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

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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
161 0.009429 0.2062 b1372 stfR -7.17 0.431291 283 -- 297 69 -- 83 Rac prophage; putative tail fiber protein b1547
162 0.009519 0.2068 b4167 nnr -8.70 0.240671 167 -- 176 76 -- 85 bifunctional NAD(P)H-hydrate repair enzyme; C-terminal domain ADP-dependent (S)-NAD(P)H-hydrate dehydratase and N-terminal domain NAD(P)H-hydrate epimerase  
163 0.009572 0.2068 b4126 yjdI -8.84 0.226749 182 -- 194 26 -- 41 putative 4Fe-4S mono-cluster protein  
164 0.009677 0.2068 b1956 yedQ -11.74 0.064514 187 -- 209 18 -- 41 putative membrane-anchored diguanylate cyclase  
165 0.009721 0.2068 b1475 fdnH -11.62 0.068172 63 -- 98 41 -- 76 formate dehydrogenase-N Fe-S (beta) subunit nitrate-inducible  
166 0.009748 0.2068 b1261 trpB -12.89 0.038353 88 -- 97 52 -- 61 tryptophan synthase beta subunit  
167 0.009922 0.2071 b0367 tauC -5.98 0.628340 152 -- 162 85 -- 95 taurine ABC transporter permease  
168 0.009959 0.2071 b0727 sucB -11.51 0.071542 30 -- 47 72 -- 88 dihydrolipoyltranssuccinase  
169 0.01004 0.2071 b2384 ypdE -12.38 0.048278 93 -- 137 31 -- 75 aminopeptidase b4305 b3898
170 0.01004 0.2071 b3887 dtd -7.24 0.420466 57 -- 66 52 -- 62 D-tyr-tRNA(Tyr) deacylase  

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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Results are computed with CopraRNA version 2.1.2