Freiburg RNA Tools
CopraRNA - Results
BIF
IFF
CopraRNA 6527768

Input and runtime details for job 6527768 (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 6527768 (server version trunk)

?Job Submitted & Queued@ Fri Feb 16 15:24:51 CET 2018
?Processing Started@ Fri Feb 16 15:25:20 CET 2018
?CopraRNA Finished & Post-Processing@ Fri Feb 16 20:38:58 CET 2018
?Post-Processing Finished@ Fri Feb 16 20:39:05 CET 2018
?Job Completed@ Fri Feb 16 20:39:38 CET 2018
 DIRECT ACCESS: http://rna.informatik.uni-freiburg.de:80/RetrieveResults.jsp?jobID=6527768&toolName=CopraRNA ( 30 days expiry )

The job description you specified

MicA


Output download complete results [zip]

Downloadable files

[csv]
[txt]
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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
191 0.01886 0.3104 b3494 uspB -6.32 0.440313 280 -- 286 5 -- 11 universal stress (ethanol tolerance) protein B  
192 0.01895 0.3104 b3333 gspL -4.89 0.645256 110 -- 132 1 -- 21 general secretory pathway component cryptic  
193 0.01896 0.3104 b3181 greA -10.36 0.105339 194 -- 204 10 -- 20 transcript cleavage factor  
194 0.0191 0.3104 b2698 recX -10.17 0.113250 93 -- 107 8 -- 22 regulatory protein for RecA  
195 0.01912 0.3104 b3910 yiiM -10.43 0.102344 196 -- 205 9 -- 18 6-N-hydroxylaminopurine resistance protein  
196 0.01921 0.3104 b2167 fruA -9.92 0.125082 150 -- 163 5 -- 22 fused fructose-specific PTS enzymes: IIBcomponent/IIC components  
197 0.01929 0.3104 b2185 rplY -8.58 0.206984 8 -- 20 7 -- 19 50S ribosomal subunit protein L25  
198 0.0193 0.3104 b2961 mutY -10.33 0.106403 22 -- 38 1 -- 15 adenine DNA glycosylase  
199 0.01944 0.3104 b3657 yicJ -13.22 0.033173 129 -- 161 8 -- 45 putative transporter  
200 0.0195 0.3104 b3183 obgE -7.01 0.355777 76 -- 83 4 -- 11 GTPase involved in cell partioning and DNA repair  

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