Table 1.

Allele, genotype, and haplotype frequencies for the 23-bp and 12-bp insertion/deletion polymorphism

Allele
	Frequencies				P-value
23-bp	n	+	-		B. indicus	Composite	B. taurus
B. indicusa	116	0.12	0.88		--------	0.1553	<0.0001
Compositeb	76	0.20	0.80			--------	0.0021
B. taurusc	4552	0.38	0.62				--------
12-bp	n	+	-		B. indicus	Composite	B. taurus
B. indicusa	116	0.87	0.13		--------	<0.0001	<0.0001
Compositeb	76	0.47	0.53			--------	0.7030
B. taurusc	4564	0.45	0.55				--------
Genotype
	Frequencies				P-value
23-bp	n	+/+	+/-	-/-	B. indicus	Composite	B. taurus
B. indicusa	58	0.02	0.21	0.78	--------	0.3061	<0.0001
Compositeb	38	0.03	0.34	0.63		--------	0.0049
B. taurusc	2276	0.14	0.48	0.39			--------
12-bp	n	+/+	+/-	-/-	B. indicus	Composite	B. taurus
B. indicusa	58	0.76	0.22	0.02	--------	<0.0001	<0.0001
Compositeb	38	0.18	0.58	0.24		--------	0.4235
B. taurusc	2282	0.20	0.48	0.32			--------
Haplotype
	Frequencies				P-value
23-12-bp	n	++	-+	--	B. indicus	Composite	B. taurus
B. indicusa	116	0.12	0.75	0.13	--------	<0.0001	<0.0001
Compositeb	76	0.20	0.28	0.53		--------	<0.0001
B. taurusd	3604	0.40	0.08	0.53			--------

Frequencies and statistical comparisons for the 23-bp and 12-bp alleles, genotypes, and haplotypes in B. indicus, B. taurus, and B. indicus × B. taurus composite cattle. Allele frequencies were compared using Fisher's exact test, and genotype and haplotype frequencies were compared using the Chi-square test. Superscript indicates origin of data; complete details can be found in the Methods section and Additional files 1, 2, 3.

^a This study, [17]; ^b This study, [17]; ^c This study, [17,24,33-36,41]; ^d This study, [17,24,33,35,36,41]