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
61 0.003042 0.1727 b0104 guaC -6.79 0.490983 117 -- 124 52 -- 59 GMP reductase  
62 0.003053 0.1727 b3812 yigB -11.80 0.062766 182 -- 199 65 -- 83 5-amino-6-(5-phospho-D-ribitylamino)uracil phosphatase; pyrimidine phosphatase; riboflavin synthesis  
63 0.003148 0.1727 b0131 panD -12.33 0.049519 276 -- 291 70 -- 84 aspartate 1-decarboxylase  
64 0.003238 0.1727 b2578 eamB -8.70 0.240388 240 -- 262 70 -- 85 cysteine and O-acetylserine exporter  
65 0.003263 0.1727 b2584 pka -7.67 0.359085 49 -- 62 69 -- 82 protein lysine acetyltransferase  
66 0.003275 0.1727 b0394 mak -8.12 0.303293 18 -- 92 5 -- 77 manno(fructo)kinase  
67 0.003373 0.1727 b0723 sdhA -10.29 0.122560 175 -- 204 36 -- 70 succinate dehydrogenase flavoprotein subunit  
68 0.00345 0.1727 b3168 infB -10.64 0.105292 126 -- 148 49 -- 77 translation initiation factor IF-2  
69 0.003463 0.1727 b2346 mlaA -10.50 0.111973 167 -- 195 66 -- 86 ABC transporter maintaining OM lipid asymmetry OM lipoprotein component  
70 0.003478 0.1727 b1919 dcyD -7.16 0.432573 249 -- 279 53 -- 83 D-cysteine desulfhydrase 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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Results are computed with CopraRNA version 2.1.2