1     M         1.068   1.068   1.068   1.285   1.285   1.285   1.068   1.068   1.068
2     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
3     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
4     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
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     -        -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    K         1.068   1.068   1.068   0.949   0.949   0.949   1.068   1.068   1.068
14    V        -0.931  -0.931  -0.931  -1.098  -1.098  -1.098  -0.931  -0.931  -0.931
15    G        -0.931  -0.931  -0.931  -1.203  -1.203  -1.203  -0.931  -0.931  -0.931
16    I        -0.931  -0.931  -0.931  -1.098  -1.098  -1.098  -0.931  -0.931  -0.931
17    I         1.068   1.068   1.068   0.966   0.966   0.966   1.068   1.068   1.068
18    M         1.068   1.068   1.068   1.285   1.285   1.285   1.068   1.068   1.068
19    G         1.068   1.068   1.068   0.915   0.915   0.915   1.068   1.068   1.068
20    S         1.068   1.068   1.068   1.136   1.136   1.136   1.068   1.068   1.068
21    V         1.068   1.068   1.068   0.897   0.897   0.897   1.068   1.068   1.068
22    R         1.068   1.068   1.068   1.236   1.236   1.236   1.068   1.068   1.068
23    A        -0.931  -0.931  -0.931  -0.871  -0.871  -0.871  -0.931  -0.931  -0.931
24    K         1.068   1.068   1.068   0.949   0.949   0.949   1.068   1.068   1.068
25    R         1.068   1.068   1.068   1.236   1.236   1.236   1.068   1.068   1.068
26    V        -0.931  -0.931  -0.931  -1.216  -1.216  -1.216  -0.931  -0.931  -0.931
27    C         1.068   1.068   1.068   1.367   1.367   1.367   1.068   1.068   1.068
28    P         1.068   1.068   1.068   1.035   1.035   1.035   1.068   1.068   1.068
29    E        -0.931  -0.931  -0.931  -0.858  -0.858  -0.858  -0.931  -0.931  -0.931
30    I         1.068   1.068   1.068   0.966   0.966   0.966   1.068   1.068   1.068
31    A         1.068   1.068   1.068   1.035   1.035   1.035   1.068   1.068   1.068
32    A        -0.931  -0.931  -0.931  -0.858  -0.858  -0.858  -0.931  -0.931  -0.931
33    Y        -0.931  -0.931  -0.931  -0.585  -0.585  -0.585  -0.931  -0.931  -0.931
34    V         1.068   1.068   1.068   0.897   0.897   0.897   1.068   1.068   1.068
35    K        -0.931  -0.931  -0.931  -1.098  -1.098  -1.098  -0.931  -0.931  -0.931
36    R        -0.931  -0.931  -0.931  -0.798  -0.798  -0.798  -0.931  -0.931  -0.931
37    T        -0.931  -0.931  -0.931  -0.678  -0.678  -0.678  -0.931  -0.931  -0.931
38    I        -0.931  -0.931  -0.931  -1.085  -1.085  -1.085  -0.931  -0.931  -0.931
39    E        -0.931  -0.931  -0.931  -1.008  -1.008  -1.008  -0.931  -0.931  -0.931
40    N        -0.931  -0.931  -0.931  -0.655  -0.655  -0.655  -0.931  -0.931  -0.931
41    S        -0.931  -0.931  -0.931  -0.871  -0.871  -0.871  -0.931  -0.931  -0.931
42    E        -0.931  -0.931  -0.931  -0.858  -0.858  -0.858  -0.931  -0.931  -0.931
43    E        -0.931  -0.931  -0.931  -0.798  -0.798  -0.798  -0.931  -0.931  -0.931
44    L        -0.931  -0.931  -0.931  -0.908  -0.908  -0.908  -0.931  -0.931  -0.931
45    I        -0.931  -0.931  -0.931  -0.945  -0.945  -0.945  -0.931  -0.931  -0.931
46    D        -0.931  -0.931  -0.931  -0.749  -0.749  -0.749  -0.931  -0.931  -0.931
47    Q        -0.931  -0.931  -0.931  -0.822  -0.822  -0.822  -0.931  -0.931  -0.931
48    K         1.068   1.068   1.068   0.949   0.949   0.949   1.068   1.068   1.068
