Fig. 4.

—Characterization of alpha satellite DNA diversity in the HindIII monomer data set. (A) PCA projection on principal components 1 and 2 of the normalized 5-mer frequency vectors for all sequences from the HindIII monomer data set. Each point represents a monomer sequence. (B) Prediction of the position of the XmnI monomer sequences on the graph shown in (A). Sequences are colored according to their assignment to the C1 (purple), C2 (pastel green), C5 (red) or C6 (orange) alpha satellite families. (C) PCA projection shown in (A) with sequences colored according to their assignment to the C1′ (purple), C2′ (pastel green), C5′ (red), or C6′ (blue) alpha satellite families, using a hierarchical classification method (see Materials and methods).