  -0.373
5     G        -1.324  -1.321  -1.285  -1.444  -1.437  -1.376  -1.174  -1.169  -1.110
6     Y        -0.205  -0.195  -0.247   0.015   0.032  -0.065  -0.316  -0.299  -0.377
7     F        -0.205  -0.178  -0.244  -0.350  -0.306  -0.403  -0.316  -0.274  -0.373
8     L        -0.205  -0.178  -0.244  -0.203  -0.149  -0.292  -0.316  -0.274  -0.373
9     L        -0.205  -0.178  -0.244  -0.230  -0.183  -0.317  -0.316  -0.274  -0.373
10    L        -0.205  -0.236  -0.258  -0.350  -0.395  -0.423  -0.316  -0.363  -0.395
11    I        -1.324  -1.321  -1.285  -1.306  -1.312  -1.240  -1.174  -1.169  -1.110
12    I        -0.205  -0.236  -0.258  -0.203  -0.261  -0.322  -0.316  -0.363  -0.395
13    V         1.336   1.337   1.356   1.444   1.441   1.475   1.400   1.402   1.424
14    I        -0.205  -0.178  -0.244  -0.099  -0.060  -0.164  -0.316  -0.274  -0.373
15    A        -0.205  -0.195  -0.247  -0.216  -0.198  -0.310  -0.316  -0.299  -0.377
16    F         1.336   1.337   1.356   1.444   1.449   1.475   1.400   1.402   1.424
17    I        -0.205  -0.236  -0.258  -0.086  -0.140  -0.179  -0.316  -0.363  -0.395
18    A        -1.324  -1.321  -1.285  -1.315  -1.312  -1.248  -1.174  -1.169  -1.110
19    L        -0.205  -0.195  -0.247  -0.350  -0.335  -0.407  -0.316  -0.299  -0.377
20    L         1.336   1.337   1.356   1.185   1.190   1.219   1.400   1.402   1.424
21    P         1.336   1.337   1.356   1.679   1.682   1.707   1.400   1.402   1.424
22    L        -0.205  -0.195  -0.247  -0.183  -0.168  -0.211  -0.316  -0.299  -0.377
23    F        -1.324  -1.321  -1.285  -1.306  -1.293  -1.240  -1.174  -1.169  -1.110
24    S        -0.205  -0.236  -0.258  -0.256  -0.306  -0.344  -0.316  -0.363  -0.395
25    G         1.336   1.337   1.356   1.388   1.388   1.419   1.400   1.402   1.424
26    I         1.336   1.337   1.356   1.472   1.477   1.503   1.400   1.402   1.424
27    G         1.336   1.337   1.356   1.388   1.388   1.419   1.400   1.402   1.424
28    T        -0.205  -0.178  -0.244  -0.131  -0.090  -0.175  -0.316  -0.274  -0.373
29    F        -0.205  -0.178  -0.244   0.015   0.060  -0.060  -0.316  -0.274  -0.373
30    K        -0.205  -0.178  -0.244  -0.412  -0.354  -0.504  -0.316  -0.274  -0.373
31    L        -1.324  -1.321  -1.285  -1.306  -1.295  -1.240  -1.174  -1.169  -1.110
32    T        -1.324  -1.321  -1.285  -1.015  -1.023  -0.952  -1.174  -1.169  -1.110
33    K         1.336   1.337   1.356   1.050   1.056   1.086   1.400   1.402   1.424
34    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
35    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
36    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
37    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
38    P        -0.342  -0.341  -0.310  -0.098  -0.096  -0.047  -0.531  -0.528  -0.476
39    K        -0.342  -0.341  -0.310  -0.659  -0.657  -0.601  -0.531  -0.528  -0.476
40    S        -0.342  -0.341  -0.310  -0.437  -0.435  -0.382  -0.531  -0.528  -0.476
41    S        -0.342  -0.341  -0.310  -0.453  -0.451  -0.397  -0.531  -0.528  -0.476
42    A         1.336   1.337   1.356   1.458   1.458   1.489   1.400   1.402   1.424
43    T        -1.324  -1.321  -1.285  -1.261  -1.276  -1.196  -1.174  -1.169  -1.110
