Figure 3.

An end-coded TM oligonucleotide ligated while base-paired with BU. The 5-methylcytosines are present at 10 CpG sites on the top strand, TM, and are indicated with ‘Me’. The end-coder (Burden et al., manuscript in preparation) contains a batchstamp common to all molecules processed in a given experiment, and a randomly generated barcode. The end-coder is attached to the top, TM, but not the bottom, BU, strand of TM:BU. Thus, the bottom strand will separate from the top strand under denaturating conditions. Oligonucleotides labeled with end-coder have a forward primer binding site on TM, and a reverse-primer binding site of 21 nt, indicated here in purple, on the end-coder itself (after Figure 1 of Burden et al., manuscript in preparation).