Physical mapping and BAC-end sequence analysis provide initial insights into the flax (Linum usitatissimum L.) genome

Table 3 Composition of known Viridiplantae repeats in BES using RepeatMasker

Repeat component	Class	Order	Superfamily	Total no. of elements/units	Total length (bp)	Total length as % in BAC-End sequences
Mobile genetic elements	I. Retroelements			10,576	3,162,436	5.8
		SINE	-	2	89	0.0
		LINE	-	1,176	234,602	0.4
		LTR		9,245	2,900,613	5.3
			Copia	4,867	1,850,625	3.4
			Gypsy/DIRS1	3,372	985,038	1.8
			Unclassified	1006	64950	0.1
		PLE	Penelope	153	27,132	0.0
	II. DNA transposons			1,094	201,075	0.4
		-	hobo-Activator	371	87,631	0.2
		TIR	Tc1-IS630-Pogo	11	2,036	0.0
		-	En-Spm	249	47,547	0.1
		TIR	MuDR-IS905	250	31,936	0.1
		TIR	Tourist/Harbinger	49	11,187	0.0
		-	Other (Mirage, P-element)	1	49	0.0
		Unclassified	-	163	20,689	0.0
rDNA				13,342	7,516,095	13.8
Satellites				22	1,972	0.0
Simple sequence repeats (SSRs)				2,556	95,533	0.2
Low complexity regions (Homopolymers)				8701	340,090	0.6
Overall length of sequences masked				36291	11317201	20.7

ISSN: 1471-2164