Re: Can't think of an algorithm to go..

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AAAAAAAAAAAAAAA-------------BBBBBBBBBBBBBBBBB-CCCCCCCCCCCCC---CCCCCCCC
+CCCCCCC
------AAAAAAAAAAAAAAAAAA----------------BBBBBBBBBBBBBBBBBBCCCCCCCCCCCC
+CCCCCCC
-------------------AAAAAA---------BBBBBBBBBBBBBBBBBBBBBBB------CCCCCCC
+CCCCCCC
-------------------AAAAA----------------------------BBBBBBBBBBBBBDDDDD
+DDDDDDD

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sub consensus {
   $rest='-';
...
   );
}

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-------------------AAAAA----------------------------BBBBBBBBBBBBBDDDDD
+DDDDDDD

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