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
| 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 |
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