Genomic DNA was isolated from the Saccharomyces cerevisiae cdc9-7 mutant strain, heat-denatured, and subjected to SDL-TOPO library preparation. The cdc9-7 mutant accumulates replication-associated single-stranded DNA fragments, including unligated Okazaki fragments. Libraries were prepared using SDL-mediated ligation and sequenced using paired-end Illumina sequencing.