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

[csv]
[txt]
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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
101 0.01005 0.3104 b3288 fmt -10.27 0.109217 249 -- 255 5 -- 11 10-formyltetrahydrofolate:L-methionyl-tRNA(fMet) N-formyltransferase  
102 0.01008 0.3104 b3500 gor -8.16 0.240292 285 -- 295 4 -- 15 glutathione oxidoreductase  
103 0.01026 0.3104 b1083 flgL -8.46 0.215699 195 -- 209 5 -- 21 flagellar hook-filament junction protein  
104 0.01032 0.3104 b1714 pheS -13.82 0.025875 273 -- 287 5 -- 21 phenylalanine tRNA synthetase alpha subunit  
105 0.01074 0.3104 b3791 wecE -13.91 0.024834 1 -- 12 7 -- 18 TDP-4-oxo-6-deoxy-D-glucose transaminase  
106 0.0109 0.3104 b2510 yfgJ -10.53 0.098521 243 -- 261 5 -- 21 DUF1407 family protein  
107 0.01107 0.3104 b0723 sdhA -7.08 0.348281 169 -- 200 7 -- 42 succinate dehydrogenase flavoprotein subunit  
108 0.01118 0.3104 b2565 recO -9.71 0.135448 294 -- 300 5 -- 11 gap repair protein  
109 0.01118 0.3104 b3195 mlaF -11.81 0.058997 89 -- 105 1 -- 18 ABC transporter maintaining OM lipid asymmetry ATP-binding protein  
110 0.01118 0.3104 b1726 yniB -10.98 0.082506 169 -- 185 3 -- 23 putative inner membrane protein  

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