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Table 4 Haplotyping for sow 65 for SNP base pair (bp) positions 309,120, 477,400, 705,066, 712,417, 768,502, 771,992, 887,856, 1,208,216 and 1,301,402 on chromosome 1

From: Failing the four-gamete test enables exact phasing: the Corners’ Algorithm

bp position

477,400

705,066

712,417

768,502

771,992

887,856

1,208,216

1,301,402

309,120

AA

GA

AG

GG

AC

GC

AG

GG

AA

GA

AA

GA

AG

GA

AG

GA

477,400

 

AG

AG

AC

AC

AG

AG

AA

AA

AA

AA

AG

AA

AG

AA

705,066

  

GC

GC

GG

GG

GA

GA

GA

GG

GG

GA

GG

GA

712,417

   

CG

CG

CA

CA

CA

CG

CG

CA

CG

CA

768,502

    

GA

GA

GA

GG

GG

GA

GG

GA

771,992

     

AA

AG

AG

AA

AG

AA

887,856

      

AG

AA

AG

AA

1,208,216

       

GG

AA

  1. The underline is the genotype for position 309,120 and is used to illustrate the phasing method. The genotypes beside the underline corresponds to the genotype for the SNP with the position as indicated in the top of the table. Phases of haplotypes for a SNP pair for which the individual is a double heterozygote are in bold and are phased after the Corner’s Algorithm