CorreLogo Submission Form

CorreLogo Submission Form

3D sequence logos of RNA and DNA alignments

Home Small example (tRNA anticodon) Loop E region Large example(tRNA) Help

Quickstart:

All you probably have to do to obtain a 3D sequence logo from the CorreLogo server is to paste a sequence alignment in FASTA format into below text area and click "Submit Query" at the bottom of this page. For an even easier test run, you can use our example. The email address (section 1) is only needed for alignments with a length of more than 100 nucleotides. If you want to customize the output, enter values into the sections three and four of the form below. For more detailed information and an explanation of the output please see our help page. If you want to pick up a previously computed result, please use the file retriever web server.

New: RnaJunction database: A database of RNA junctions and kissing loops.

1. Specify e-mail address (necessary when computing results for sequence lengths greater than 100 nucleotides)

E-mail:

2. Please paste DNA or RNA sequence alignment in FASTA format:

Examples: tRNA anticodon tRNA

Sequence type: DNARNAautomatic guess

3. Secondary Structure in bracket notation (optional):

4. Customize generated output (optional):

Lower Cutoff: bits
Upper Cutoff: bits
Standard Deviation Cutoff:


Error bars: On Off
Reading frame:
Collapse wrt #:


2D Sequence logo: vertical flat none
2D Logo characters: standard none


3D logo characters: standard none


Color mode: standard rainbow


Optimize for 3D printing:

Page with example sequences

Useful Links:

For an explanation of the generated output and help converning VRML and JVX please see our help page.
If you want to pick up a previously computed result, click here.

New: RnaJunction database: A database of RNA junctions and kissing loops.

Go to CorreLogo Homepage

Send questions and comments to: Eckart Bindewald