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  
86 0.004777 0.1855 b3157 yhbT -11.83 0.061936 277 -- 294 70 -- 85 SCP-2 sterol transfer family protein  
143 0.008308 0.2033 b2049 cpsB -11.81 0.062535 184 -- 242 25 -- 78 mannose-1-phosphate guanyltransferase  
179 0.01058 0.208 b1325 ycjG -11.81 0.062523 258 -- 297 32 -- 77 L-Ala-D/L-Glu epimerase  
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  
183 0.011 0.2089 b0906 ycaP -11.77 0.063722 48 -- 74 48 -- 75 UPF0702 family putative inner membrane protein  
164 0.009677 0.2068 b1956 yedQ -11.74 0.064514 187 -- 209 18 -- 41 putative membrane-anchored diguanylate cyclase  
190 0.01143 0.2119 b3233 yhcB -11.72 0.064941 161 -- 178 66 -- 81 DUF1043 family inner membrane-anchored protein  
133 0.007533 0.1993 b2194 ccmH -11.64 0.067570 191 -- 199 1 -- 9 heme lyase CcmH subunit  
165 0.009721 0.2068 b1475 fdnH -11.62 0.068172 63 -- 98 41 -- 76 formate dehydrogenase-N Fe-S (beta) subunit nitrate-inducible  

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