In genome mapping experiments, long DNA molecules are stretched by confining them to very narrow channels, so that the locations of sequence-specific fluorescent labels along the channel axis provide large-scale genomic information. It is difficult, however, to make the channels narrow enough so that the DNA molecule is fully stretched. In practice, its conformations may form hairpins that change the spacings between internal segments of the DNA molecule, and thus the label locations along the channel axis. Here, we describe a theory for the distribution of label spacings that explains the heavy tails observed in distributions of label spacings in genome mapping experiments.
Bibliographical noteFunding Information:
This work was supported by VR Grant Nos. 2013-3992 and 2017-3865, by NIH Grant No. R01-HG006851, and by NSF Grant No. DMS-1515161. Computational resources were provided by C3SE and SNIC.