1.     #!/usr/bin/env aspl
2.     #ENVARG= -wsname DNASEQ1 -groupingclass DNASEQUENCE -nostrictld
3.     
4.     ;;***********************************************************************
5.     ;;   mutant.aspl
6.     ;;   Using workspace DNASEQ1 for DNA example 
7.     ;;   Copyright © 2024 Bassem W. Jamaleddine
8.     ;;   All rights reserved.
9.     ;;   
10.    ;;***********************************************************************
11.    
12.    endScriptIfShellArgsLessThan 3
13.    
14.    dm 3
15.    v sorted
16.    ggAlignDnaSeq(v1,$1,v2,$2,fragsize,$3)
17.    
18.    endscript
19.    
20.    __END__
21.    
22.     $00 must be followed by three arguments
23.    
24.        $00 var1 var2 fragmentsize
25.    
26.      where var1 and var2 are set variables that are saved in sample workspace 
      DNASEQ1, 
27.      and fragmentsize is the size to fragment the DNA to be aligned. 
28.    
29.      For example, to show alignment of DNA for man3 variable that is a mutant:
30.        $00  man3 man3@1 3
31.    
32.      to show alignment of DNA for man1 and man3, but neither one is a mutant of 
      the other: 
33.        $00  man1 man3 3
34.        $00  man1 man2 5
35.