Table 2.

Linkage disequilibrium pattern and distribution of haplotype blocks in the B. carinata collection.

Chromosome	Number of SNPs	LD decay at r2 = 0.1 (kbp)	Mean r2	Number of haplotype blocks	Max size of block (kbp)	Recombination rate (ƿ/kb)
BC	10,199	700	0.077	1970	697.43	1.07
B	7,452	475	0.076	1,431	697.43	1.28
C	2,747	725	0.081	539	617.98	0.88
B1	771	350	0.073	146	284.77	1.47
B2	1,261	175	0.048	240	96.02	1.33
B3	1,207	5,000	0.121	227*	147.53	1.09
B4	599	200	0.057	118	155.05	1.73
B5	894	275	0.052	186	202.54	0.98
B6	809	200	0.056	165	190.35	1.22
B7	920	775	0.101	162	715.05	0.97
B8	991	525	0.061	188	506.46	1.50
C1	213	175	0.073	47	88.97	0.77
C2	266	425	0.108	51	188.85	0.73
C3	503	300	0.062	101	197.44	0.50
C4	300	675	0.170	56	617.98	0.53
C5	262	200	0.087	46	60.39	1.18
C6	270	300	0.066	57	188.77	0.65
C7	302	525	0.082	57	457.46	0.70
C8	348	100	0.062	66	68.43	1.61
C9	283	200	0.077	58	139.89	1.25
SP1	9,575	475	0.070	–	–	–
SP2	4,604	> 50,000	0.465	–	–	–

*Strong LD (FAE1 region) was excluded and LD recalculated for use in haplotype block analysis.