Is there a way to batch sequences and do multiple analyses at once using OligoAnalyzer?

In it's current form, the OligoAnalyzer does not accomodate multiple sequences. However, the hairpin and dimer analysis portion of the program is part of a commercially available package, Primer Select DNAStar. If you are looking for batch analysis of TM and delta G energies,a batch analysis program is available on Michael Zuker's DNA Fold Program

We would recommend that you look over that program and see if it meets your needs.

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