Sequences from SSAP eluted bands. The LTR sequences from representative members of the six TE families investigated are presented along the sequenced sections of the SSAP bands (Genbank accession numbers: KX364308 to KX364373). Boxed sequences correspond to the LTR of representative elements of each TE family (Additional file 2), in direct and in reverse orientation; some LTR boundaries were adjusted from the original predictions of LTR finder (Additional file 2) after mapping analysis. The LTR primer region is shown in blue. The sequenced LTR region present in SSAP bands is shown in green. The polymorphic bands are named according to the original number given when eluting the band from the gel and match Additional file 4 descriptions. Sequences of the EcoRI adaptor primer and of the LTR primer have been trimmed from the sequences. Names of the TEs are explained in the Methods section. (DOCX 33 kb)