49    L        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
50    K        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
51    I        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
52    Q        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
53    V        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
54    V         1.068   1.068   1.068   0.897   0.897   0.897   1.068   1.068   1.068
55    D         1.068   1.068   1.068   1.103   1.103   1.103   1.068   1.068   1.068
56    L         1.068   1.068   1.068   0.809   0.809   0.809   1.068   1.068   1.068
57    Q        -0.931  -0.931  -0.931  -0.738  -0.738  -0.738  -0.931  -0.931  -0.931
58    Q        -0.931  -0.931  -0.931  -0.773  -0.773  -0.773  -0.931  -0.931  -0.931
59    I        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
60    A        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
61    L        -0.931  -0.931  -0.931  -0.883  -0.883  -0.883  -0.931  -0.931  -0.931
62    P         1.068   1.068   1.068   1.035   1.035   1.035   1.068   1.068   1.068
63    L         1.068   1.068   1.068   0.809   0.809   0.809   1.068   1.068   1.068
64    Y        -0.931  -0.931  -0.931  -0.726  -0.726  -0.726  -0.931  -0.931  -0.931
65    E        -0.931  -0.931  -0.931  -0.761  -0.761  -0.761  -0.931  -0.931  -0.931
66    D        -0.931  -0.931  -0.931  -0.822  -0.822  -0.822  -0.931  -0.931  -0.931
67    D         1.068   1.068   1.068   1.103   1.103   1.103   1.068   1.068   1.068
68    D        -0.931  -0.931  -0.931  -0.895  -0.895  -0.895  -0.931  -0.931  -0.931
69    E        -0.931  -0.931  -0.931  -0.945  -0.945  -0.945  -0.931  -0.931  -0.931
70    L        -0.931  -0.931  -0.931  -1.203  -1.203  -1.203  -0.931  -0.931  -0.931
71    I        -0.931  -0.931  -0.931  -1.163  -1.163  -1.163  -0.931  -0.931  -0.931
72    P         1.068   1.068   1.068   1.035   1.035   1.035   1.068   1.068   1.068
73    A        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
74    Q        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
75    I         1.068   1.068   1.068   0.966   0.966   0.966   1.068   1.068   1.068
76    K        -0.931  -0.931  -0.931  -0.822  -0.822  -0.822  -0.931  -0.931  -0.931
77    S        -0.931  -0.931  -0.931  -0.957  -0.957  -0.957  -0.931  -0.931  -0.931
78    V        -0.931  -0.931  -0.931  -1.098  -1.098  -1.098  -0.931  -0.931  -0.931
79    D         1.068   1.068   1.068   1.103   1.103   1.103   1.068   1.068   1.068
80    E        -0.931  -0.931  -0.931  -1.046  -1.046  -1.046  -0.931  -0.931  -0.931
81    Y         1.068   1.068   1.068   1.236   1.236   1.236   1.068   1.068   1.068
82    A        -0.931  -0.931  -0.931  -0.858  -0.858  -0.858  -0.931  -0.931  -0.931
83    D        -0.931  -0.931  -0.931  -0.773  -0.773  -0.773  -0.931  -0.931  -0.931
84    S        -0.931  -0.931  -0.931  -0.871  -0.871  -0.871  -0.931  -0.931  -0.931
85    K        -0.931  -0.931  -0.931  -0.834  -0.834  -0.834  -0.931  -0.931  -0.931
86    T         1.068   1.068   1.068   1.153   1.153   1.153   1.068   1.068   1.068
87    R        -0.931  -0.931  -0.931  -0.858  -0.858  -0.858  -0.931  -0.931  -0.931
88    S        -0.931  -0.931  -0.931  -0.871  -0.871  -0.871  -0.931  -0.931  -0.931
89    W         1.068   1.068   1.068   1.334   1.334   1.334   1.068   1.068   1.068
90    S        -0.931  -0.931  -0.931  -0.957  -0.957  -0.957  -0.931  -0.931  -0.931
