Table 2. Distribution of identified repeat families in S. tuberosum and S. lycopersicum.

Total number of families, super-families and elements identified in both species are presented.

Repeat Family	Repeat Super-family	Total number of families	Total number of elements
Solanum tuberosum
DNA transposons	DNA/CMC-EnSpm	43	17,198
	DNA/CMC-EnSpm?	4	2,801
	DNA/Harbinger	18	14,341
	DNA/hAT-Ac	22	10,951
	DNA/hAT-Tag1	3	1,987
	DNA/hAT-Tag1?	2	1,201
	DNA/hAT-Tip100	21	12,689
	DNA/MULE-MuDR	16	8,318
	DNA/PIF-Harbinger	9	9,469
	DNA transposons	35	29,354
	DNA/TcMar-Pogo	6	1,967
	DNA/TcMar-Stowaway	13	27,720
	RC/Helitron	5	1,957
Retrotransposons	LINE/L1	63	23,521
	LINE/RTE-BovB	17	27,091
	LTR/Caulimovirus	23	5,858
	LTR/Copia	172	72,026
	LTR/Gypsy	558	334,474
	Retroposon	11	9,926
	SINE	2	3,853
	SINE/tRNA	6	10,567
Uncategorized	Unknown	688	329,727
snRNA		2	487
rRNA		5	1,845
Satellite		4	2,444
Solanum lycopersicum
DNA transposons	DNA/CMC-EnSpm	28	21,007
	DNA/CMC-EnSpm?	2	2,442
	DNA/Harbinger	22	13,390
	DNA/hAT-Ac	30	15,164
	DNA/hAT-Tag1	8	3,655
	DNA/hAT-Tag1?	2	1,021
	DNA/hAT-Tip100	16	11,757
	DNA/MULE-MuDR	34	16,344
	DNA/PIF-Harbinger	9	6,118
	DNA transposons	38	34,059
	DNA/TcMar-Pogo	4	5,132
	DNA/TcMar-Stowaway	14	22,343
	RC/Helitron	2	2,398
Retrotransposons	LINE/L1	28	13,653
	LINE/RTE-BovB	14	21,154
	LTR/Caulimovirus	4	1,223
	LTR/Copia	165	71,179
	LTR/ERV1	1	56
	LTR/Gypsy	525	306,511
	Retroposon	11	9,062
	SINE	4	3,772
	SINE/tRNA	6	7,614
Uncategorized	Unknown	363	145,776
snRNA		1	157
rRNA		1	272
tRNA		3	838
Satellite		1	507