High-density SNP-based genetic map development and linkage disequilibrium assessment in Brassica napusL

BMC Genomics

Table 5 Number and percentage of pairs exhibiting r ² > 0.2, 0.5 or 0.8 between SNPs located within a same linkage group (intra LG) or on different LGs (inter LG)

	Whole collection		SOSR collection		WOSR collection		“00” WOSR collection
	number	%	number	%	number	%	number	%
SNP	4329		4137		3409		3196
Pairs	9367956		8555316		5808936		5105610
Pairs with r² > 0.2	274421	2.929	563609	6.588	23840	0.410	33656	0.659
intra LG	42879	0.458	56480	0.660	20474	0.352	25852	0.506
inter LG	231542	2.472	507129	5.928	3366	0.058	7804	0.153
Pairs with r² > 0.5	15194	0.162	21390	0.250	7085	0.122	9075	0.178
intra LG	9032	0.096	9553	0.112	6950	0.120	8944	0.175
inter LG	6162	0.066	11837	0.138	135	0.002	131	0.003
Pairs with r² > 0.5	2908	0.031	2678	0.031	2890	0.050	3820	0.075
intra LG	2901	0.031	2620	0.031	2877	0.050	3805	0.075
inter LG	7	0.000	58	0.001	13	0.000	15	0.000

ISSN: 1471-2164