91    R        -0.931  -0.931  -0.931  -0.726  -0.726  -0.726  -0.931  -0.931  -0.931
92    I        -0.931  -0.931  -0.931  -1.059  -1.059  -1.059  -0.931  -0.931  -0.931
93    V        -0.931  -0.931  -0.931  -1.098  -1.098  -1.098  -0.931  -0.931  -0.931
94    N        -0.931  -0.931  -0.931  -0.798  -0.798  -0.798  -0.931  -0.931  -0.931
95    A        -0.931  -0.931  -0.931  -1.033  -1.033  -1.033  -0.931  -0.931  -0.931
96    L        -0.931  -0.931  -0.931  -1.111  -1.111  -1.111  -0.931  -0.931  -0.931
97    D         1.068   1.068   1.068   1.103   1.103   1.103   1.068   1.068   1.068
98    I        -0.931  -0.931  -0.931  -1.085  -1.085  -1.085  -0.931  -0.931  -0.931
99    I        -0.931  -0.931  -0.931  -0.798  -0.798  -0.798  -0.931  -0.931  -0.931
100   V         1.068   1.068   1.068   0.897   0.897   0.897   1.068   1.068   1.068
101   F         1.068   1.068   1.068   1.302   1.302   1.302   1.068   1.068   1.068
102   V         1.068   1.068   1.068   0.897   0.897   0.897   1.068   1.068   1.068
103   T         1.068   1.068   1.068   1.153   1.153   1.153   1.068   1.068   1.068
104   P         1.068   1.068   1.068   1.035   1.035   1.035   1.068   1.068   1.068
105   Q         1.068   1.068   1.068   1.203   1.203   1.203   1.068   1.068   1.068
106   Y         1.068   1.068   1.068   1.236   1.236   1.236   1.068   1.068   1.068
107   N         1.068   1.068   1.068   1.236   1.236   1.236   1.068   1.068   1.068
108   W        -0.931  -0.931  -0.931  -0.810  -0.810  -0.810  -0.931  -0.931  -0.931
109   G         1.068   1.068   1.068   0.915   0.915   0.915   1.068   1.068   1.068
110   Y         1.068   1.068   1.068   1.236   1.236   1.236   1.068   1.068   1.068
111   P         1.068   1.068   1.068   1.035   1.035   1.035   1.068   1.068   1.068
112   A         1.068   1.068   1.068   1.035   1.035   1.035   1.068   1.068   1.068
113   A        -0.931  -0.931  -0.931  -0.995  -0.995  -0.995  -0.931  -0.931  -0.931
114   L         1.068   1.068   1.068   0.809   0.809   0.809   1.068   1.068   1.068
115   K         1.068   1.068   1.068   0.949   0.949   0.949   1.068   1.068   1.068
116   N         1.068   1.068   1.068   1.236   1.236   1.236   1.068   1.068   1.068
117   A         1.068   1.068   1.068   1.035   1.035   1.035   1.068   1.068   1.068
118   I        -0.931  -0.931  -0.931  -1.163  -1.163  -1.163  -0.931  -0.931  -0.931
119   D         1.068   1.068   1.068   1.103   1.103   1.103   1.068   1.068   1.068
120   R        -0.931  -0.931  -0.931  -0.632  -0.632  -0.632  -0.931  -0.931  -0.931
121   L         1.068   1.068   1.068   0.809   0.809   0.809   1.068   1.068   1.068
122   Y         1.068   1.068   1.068   1.236   1.236   1.236   1.068   1.068   1.068
123   H         1.068   1.068   1.068   1.269   1.269   1.269   1.068   1.068   1.068
124   E         1.068   1.068   1.068   1.035   1.035   1.035   1.068   1.068   1.068
125   W         1.068   1.068   1.068   1.334   1.334   1.334   1.068   1.068   1.068
126   H        -0.931  -0.931  -0.931  -0.632  -0.632  -0.632  -0.931  -0.931  -0.931
127   G         1.068   1.068   1.068   0.915   0.915   0.915   1.068   1.068   1.068
128   K         1.068   1.068   1.068   0.949   0.949   0.949   1.068   1.068   1.068
129   P         1.068   1.068   1.068   1.035   1.035   1.035   1.068   1.068   1.068
130   A        -0.931  -0.931  -0.931  -1.111  -1.111  -1.111  -0.931  -0.931  -0.931
131   L         1.068   1.068   1.068   0.809   0.809   0.809   1.068   1.068   1.068
