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
121 0.006643 0.1913 b1813 nudL -11.92 0.059353 114 -- 132 70 -- 86 putative CoA pyrophosphohydrolase weak 3-phosphohydroxypyruvate phosphatase  
122 0.006658 0.1913 b0600 ybdL -10.23 0.125775 275 -- 297 68 -- 86 methionine aminotransferase PLP-dependent  
123 0.00672 0.1913 b0882 clpA -10.14 0.130927 50 -- 58 66 -- 74 ATPase and specificity subunit of ClpA-ClpP ATP-dependent serine protease chaperone activity  
124 0.006738 0.1913 b2533 suhB -10.44 0.114821 158 -- 166 51 -- 59 inositol monophosphatase  
125 0.006795 0.1914 b3003 yghA -11.52 0.071261 264 -- 274 70 -- 80 putative oxidoreductase b2902
126 0.006849 0.1914 b2930 yggF -13.28 0.032133 176 -- 191 68 -- 83 fructose 1 6 bisphosphatase isozyme  
127 0.007097 0.1961 b4065 yjcE -10.62 0.105957 81 -- 91 51 -- 62 putative cation/proton antiporter  
128 0.007127 0.1961 b0696 kdpC -9.30 0.187437 90 -- 106 44 -- 60 potassium translocating ATPase subunit C  
129 0.007194 0.1964 b3401 hslO -8.25 0.287762 98 -- 107 1 -- 10 heat shock protein Hsp33  
130 0.007275 0.1966 b1638 pdxH -11.04 0.087983 237 -- 249 47 -- 59 pyridoxine 5'-phosphate oxidase  

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