Input and runtime details for job 7235457 (precomputed example)

Input Parameter

Sequence Input in FASTA Format

Scoring Parameter

	Minimal size of included substructures		7
	Maximal number of used substructures		all
	EPM scoring		just EPM size (default)

Output Parameter

	Write ExpaRNA result as alignment into text file		no
	Write ExpaRNA results as list in file		no
	Write all EPMs into file		no

Job ID 7235457 (server version unknown)

	Job Submitted & Queued		@ Fri Jan 11 16:14:43 CET 2013
	ExpaRNA Started		@ Fri Jan 11 16:14:57 CET 2013
	ExpaRNA Finished & Post-Processing		@ Fri Jan 11 16:14:58 CET 2013
	Post-Processing Finished		@ Fri Jan 11 16:15:05 CET 2013
	Job Completed		@ Fri Jan 11 16:15:06 CET 2013

DIRECT ACCESS: http://rna.informatik.uni-freiburg.de/RetrieveResults.jsp?jobID=7235457&toolName=ExpaRNA ( 30 days expiry )

Output parameters

Write ExpaRNA result as input for LocARNA with anchor constraints

[.fa]

Description of the job

small example

Alignment of two relatively small ncRNAs without pre-defined structure. Here, the minimum free energy structure is computed and used for the alignment.

Output download complete results [zip]

Feed the Anchor Constraints" produced by ExpaRNA into the LocARNA tool.

Graphical output

Click on the image to enlarge it.

Sequence 1	Sequence 2
download [.pdf] [.ps] [.png]	download [.pdf] [.ps] [.png]

Job resubmission

Use the following button if you want to resubmit the job with altered input or parameterization:

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When using ExpaRNA please cite :

Steffen Heyne, Sebastian Will, Michael Beckstette, and Rolf Backofen
Lightweight comparison of RNAs based on exact sequence-structure matches
Bioinformatics, 25 no. 16 pp. 2095-2102, 2009
Martin Raden, Syed M Ali, Omer S Alkhnbashi, Anke Busch, Fabrizio Costa, Jason A Davis, Florian Eggenhofer, Rick Gelhausen, Jens Georg, Steffen Heyne, Michael Hiller, Kousik Kundu, Robert Kleinkauf, Steffen C Lott, Mostafa M Mohamed, Alexander Mattheis, Milad Miladi, Andreas S Richter, Sebastian Will, Joachim Wolff, Patrick R Wright, and Rolf Backofen
Freiburg RNA tools: a central online resource for RNA-focused research and teaching
Nucleic Acids Research, 46(W1), W25-W29, 2018.

Results are computed with ExpaRNA version 1.0.0 linking Vienna RNA package 1.8.5

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