Freiburg RNA Tools
CopraRNA - Results
BIF
IFF
CopraRNA 1786318

Input and runtime details for job 1786318 (precomputed example)

Sequence input

? sRNA sequences[.fa]
? Putative target sequences (organism of interest)[.fa]
? Extract sequences aroundstart codon
? nt up (1-300)200
? nt down (1-300)100

CopraRNA parameters

? Consensus prediction off
? p-value combinationno
? p-value filtering (0=off)0

IntaRNA parameters

? Target folding window size150
? Target max. basepair distance100

Job ID 1786318 (server version trunk)

?Job Submitted & Queued@ Fri Feb 16 15:20:27 CET 2018
?Processing Started@ Fri Feb 16 15:20:56 CET 2018
?CopraRNA Finished & Post-Processing@ Fri Feb 16 22:01:46 CET 2018
?Post-Processing Finished@ Fri Feb 16 22:01:53 CET 2018
?Job Completed@ Fri Feb 16 22:02:22 CET 2018
 DIRECT ACCESS: http://rna.informatik.uni-freiburg.de:80/RetrieveResults.jsp?jobID=1786318&toolName=CopraRNA ( 30 days expiry )

The job description you specified

ArcZ


Output download complete results [zip]

Downloadable files

[csv]
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[txt] [svg]


heatmap

? Conserved, identified interactions for NC_000913 Escherichia coli str. K-12 substr. MG1655

Sort by selecting a column name:
Rank CopraRNA p-value CopraRNA fdr value Locus Tag Gene Name Energy [kcal/mol] IntaRNA p-value Position mRNA Position sRNA Annotation Additional homologs
11 0.0004411 0.1198 b3154 yhbP -10.16 0.129625 138 -- 186 18 -- 75 UPF0306 family protein  
12 0.0004488 0.1198 b3133 agaV -20.63 0.001136 94 -- 118 64 -- 86 N-acetylgalactosamine-specific enzyme IIB component of PTS  
13 0.0004745 0.1198 b1688 ydiK -12.82 0.039628 213 -- 226 68 -- 82 UPF0118 family inner membrane protein  
14 0.0004762 0.1198 b2286 nuoC -13.55 0.028468 156 -- 179 68 -- 87 NADH:ubiquinone oxidoreductase fused CD subunit  
15 0.000767 0.1666 b2497 uraA -16.56 0.007223 161 -- 232 28 -- 90 uracil permease  
16 0.0007867 0.1666 b2178 yejB -12.57 0.044336 179 -- 196 66 -- 82 microcin C ABC transporter permease  
17 0.0008046 0.1666 b0590 fepD -14.87 0.015550 17 -- 43 70 -- 94 ferrienterobactin ABC transporter permease  
18 0.001002 0.1727 b2284 nuoF -9.91 0.144715 4 -- 28 1 -- 36 NADH:ubiquinone oxidoreductase chain F  
19 0.001118 0.1727 b2455 eutE -12.39 0.048028 37 -- 59 68 -- 89 aldehyde oxidoreductase ethanolamine utilization protein  
20 0.001165 0.1727 b1763 topB -8.06 0.310309 3 -- 10 34 -- 41 DNA topoisomerase III  

Details of Selected Interaction Download Interaction Details

mRNA

sRNA

		

Evolutionary conservation of mRNA targets (alignment generated with Jalview)

Evolutionary conservation of sRNA (alignment generated with Jalview)

Job resubmission

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Feeds the job parameters to the input page to resubmit the job.

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Results are computed with CopraRNA version 2.1.2