Figure 1

Validation of CHH modifications based on MeDIP-Seq. a, A large MeDIP peak in Africanized honey bees (AHB) that has a large amount of CHH modifications but no CG methylation in both European (EHB) and AHB. Coverage (0-181) represents the sequence coverage of mDIP-Seq fragments (the gray line is 0 and the top of the peak is 181). Forward reads are shown in black and reverse reads are shown in gray. The white boxes show reverse reads that did not have forward reads that could be aligned uniquely to the genome. The bottom portion shows the CHH modifications in AHB and EHB. b, HMeDIP-Seq analysis of a region of the genome that has a large peak of immunoprecipitated DNA. The histogram on the top shows the relative number of RNA-Seq fragments that align to the indicated region of the genome. Forward sequences are shown in red and reverse sequences in blue. c, Pvu-Seq analysis of the same region of the genome. Notice the good concordance between the two analyses.