PDB Data Upload
Target:
ID
File
Query:
ID
File
Fragmented Query
 
Chain and subsequence
Target
Query
From To
From To
Parameters
 Algorithm 



 Suboptimal Alignments score ratio      |
Scoring contributions
Dihedral     Sequence     Base pairing
Boltzmann Pair Probabilities 
 Compute Boltzmann Pair Probabilities 

 Temperature 1 
 Temperature 2 
 Temperature 3 
Weights for RNA dihedral angles
α β γ δ ε ζ χ     Pseudo-angles: η θ
Gap Penalties
 Opening 
 Extension 
 
Scores for RNA sequence alignment
Match         Mismatch    
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