44    A        -1.324  -1.321  -1.285  -1.253  -1.258  -1.187  -1.174  -1.169  -1.110
45    Q        -0.205  -0.178  -0.244  -0.138  -0.098  -0.183  -0.316  -0.274  -0.373
46    S        -1.324  -1.321  -1.285  -1.279  -1.279  -1.213  -1.174  -1.169  -1.110
47    A        -0.205  -0.178  -0.244  -0.468  -0.427  -0.512  -0.316  -0.274  -0.373
48    T        -1.324  -1.321  -1.285  -1.261  -1.257  -1.196  -1.174  -1.169  -1.110
49    G        -0.205  -0.195  -0.247  -0.223  -0.206  -0.302  -0.316  -0.299  -0.377
50    K        -1.324  -1.321  -1.285  -1.333  -1.321  -1.266  -1.174  -1.169  -1.110
51    L        -0.205  -0.195  -0.247  -0.426  -0.405  -0.496  -0.316  -0.299  -0.377
52    G        -1.324  -1.321  -1.285  -1.270  -1.264  -1.204  -1.174  -1.169  -1.110
53    K        -0.205  -0.195  -0.247  -0.426  -0.408  -0.466  -0.316  -0.299  -0.377
54    R        -0.205  -0.236  -0.258   0.040  -0.009  -0.045  -0.316  -0.363  -0.395
55    E        -0.205  -0.236  -0.258  -0.276  -0.330  -0.353  -0.316  -0.363  -0.395
56    Y        -0.205  -0.178  -0.244  -0.405  -0.367  -0.439  -0.316  -0.274  -0.373
57    L         1.336   1.337   1.356   1.185   1.190   1.219   1.400   1.402   1.424
58    K         1.336   1.337   1.356   1.050   1.056   1.086   1.400   1.402   1.424
59    K        -0.205  -0.195  -0.247  -0.412  -0.394  -0.450  -0.316  -0.299  -0.377
60    K        -0.205  -0.236  -0.258  -0.568  -0.619  -0.651  -0.316  -0.363  -0.395
61    L         1.336   1.337   1.356   1.171   1.173   1.205   1.400   1.402   1.424
62    D         1.336   1.337   1.356   1.235   1.238   1.269   1.400   1.402   1.424
63    H        -0.342  -0.341  -0.310  -0.438  -0.436  -0.383  -0.531  -0.528  -0.476
64    T        -1.324  -1.321  -1.285  -1.209  -1.210  -1.144  -1.174  -1.169  -1.110
65    N        -1.324  -1.321  -1.285  -1.081  -1.083  -1.018  -1.174  -1.169  -1.110
66    V        -1.324  -1.321  -1.285  -1.015  -1.007  -0.952  -1.174  -1.169  -1.110
67    L        -0.205  -0.236  -0.258  -0.350  -0.399  -0.423  -0.316  -0.363  -0.395
68    K        -0.205  -0.195  -0.247  -0.412  -0.394  -0.450  -0.316  -0.299  -0.377
69    F         1.336   1.337   1.356   1.444   1.449   1.475   1.400   1.402   1.424
70    D        -1.324  -1.321  -1.285  -1.598  -1.597  -1.528  -1.174  -1.169  -1.110
71    L        -0.205  -0.236  -0.258  -0.350  -0.399  -0.423  -0.316  -0.363  -0.395
72    K        -0.205  -0.236  -0.258  -0.539  -0.584  -0.616  -0.316  -0.363  -0.395
73    D        -0.205  -0.236  -0.258  -0.316  -0.367  -0.410  -0.316  -0.363  -0.395
74    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
75    T        -1.324  -1.321  -1.285  -1.040  -1.042  -0.977  -1.174  -1.169  -1.110
76    E        -1.324  -1.321  -1.285  -1.253  -1.237  -1.187  -1.174  -1.169  -1.110
77    E         1.336   1.337   1.356   1.258   1.256   1.291   1.400   1.402   1.424
78    S        -0.205  -0.236  -0.258  -0.256  -0.306  -0.344  -0.316  -0.363  -0.395
79    L        -1.324  -1.321  -1.285  -1.549  -1.542  -1.479  -1.174  -1.169  -1.110
80    G         1.336   1.337   1.356   1.388   1.388   1.419   1.400   1.402   1.424
