Freiburg RNA Tools
CopraRNA - Results
BIF
IFF
CopraRNA 6527768

Input and runtime details for job 6527768 (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 6527768 (server version trunk)

?Job Submitted & Queued@ Fri Feb 16 15:24:51 CET 2018
?Processing Started@ Fri Feb 16 15:25:20 CET 2018
?CopraRNA Finished & Post-Processing@ Fri Feb 16 20:38:58 CET 2018
?Post-Processing Finished@ Fri Feb 16 20:39:05 CET 2018
?Job Completed@ Fri Feb 16 20:39:38 CET 2018
 DIRECT ACCESS: http://rna.informatik.uni-freiburg.de:80/RetrieveResults.jsp?jobID=6527768&toolName=CopraRNA ( 30 days expiry )

The job description you specified

MicA


Output download complete results [zip]

Downloadable files

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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
31 0.001974 0.2094 b1080 flgI -10.59 0.096403 87 -- 101 7 -- 21 putative flagellar basal body protein  
32 0.001981 0.2094 b3110 yhaO -10.61 0.095420 268 -- 283 7 -- 23 putative transporter  
33 0.002096 0.2094 b0937 ssuE -11.36 0.070700 201 -- 209 5 -- 13 NAD(P)H-dependent FMN reductase  
34 0.002145 0.2094 b1939 fliG -13.29 0.032191 145 -- 162 6 -- 22 flagellar motor switching and energizing component  
35 0.002165 0.2094 b2714 ascG -14.61 0.018547 188 -- 213 10 -- 30 asc operon transcriptional repressor; prpBC operon repressor  
36 0.002407 0.2206 b2550 yphH -13.17 0.033778 238 -- 251 7 -- 20 putative DNA-binding transcriptional regulator  
37 0.00241 0.2206 b2455 eutE -11.61 0.064061 286 -- 298 3 -- 15 aldehyde oxidoreductase ethanolamine utilization protein  
38 0.002512 0.2224 b0436 tig -7.88 0.265562 192 -- 204 10 -- 21 peptidyl-prolyl cis/trans isomerase (trigger factor)  
39 0.002561 0.2224 b3845 fadA -14.30 0.021162 112 -- 126 5 -- 20 3-ketoacyl-CoA thiolase (thiolase I)  
40 0.002726 0.2279 b1799 dmlR -13.48 0.029707 223 -- 239 2 -- 20 transcriptional activator of dmlA b3060

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)

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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