#sequence
RNA A 2656 UACGUAAGGA

#run parameters
reportingInterval 1
numReportingIntervals  60
firstStage 1
lastStage 1

#general simulation parameters
baseInteractionScaleFactor     20
#addSelectedAtoms  True

#staged simulation parameters
temperature 20.0 1


#base pairing forces
baseInteraction A 2658 WatsonCrick A 2663 WatsonCrick Cis 1 
baseInteraction A 2657 WatsonCrick  A 2664 WatsonCrick Cis 1 
baseInteraction A 2656 WatsonCrick  A 2665 WatsonCrick Cis 1

#some hints for the GNRA tetraloop:
#baseInteraction A xxxx Hoogsteen  A xxxx SugarEdge Trans 1 
#baseInteraction A xxxx HelicalStackingA3 A xxxx HelicalStackingA5 Cis