Figure 3

VNTR regions, inversions, and nested insertions in elements belonging to family MtPH-A6-4. A. Consensus sequence of the 60 bp core VNTR motif, triplicated regions within the core motif are underlined, variable nucleotide positions within the triplicated motif are written in italics. B. Dot-plot and schematic representation of MtPH-A6-4-XXI, an example of TE carrying a large number of tandem repeats. Thick black arrowheads represent TIRs, gray arrows indicate localization and orientation of the VNTR region, number of repetitions is given below each arrow. C. Comparison of two elements containing an inversion of the internal region, thick black arrowheads show TIRs, gray arrows show localization of the VNTR, thin arrows indicate the orientation of the inverted region, solid lines represent homologous regions with similarity rates written in italics, dotted lines represent regions with no homology, numbers in bold show localization of nucleotide positions of important features. D. Organization of the long element MtPH-A6-4-IIa as compared to the core element MtPH-A6-4-Ia, thick black arrowheads show TIRs, solid lines represent homologous regions with percentages of similarity written in italics, dotted lines represent regions with no homology, numbers in bold show localization of nucleotide positions of important features, nested TEs are drawn above the MtPH-A6-4-IIa element.