In terms of the SFF files themselves (as far as I know) there is no difference at all. There is nothing in the file format or the Roche XML meta data block that I have seen to tell you if the data is single reads or paired ends.
It is all down to the sample preparation. The Roche 454 website has a nice summary of how this works:
If you know you have a paired end SFF file, you should be able to find the linker sequences in the reads - see:
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The field of epigenetics has traditionally concentrated more on DNA and how changes like methylation and phosphorylation of histones impact gene expression and regulation. However, our increased understanding of RNA modifications and their importance in cellular processes has led to a rise in epitranscriptomics research. “Epitranscriptomics brings together the concepts of epigenetics and gene expression,” explained Adrien Leger, PhD, Principal Research Scientist...-
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