Table 5. Mx SNP with a significant allele substitution effect, and allele with favorable effect by trait.
| Trait | Line | SNP | Estimate | SE | P>|t| | Favorable Allele |
| Mortality1 | ||||||
| MM | WL-02 | MxCDS1015 | −1.51 | 0.697 | 0.031 | G |
| WL-03 | MxCDS122 | −1.52 | 0.715 | 0.033 | G | |
| WL-03 | MxCDS694 | 1.36 | 0.684 | 0.047 | G | |
| WPR-01 | MxP-55 | 1.52 | 0.715 | 0.033 | A | |
| LM | WL-02 | MxCDS122 | −1.14 | 0.037 | 0.002 | G |
| WL-03 | MxCDS122 | 1.59 | 0.795 | 0.0457 | C | |
| RIR-01 | MxCDS62 | 3.25 | 1.471 | 0.0219 | A | |
| Performance2 | ||||||
| EN | WL-03 | MxCDS122 | −1.14 | 0.527 | 0.031 | C |
| PD | WL-03 | MxCDS122 | −0.93 | 0.326 | 0.045 | C |
| WL-03 | MxCDS351 | −0.25 | 0.093 | 0.006 | C | |
| WL-03 | MxCDS694 | 0.19 | 0.096 | 0.047 | G | |
| RIR-01 | MxCDS62 | 0.58 | 0.215 | 0.007 | G | |
| AH | WL-02 | MxCDS122 | 0.07 | 0.032 | 0.031 | G |
| WL-02 | MxCDS1248 | 0.07 | 0.002 | 0.002 | G | |
| CO | WL-02 | MxCDS122 | −0.16 | 0.039 | <0.0001 | G |
| WL-02 | MxCDS1015 | 0.14 | 0.023 | <0.0001 | A | |
| WL-02 | MxCDS1248 | 0.11 | 0.026 | <0.0001 | A | |
| WL-03 | MxCDS351 | 0.13 | 0.024 | <0.0001 | C | |
| WL-03 | MxCDS694 | −0.13 | 0.025 | <0.0001 | G | |
| EW | WL-03 | MxCDS351 | 0.37 | 0.071 | <0.0001 | T |
| WL-03 | MxCDS694 | −0.39 | 0.073 | <0.0001 | A | |
| PS | WL-02 | MxCDS1248 | 1.65 | 0.815 | 0.044 | G |
| Def | RIR-01 | MxCDS62 | −0.32 | 0.123 | 0.010 | A |
1
MM: mortality (%) due to MDV challenge; LM: mortality (%) during lay in commercial environments.
2
EN: number of eggs produced, PD: rate of lay (%), AH: albumen height (mm), CO: shell color index, EW: egg weight (g), PS: shell resistance (N), Def: external egg defects.