Table 3. QTL analysis of craniofacial bone areas using residual values against standard length.

Trait	Regression against standard length (R2 value)	Linkage group(s)	MR	EM	HK	Significance threshold LOD (P < 0.05)	Genotype	N value	Scanone (IM) result: associated marker(s) (LOD value)	MQM result: associated marker (LOD value)	Cofactor(s)
R SO2 area residuals	0.626862	6, 15	106C (4.0), 227A (5.56)	—	227A (5.38)	LOD 3.62	CC, larger area; SS, smaller area	221	227A (LOD 3.07)	227A (LOD 3.16)	110B, 227A, NYU25, 237E, 223C, 122B
L SO2 area residuals	0.520282	15	227A (5.69)	—	227A (5.35)	LOD 3.57	CC, larger area; SS, smaller area	218	110B (LOD 2.93)	110B (LOD 1.03)	110B, 122B, 223C, 214C, 227A
R SO3 area residuals	0.745564	5, 14	26A (4.90), 136B (4.46)	—	—	LOD 3.71	26A, CC, smaller area; SS, larger area; 136B, CC, larger area, SS, smaller area	222	26A (LOD 3.71), 136B (LOD 2.50)	26A (LOD 3.84), 136B (LOD 2.50)	26A, 239C, 122B, 223C, NYU33
L SO3 area residuals	0.722414	5, 8, 13, 14	26A (4.04), 203F (3.84), 6A (4.23), 136B (4.12)	203F (3.73)	—	LOD 3.62	26A, CC, smaller area; SS, larger area; 203F, 6A, and 136B, CC, larger area; SS, smaller area	218	239C (LOD 3.42), 26A (LOD 2.75)	239C (LOD 3.07), 26A (LOD 2.88)	26A, 203F, 217B, 131C, NYU53, 122B, 239A
L SO5 area residuals	0.373122	26	2B (3.61)	—	—	LOD 3.48	SS, larger area; CC, smaller area	200	218B (LOD 2.41)	218B (LOD 2.7)	237E, NYU53, 122B