Perform maximum-likelihood phylogenetic tree inference with RAxML-NG for aligned protein or DNA sequences. Supports ML search, bootstrap analysis, and native automatic model-family selection.
RNAdos calculates density-of-states summaries for RNA sequences, reporting representative structures and state counts across energy bands.
RNAduplex computes the hybridization structure between two RNA sequences. Predicts the optimal duplex formation and binding energy.
RNAeval calculates the free energy of an RNA secondary structure for a given sequence. Evaluates if a proposed structure is thermodynamically favorable.
RNAfold predicts RNA secondary structure using minimum free energy (MFE) algorithms and optionally returns partition-function ensemble metrics when explicitly enabled.
RNALfold reports locally stable RNA secondary structures within a sliding window and returns their start and end positions on the input sequence.
RNAplex predicts fast query-target RNA interactions, reporting parsed hit coordinates, structures, and energies.
RNAplfold computes local base pair probabilities using a sliding window approach. Useful for analyzing accessibility and identifying binding sites in long RNA sequences.
RNAplot renders ViennaRNA secondary-structure plot files from a supplied RNA sequence and dot-bracket structure.
RNAsubopt enumerates all RNA secondary structures within a specified energy range above the minimum free energy (MFE). Useful for exploring the structural ensemble and identifying alternative conformations.
Perform maximum-likelihood phylogenetic tree inference with RAxML-NG for aligned protein or DNA sequences. Supports ML search, bootstrap analysis, and native automatic model-family selection.
RNAdos calculates density-of-states summaries for RNA sequences, reporting representative structures and state counts across energy bands.
RNAduplex computes the hybridization structure between two RNA sequences. Predicts the optimal duplex formation and binding energy.
RNAeval calculates the free energy of an RNA secondary structure for a given sequence. Evaluates if a proposed structure is thermodynamically favorable.
RNAfold predicts RNA secondary structure using minimum free energy (MFE) algorithms and optionally returns partition-function ensemble metrics when explicitly enabled.
RNALfold reports locally stable RNA secondary structures within a sliding window and returns their start and end positions on the input sequence.
RNAplex predicts fast query-target RNA interactions, reporting parsed hit coordinates, structures, and energies.
RNAplfold computes local base pair probabilities using a sliding window approach. Useful for analyzing accessibility and identifying binding sites in long RNA sequences.
RNAplot renders ViennaRNA secondary-structure plot files from a supplied RNA sequence and dot-bracket structure.
RNAsubopt enumerates all RNA secondary structures within a specified energy range above the minimum free energy (MFE). Useful for exploring the structural ensemble and identifying alternative conformations.
Configure inputs to begin
Set options on the left, then click “Submit job”.
RNAdistance compares RNA secondary structures using the selected native ViennaRNA distance representation and compare mode.
Distance: native distance representation string.Compare mode: native comparison mode.Write backtrack output: request backtrack output as a downloadable file.The results table reports:
If backtrack output is enabled, the generated file appears in the Files tab.