Bioinformatics Web Server for RNA


Enter your RNA sequence (single FASTA format, <= 400nt)
Samples:  Hammerhead ribozyme, tRNA, H/ACA snoRNA, TPP-riboswitch


Softwares

CentroidFold
Prediction of RNA secondary structure.
: specify the inference engine
: weight of base pairs
CentroidHomFold
Prediction of RNA secondary structure by using homologous sequences.
: specify the inference engine for secondary structure
: specify the inference engine for pairwise alignment
: weight of base pairs
: E-value for homology search against Rfam
: number of homologous sequences
IPknot
Prediction of RNA pseudoknot based on maximizing expected accuracy.
: specify the inference engine
(NUPACK can be selected only when RNA length is <= 100nt)
: weight of base pairs (level 2)
Rchange
Calculation of energy changes of RNA secondary structures after base mutations.
: maximal span of base pairs
CapR
Calculation of probabilities that each RNA base position is located
within each secondary structural context.
: maximal span of base pairs
Raccess
Calculation of of structural accessibility of RNA transcripts.
: maximal span of base pairs
RintD
Validation of RNA secondary structure.
structure.1
predicted by CentroidFold
: weight of base pairs
Your structure (dot-bracket format without sequence)

structure.2
predicted by RNAfold
Your structure (dot-bracket format without sequence)