RdRpCATCH Sequence Analysis

Upload your FASTA file and analyze sequences for RNA virus discovery using comprehensive RdRp pHMM database collection.

Not sure what to expect? Check out a sample output first.

Quick Start Guide

Upload Your Data

Prepare your FASTA file and upload it through our interface. Don't forget to press the "Upload File" button after selecting the file. Supports files up to 50MB.

Configure Parameters

Select databases and adjust analysis parameters. For more information on the recommended settings, please see our preprint: https://doi.org/10.64898/2026.02.05.703936 We recommend processing the results with additional downstream methods for validation. Don't forget to adjust the sequence type according to your input.

Get Results

Monitor progress and download comprehensive results including annotations and visualizations.

Upload Input File

Choose a FASTA file or drag it here

Supports .fasta, .fa, .fas files up to 50MB

General Parameters

Sequence Type

Genetic Code - Only valid for nucleotide sequences

Only available for nucleotide sequences

Minimum sequence length (nucleotides)

Only available for nucleotide sequences

RdRp pHMM Databases

Lucaprot_HMM

NeoRdRp

NeoRdRp.2.1

RDRP-scan

RVMT

Olendraite_fam

Olendraite_gen

Zayed_HMM

Tip: Select multiple databases for comprehensive analysis. Each database contains different RdRp pHMM models.

Advanced Parameters

E-value

E-value threshold for hmmsearch

Inclusion E-value

Per target E-value inclusion threshold for hmmsearch

Domain E-value

Per domain E-value report threshold for hmmsearch

Inclusion Domain E-value

Per domain E-value Inclusion threshold for hmmsearch

Z-value

Assert hypothetical database size parameter for hmmsearch. If auto: automatically determine the number of sequences based on input.

Analysis typically takes a long time, depending on file size and selected databases.