132   V        -0.931  -0.931  -0.931  -1.098  -1.098  -1.098  -0.931  -0.931  -0.931
133   V         1.068   1.068   1.068   0.897   0.897   0.897   1.068   1.068   1.068
134   S         1.068   1.068   1.068   1.136   1.136   1.136   1.068   1.068   1.068
135   Y         1.068   1.068   1.068   1.236   1.236   1.236   1.068   1.068   1.068
136   G         1.068   1.068   1.068   0.915   0.915   0.915   1.068   1.068   1.068
137   G         1.068   1.068   1.068   0.915   0.915   0.915   1.068   1.068   1.068
138   H         1.068   1.068   1.068   1.269   1.269   1.269   1.068   1.068   1.068
139   G         1.068   1.068   1.068   0.915   0.915   0.915   1.068   1.068   1.068
140   G         1.068   1.068   1.068   0.915   0.915   0.915   1.068   1.068   1.068
141   S        -0.931  -0.931  -0.931  -0.957  -0.957  -0.957  -0.931  -0.931  -0.931
142   K        -0.931  -0.931  -0.931  -0.957  -0.957  -0.957  -0.931  -0.931  -0.931
143   C         1.068   1.068   1.068   1.367   1.367   1.367   1.068   1.068   1.068
144   N        -0.931  -0.931  -0.931  -0.798  -0.798  -0.798  -0.931  -0.931  -0.931
145   D        -0.931  -0.931  -0.931  -0.822  -0.822  -0.822  -0.931  -0.931  -0.931
146   Q         1.068   1.068   1.068   1.203   1.203   1.203   1.068   1.068   1.068
147   L         1.068   1.068   1.068   0.809   0.809   0.809   1.068   1.068   1.068
148   Q        -0.931  -0.931  -0.931  -0.883  -0.883  -0.883  -0.931  -0.931  -0.931
149   E        -0.931  -0.931  -0.931  -0.773  -0.773  -0.773  -0.931  -0.931  -0.931
150   V         1.068   1.068   1.068   0.897   0.897   0.897   1.068   1.068   1.068
151   L        -0.931  -0.931  -0.931  -1.111  -1.111  -1.111  -0.931  -0.931  -0.931
152   H        -0.931  -0.931  -0.931  -0.858  -0.858  -0.858  -0.931  -0.931  -0.931
153   G        -0.931  -0.931  -0.931  -0.834  -0.834  -0.834  -0.931  -0.931  -0.931
154   L         1.068   1.068   1.068   0.809   0.809   0.809   1.068   1.068   1.068
155   K         1.068   1.068   1.068   0.949   0.949   0.949   1.068   1.068   1.068
156   M         1.068   1.068   1.068   1.285   1.285   1.285   1.068   1.068   1.068
157   N        -0.931  -0.931  -0.931  -0.655  -0.655  -0.655  -0.931  -0.931  -0.931
158   V        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
159   I        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
160   G        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
161   G        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
162   V         1.068   1.068   1.068   0.897   0.897   0.897   1.068   1.068   1.068
163   A         1.068   1.068   1.068   1.035   1.035   1.035   1.068   1.068   1.068
164   V        -0.931  -0.931  -0.931  -1.046  -1.046  -1.046  -0.931  -0.931  -0.931
165   K        -0.931  -0.931  -0.931  -0.920  -0.920  -0.920  -0.931  -0.931  -0.931
166   I        -0.931  -0.931  -0.931  -0.810  -0.810  -0.810  -0.931  -0.931  -0.931
167   P         1.068   1.068   1.068   1.035   1.035   1.035   1.068   1.068   1.068
168   V        -0.931  -0.931  -0.931  -1.046  -1.046  -1.046  -0.931  -0.931  -0.931
169   G        -0.931  -0.931  -0.931  -1.203  -1.203  -1.203  -0.931  -0.931  -0.931
170   T         1.068   1.068   1.068   1.153   1.153   1.153   1.068   1.068   1.068
171   I        -0.931  -0.931  -0.931  -1.163  -1.163  -1.163  -0.931  -0.931  -0.931
172   P         1.068   1.068   1.068   1.035   1.035   1.035   1.068   1.068   1.068
