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
170 0.01004 0.2071 b3887 dtd -7.24 0.420466 57 -- 66 52 -- 62 D-tyr-tRNA(Tyr) deacylase  
180 0.01069 0.2089 b4529 ydbJ -7.20 0.426635 222 -- 243 41 -- 61 DUF333 family putative lipoprotein  
161 0.009429 0.2062 b1372 stfR -7.17 0.431291 283 -- 297 69 -- 83 Rac prophage; putative tail fiber protein b1547
70 0.003478 0.1727 b1919 dcyD -7.16 0.432573 249 -- 279 53 -- 83 D-cysteine desulfhydrase PLP-dependent  
152 0.009044 0.2059 b1448 mnaT -7.00 0.457084 229 -- 266 50 -- 86 methionine N-acyltransferase; L-amino acid N-acyltransferase  
132 0.007501 0.1993 b1947 fliO -6.89 0.474041 212 -- 250 53 -- 93 flagellar biosynthesis protein  
61 0.003042 0.1727 b0104 guaC -6.79 0.490983 117 -- 124 52 -- 59 GMP reductase  
76 0.003978 0.182 b0336 codB -6.71 0.504284 39 -- 48 1 -- 11 cytosine transporter  
167 0.009922 0.2071 b0367 tauC -5.98 0.628340 152 -- 162 85 -- 95 taurine ABC transporter permease  
178 0.01053 0.208 b3582 sgbU -5.91 0.640260 169 -- 196 65 -- 84 putative L-xylulose 5-phosphate 3-epimerase  

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