81    H        -0.342  -0.341  -0.310  -0.098  -0.096  -0.047  -0.531  -0.528  -0.476
82    D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
83    S        -0.342  -0.341  -0.310  -0.825  -0.824  -0.765  -0.531  -0.528  -0.476
84    A        -0.342  -0.341  -0.310  -0.422  -0.421  -0.368  -0.531  -0.528  -0.476
85    S         1.336   1.337   1.356   1.257   1.260   1.290   1.400   1.402   1.424
86    A        -0.342  -0.341  -0.310  -0.071  -0.069  -0.021  -0.531  -0.528  -0.476
87    S        -0.342  -0.341  -0.310  -0.422  -0.421  -0.368  -0.531  -0.528  -0.476
88    S         1.336   1.337   1.356   1.257   1.260   1.290   1.400   1.402   1.424
89    A        -1.324  -1.321  -1.285  -1.434  -1.430  -1.366  -1.174  -1.169  -1.110
90    S        -1.324  -1.321  -1.285  -1.056  -1.038  -0.993  -1.174  -1.169  -1.110
91    R        -0.205  -0.195  -0.247  -0.048  -0.030  -0.130  -0.316  -0.299  -0.377
92    K        -0.205  -0.195  -0.247  -0.568  -0.550  -0.632  -0.316  -0.299  -0.377
93    F         1.336   1.337   1.356   1.444   1.449   1.475   1.400   1.402   1.424
94    E        -0.205  -0.195  -0.247  -0.357  -0.343  -0.431  -0.316  -0.299  -0.377
95    I         1.336   1.337   1.356   1.472   1.477   1.503   1.400   1.402   1.424
96    D         1.336   1.337   1.356   1.287   1.292   1.320   1.400   1.402   1.424
97    S        -0.205  -0.236  -0.258  -0.256  -0.306  -0.344  -0.316  -0.363  -0.395
98    K         1.336   1.337   1.356   1.050   1.056   1.086   1.400   1.402   1.424
99    T         1.336   1.337   1.356   1.652   1.657   1.680   1.400   1.402   1.424
100   G         1.336   1.337   1.356   1.388   1.388   1.419   1.400   1.402   1.424
101   L         1.336   1.337   1.356   1.185   1.190   1.219   1.400   1.402   1.424
102   K         1.336   1.337   1.356   1.050   1.056   1.086   1.400   1.402   1.424
103   R        -0.205  -0.236  -0.258  -0.197  -0.261  -0.333  -0.316  -0.363  -0.395
104   R         1.336   1.337   1.356   1.542   1.546   1.572   1.400   1.402   1.424
105   V         1.336   1.337   1.356   1.444   1.441   1.475   1.400   1.402   1.424
106   I        -0.205  -0.195  -0.247  -0.203  -0.180  -0.297  -0.316  -0.299  -0.377
107   G        -0.205  -0.195  -0.247  -0.223  -0.206  -0.302  -0.316  -0.299  -0.377
108   Q        -1.324  -1.321  -1.285  -1.218  -1.233  -1.152  -1.174  -1.169  -1.110
109   Y         1.336   1.337   1.356   1.584   1.585   1.613   1.400   1.402   1.424
110   N        -0.205  -0.195  -0.247  -0.067  -0.045  -0.159  -0.316  -0.299  -0.377
111   K        -1.324  -1.321  -1.285  -1.397  -1.394  -1.329  -1.174  -1.169  -1.110
112   D         1.336   1.337   1.356   1.287   1.292   1.320   1.400   1.402   1.424
113   P        -0.205  -0.236  -0.258   0.021  -0.043  -0.103  -0.316  -0.363  -0.395
114   N        -0.205  -0.236  -0.258   0.008  -0.044  -0.090  -0.316  -0.363  -0.395
115   D        -1.324  -1.321  -1.285  -1.297  -1.297  -1.231  -1.174  -1.169  -1.110
116   F         1.336   1.337   1.356   1.444   1.449   1.475   1.400   1.402   1.424
117   D         1.336   1.337   1.356   1.287   1.292   1.320   1.400   1.402   1.424
118   F        -0.205  -0.236  -0.258  -0.048  -0.095  -0.126  -0.316  -0.363  -0.395
