Fig. 1.

Comparison of vaccinia virus (VACV) genome-wide transcription start sites (TSSs) determined at different times and by various CAGE (cap analysis of gene expression) methods. The sequences were from cells that were infected with virus for 1 h, 2, or 4 h in the presence of cycloheximide (1h/CHX, 2h/CHX, or 4h/CHX, respectively) or cells infected with virus for 2 h in the absence of cycloheximide (2h). The number of viral reads that mapped to each nucleotide were divided by the total number of reads for that sample and the ones with at least 0.01% of the total were aligned with the top and bottom DNA strands. The genome nucleotide numbers are below each strand in kilobases (kb).