Figure 3

Number of base substitutions per site (p-distance) from between sequences for the three LTR superfamilies in  Anopheles gambiae  . Analyses were conducted using the Kimura 2-parameter model. Rate variation among sites was modeled with a gamma distribution (shape parameter = 1). All ambiguous positions were removed for each sequence pair. a) 5′-LTR (population comparison); b) INTERNAL REGION (population comparison); c) 3′-LTR (population comparison); d) 5′ to 3′-LTR comparison within each full-length sequence within the population; and e) SOLO-LTRs (only for Pao-BELs and Gypsy superfamilies). A) Pao-Bel superfamily (12 full-length and 3 Solo-LTR families). Kruskal-Wallis test: p value < 0.001. Ad hoc, Tukey non-parametric test: all comparisons were significant at p < 0.05 except a–c. B) Copia superfamily (four families). Kruskal-Wallis test: p-value = ns. Not significant differences among the regions and (C) Gypsy superfamily (six full-length and eight Solo-LTR families). Kruskal-Wallis test: p-value < 0.001. Ad hoc, Tukey non-parametric test: all comparisons were significant at p < 0.05, except a–b, a–c, and b–c with p-value > 0.05.