BS-seq of 4kb model DNA: with CmCGG methylation
50 ng of methylated 4 kb model DNA or lambda-DNA were fragmented to by Covaris M220 instrument and size-selected to 200400 bp using Ampure XP beads. End-repair and A-tailing reaction and ligation of methylated adapter (NextFlex) were prepared with KAPA HyperPlus kit (Kapa Biosystems) according to manufacturers protocol. Subsequently, DNA underwent bisulfite conversion with EpiTect Bisulfite Kit (Qiagen) according to manufacturers protocol. The final library was amplified with KAPA Hifi Uracil Plus Polymerase (Kapa Biosystems) for 6 cycles and cleaned up on 1X Ampure XP beads. The BS-seq library was paired-end 80 bp sequenced on a NextSeq 500 sequencer (Illumina).