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= Representation of close by variants =
 
= Representation of close by variants =
   −
     CATACTATATATAGCCTCCA
+
     1:124001690
 +
    TTTCTTT--CAAAAAAAGATAAAAAGGTATTTCATGG
 +
    TTTCTTTAAAAAAAAAAGATAAAAAGGAATTTCATGG
 +
 
 +
    HaplotypeCaller - a single complex variant
 +
    CHROM POS      REF  ALT
 +
    1    124001690    C      AAA
 +
 
 +
    vt - an Indel and SNP adjacent to one another
 +
    CHROM POS      REF  ALT
 +
    1    124001689    T      TAA
 +
    1    124001690    C      A
    
= Output  =
 
= Output  =
1,102

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