119   D         1.336   1.337   1.356   1.287   1.292   1.320   1.400   1.402   1.424
120   I        -0.205  -0.236  -0.258  -0.086  -0.140  -0.179  -0.316  -0.363  -0.395
121   D         1.336   1.337   1.356   1.287   1.292   1.320   1.400   1.402   1.424
122   D        -0.205  -0.178  -0.244  -0.357  -0.314  -0.427  -0.316  -0.274  -0.373
123   L         1.336   1.337   1.356   1.185   1.190   1.219   1.400   1.402   1.424
124   I         1.336   1.337   1.356   1.472   1.477   1.503   1.400   1.402   1.424
125   N        -1.324  -1.321  -1.285  -1.174  -1.170  -1.110  -1.174  -1.169  -1.110
126   E         1.336   1.337   1.356   1.258   1.256   1.291   1.400   1.402   1.424
127   D         1.336   1.337   1.356   1.287   1.292   1.320   1.400   1.402   1.424
128   E        -1.324  -1.321  -1.285  -1.379  -1.380  -1.311  -1.174  -1.169  -1.110
129   L        -1.324  -1.321  -1.285  -1.510  -1.485  -1.441  -1.174  -1.169  -1.110
130   D        -0.205  -0.178  -0.244  -0.357  -0.314  -0.427  -0.316  -0.274  -0.373
131   E        -0.205  -0.236  -0.258  -0.190  -0.237  -0.249  -0.316  -0.363  -0.395
132   R        -1.324  -1.321  -1.285  -0.982  -0.976  -0.920  -1.174  -1.169  -1.110
133   R        -1.324  -1.321  -1.285  -1.218  -1.204  -1.152  -1.174  -1.169  -1.110
134   E         1.336   1.337   1.356   1.258   1.256   1.291   1.400   1.402   1.424
135   E         1.336   1.337   1.356   1.258   1.256   1.291   1.400   1.402   1.424
136   E        -1.324  -1.321  -1.285  -1.149  -1.147  -1.084  -1.174  -1.169  -1.110
137   K        -1.324  -1.321  -1.285  -1.270  -1.258  -1.204  -1.174  -1.169  -1.110
138   K        -0.205  -0.178  -0.244  -0.197  -0.139  -0.300  -0.316  -0.274  -0.373
139   L        -1.324  -1.321  -1.285  -1.218  -1.199  -1.152  -1.174  -1.169  -1.110
140   K        -0.205  -0.236  -0.258  -0.468  -0.511  -0.530  -0.316  -0.363  -0.395
141   K        -0.205  -0.236  -0.258  -0.378  -0.415  -0.421  -0.316  -0.363  -0.395
142   Y        -0.205  -0.195  -0.247   0.015   0.032  -0.065  -0.316  -0.299  -0.377
143   N        -1.324  -1.321  -1.285  -1.279  -1.286  -1.213  -1.174  -1.169  -1.110
144   G         1.336   1.337   1.356   1.388   1.388   1.419   1.400   1.402   1.424
145   K         1.336   1.337   1.356   1.050   1.056   1.086   1.400   1.402   1.424
146   K        -1.324  -1.321  -1.285  -1.618  -1.606  -1.548  -1.174  -1.169  -1.110
147   N        -0.205  -0.195  -0.247  -0.055  -0.032  -0.143  -0.316  -0.299  -0.377
148   E         1.336   1.337   1.356   1.258   1.256   1.291   1.400   1.402   1.424
149   A        -0.205  -0.236  -0.258  -0.004  -0.051  -0.076  -0.316  -0.363  -0.395
150   Y        -0.205  -0.236  -0.258   0.101   0.051   0.019  -0.316  -0.363  -0.395
151   E         1.336   1.337   1.356   1.258   1.256   1.291   1.400   1.402   1.424
152   G        -0.205  -0.236  -0.258  -0.106  -0.153  -0.180  -0.316  -0.363  -0.395
153   F        -0.205  -0.236  -0.258  -0.230  -0.288  -0.346  -0.316  -0.363  -0.395
154   V         1.336   1.337   1.356   1.444   1.441   1.475   1.400   1.402   1.424
* 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/Q07541
Output conservation file - output/Q07541
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
