## 3 Results and Discussion  
**Haplotype Phasing. ** The results of comparing haplotype phasing using nine combinations of core length and core tail parameters using Alphabphase software are presented in Figure 1.  
The average degree of similitude was 0.89, and it was consistently above 0.86. Specifically, the predicted haplotype phase was identical across all nine scenarios for only 78.74% of the analyses but had concordance in more than seven scenarios for 92.5% of SNPs. These findings indicated that the output of the phasing algorithm was highly dependent on the specific set of parameters used for its implementation when medium-density SNP chips were used. **Calculation of Genetic Matrices**. The diagonal values of the gametic matrices for the Entrepelado population ranged from 0.894 to 1.100, while for the Retinto population, they ranged from 0.901 to 1.179. Table 3 shows the distribution of the gametic relationships observed in the off-diagonal elements of the gametic matrices. The calculated gametic matrices yielded results consistent with the familiar relationships of the individuals, as gametic relationships around 0.50 indicated that the individuals shared sire (or dam), while gametic relationships around 0.25 suggested that the sires (or dams) of the individuals were fullsibs. **Variance Components. ** The posterior mean and standard deviation estimate of the variance components are presented in Table 4.  
Figure 1: Degree of similitude between estimated haplotype phases in the nine scenarios of phasing. \begin{table}
\begin{tabular}{l l l} \hline \hline
**Gametic Relationship** & **Entrepelado** & **Retinto** \\ \hline \textless{}0.05 & 92,276 (86.03\%) & 94,144 (87.77\%) \\
**0.05–0.10** & 8130 (7.58\%) & 8900 (8.29\%) \\
**0.10–0.20** & 4670 (4.35\%) & 3130 (2.92\%) \\
**0.20–0.30** & 1076 (1.00\%) & 582 (0.54\%) \\
**0.30–0.40** & 480 (0.44\%) & 252 (0.23\%) \\
**0.40–0.50** & 396 (0.36\%) & 188 (0.18\%) \\
**>0.50** & 228 (0.21\%) & 60 (0.05\%) \\ \hline \hline \end{tabular}
\end{table} 
Table 3: Distribution of gametic relationships between the Entrepelado and Retinto gametic effects. Furthermore, Figure 2 shows the posterior distributions of the ratios of gametic variances in the Entrepelado \(\times\) Retinto (E \(\times\) R) and Retinto \(\times\) Entrepelado (R \(\times\) E) crosses. The posterior mean estimates were similar, ranging between 0.034 for the Retinto maternal gametic effects in the ER cross and 0.043 for the Entrepelado paternal gametic effects in the RE cross. These results indicate that there are no relevant differences in the amount of genetic variance contributed by the paternal and maternal origins in either of the two reciprocal crosses, based on the available information. **Gametic Correlations. ** The posterior distribution of the gametic correlations for the TNB and NBA in the Entrepelado and Retinto populations are presented in Figures 3 and 4, respectively. The posterior distribution of the correlation between gametic effects in Retinto and Entrepelado showed notable differences in shape. Specifically, the posterior distributions of the gametic correlations in the Retinto population exhibited a higher degree of positive asymmetry compared to those in the Entrepelado population. In fact, the posterior probabilities of a positive gametic correlation in the Retinto population were 0.80 and 0.78 for the TNB and NBA, respectively. In contrast, the posterior probabilities of a positive gametic correlation in the Entrepelado population were 0.50 (TNB) and 0.54 (NBA). Although caution is needed in interpreting the results due to the limited amount of phenotypic and genotypic information, the shape of the posterior distribution of gametic correlations suggests a potential role of genomic imprinting.