Includes bibliographical references and index.

Controlled heat-denaturation of DNA plasmids and PCR fragments -- Heat denaturation is an effective step in sequencing of many difficult DNA templates -- Solutions for sequencing difficult regions -- Improving sequence results from difficult templates with Phi 29 DNA polymerase and nucleotide analogs: the TempliPhi sequence resolver kit -- Sequencing through various secondary structures: detailed studies of pDEST vectors and other DNA templates with hairpins -- Transcriptional sequencing as a tool for reading difficult-to-read templates -- Bias-free cloning of "unclonable" DNA for simplified genomic finishing -- Bioinformatics tools to aide sequencing of difficult templates.