Mustering Reads

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my $k =25;
my %readrepo =(
...
        "readB_2",
        "readC_1",
       "readD_2");

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 readA                 GCTGAGGCAGGAGAATTGCTTGAACCTGGGAGGCA
 readB       TACTCAGGAGGCTGAGGCAGGAGAATTGCTTGAAC
 readC                 GCTGAGGCAGGAGAATTGCTTGAACTTAGGGGATG
 readD       TACTCGGGAGGCTGAGGCAGGAGAATTGCTTGAAC

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TACTC(A,G)GGAGGAGAATTGCTTGAACCTGGGAGGCA(T,C)T(A,G)GG(A,G)G(A,G)(T,C)(A
+,G)

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