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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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
141 0.008132 0.2031 b3412 bioH -10.51 0.111302 230 -- 255 56 -- 74 pimeloyl-ACP methyl ester carboxylesterase  
69 0.003463 0.1727 b2346 mlaA -10.50 0.111973 167 -- 195 66 -- 86 ABC transporter maintaining OM lipid asymmetry OM lipoprotein component  
124 0.006738 0.1913 b2533 suhB -10.44 0.114821 158 -- 166 51 -- 59 inositol monophosphatase  
98 0.005208 0.1855 b4174 hflK -10.42 0.116019 265 -- 284 65 -- 83 modulator for HflB protease specific for phage lambda cII repressor  
171 0.01011 0.2071 b4086 alsC -10.38 0.118114 189 -- 207 53 -- 70 D-allose ABC transporter permease  
78 0.004296 0.1855 b3258 panF -10.37 0.118507 142 -- 153 52 -- 62 pantothenate:sodium symporter  
113 0.005997 0.1855 b1765 ydjA -10.36 0.119141 118 -- 144 49 -- 76 putative oxidoreductase  
175 0.01031 0.2074 b1834 yebT -10.32 0.121003 270 -- 282 51 -- 62 MCE domain protein  
67 0.003373 0.1727 b0723 sdhA -10.29 0.122560 175 -- 204 36 -- 70 succinate dehydrogenase flavoprotein subunit  
122 0.006658 0.1913 b0600 ybdL -10.23 0.125775 275 -- 297 68 -- 86 methionine aminotransferase PLP-dependent  

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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When using CopraRNA please cite :

Results are computed with CopraRNA version 2.1.2