Table 4.

Analysis of molecular variance (AMOVA) for the extraction of SNP variation among and within groups (populations)

Category	No. of SNPs used for analysis	Source of variation	d.f.	Sum of squares	Variance components	Percentage of variation
Four groups (O. glaberrima, O. barthii, lowland O. sativa and upland O. sativa)	23,079	Among groups	3	7,600,354.2	5358.1	92.8
		Within groups	3241	1,347,725.3	415.8	7.2
		Total	3244	8,948,079.4	5774.0	100.0
Two groups (O. glaberrima and O. barthii)	23,079	Among groups	1.0	18,837.7	84.9	27.65
		Within groups	2471.0	548,912.1	222.1	72.35
		Total	2472	567,749.8	307.0	100.0
Two groups (O. glaberrima and O. barthii)	3484	Among groups	1.0	18,466.0	83.2	27.67
		Within groups	2471.0	537,451.2	217.5	72.33
		Total	2472	555,917.2	300.7	100.0