173   L        -0.931  -0.931  -0.931  -0.957  -0.957  -0.957  -0.931  -0.931  -0.931
174   P        -0.931  -0.931  -0.931  -0.895  -0.895  -0.895  -0.931  -0.931  -0.931
175   E        -0.931  -0.931  -0.931  -1.008  -1.008  -1.008  -0.931  -0.931  -0.931
176   D        -0.931  -0.931  -0.931  -0.945  -0.945  -0.945  -0.931  -0.931  -0.931
177   I        -0.931  -0.931  -0.931  -1.098  -1.098  -1.098  -0.931  -0.931  -0.931
178   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
179   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
180   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
181   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
182   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
183   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
184   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
185   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
186   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
187   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
188   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
189   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
190   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
191   V        -0.931  -0.931  -0.931  -1.216  -1.216  -1.216  -0.931  -0.931  -0.931
192   P        -0.931  -0.931  -0.931  -1.033  -1.033  -1.033  -0.931  -0.931  -0.931
193   Q        -0.931  -0.931  -0.931  -0.822  -0.822  -0.822  -0.931  -0.931  -0.931
194   L         1.068   1.068   1.068   0.809   0.809   0.809   1.068   1.068   1.068
195   S        -0.931  -0.931  -0.931  -0.932  -0.932  -0.932  -0.931  -0.931  -0.931
196   V        -0.931  -0.931  -0.931  -1.111  -1.111  -1.111  -0.931  -0.931  -0.931
197   H        -0.931  -0.931  -0.931  -0.773  -0.773  -0.773  -0.931  -0.931  -0.931
198   N        -0.931  -0.931  -0.931  -0.608  -0.608  -0.608  -0.931  -0.931  -0.931
199   E        -0.931  -0.931  -0.931  -1.033  -1.033  -1.033  -0.931  -0.931  -0.931
200   E         1.068   1.068   1.068   1.035   1.035   1.035   1.068   1.068   1.068
201   I        -0.931  -0.931  -0.931  -0.798  -0.798  -0.798  -0.931  -0.931  -0.931
202   L        -0.931  -0.931  -0.931  -1.033  -1.033  -1.033  -0.931  -0.931  -0.931
203   Q         1.068   1.068   1.068   1.203   1.203   1.203   1.068   1.068   1.068
204   L         1.068   1.068   1.068   0.809   0.809   0.809   1.068   1.068   1.068
205   L        -0.931  -0.931  -0.931  -0.908  -0.908  -0.908  -0.931  -0.931  -0.931
206   A        -0.931  -0.931  -0.931  -0.945  -0.945  -0.945  -0.931  -0.931  -0.931
207   S         1.068   1.068   1.068   1.136   1.136   1.136   1.068   1.068   1.068
208   C        -0.931  -0.931  -0.931  -0.562  -0.562  -0.562  -0.931  -0.931  -0.931
209   I        -0.931  -0.931  -0.931  -0.995  -0.995  -0.995  -0.931  -0.931  -0.931
210   E         1.068   1.068   1.068   1.035   1.035   1.035   1.068   1.068   1.068
211   T        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
212   T        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
213   R         1.068   1.068   1.068   1.236   1.236   1.236   1.068   1.068   1.068
214   N        -0.931  -0.931  -0.931  -0.858  -0.858  -0.858  -0.931  -0.931  -0.931
215   K        -0.931  -0.931  -0.931  -1.008  -1.008  -1.008  -0.931  -0.931  -0.931
* 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/Q07923
Output conservation file - output/Q07923
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
