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]
[txt]
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[txt] [svg]


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
57 0.002848 0.1727 b2059 wcaA -10.75 0.100075 282 -- 295 72 -- 85 putative glycosyl transferase  
114 0.006011 0.1855 b0422 xseB -10.73 0.101337 104 -- 119 73 -- 87 exonuclease VII small subunit  
72 0.00375 0.1804 b0386 proC -10.69 0.102749 216 -- 233 53 -- 70 pyrroline-5-carboxylate reductase NAD(P)-binding  
68 0.00345 0.1727 b3168 infB -10.64 0.105292 126 -- 148 49 -- 77 translation initiation factor IF-2  
127 0.007097 0.1961 b4065 yjcE -10.62 0.105957 81 -- 91 51 -- 62 putative cation/proton antiporter  
79 0.004357 0.1855 b0008 talB -10.61 0.106795 240 -- 280 50 -- 88 transaldolase B  
60 0.003031 0.1727 b3432 glgB -10.57 0.108575 114 -- 123 51 -- 60 1 4-alpha-glucan branching enzyme  
105 0.005654 0.1855 b0004 thrC -10.56 0.108775 227 -- 299 1 -- 79 L-threonine synthase  
158 0.009324 0.2062 b3574 yiaJ -10.56 0.109206 175 -- 190 70 -- 85 transcriptional repressor for the yiaKLMNO-lyxK-sgbHUE operon  
184 0.01102 0.2089 b1033 ghrA -10.56 0.108938 6 -- 15 64 -- 73 glyoxylate/hydroxypyruvate reductase A  

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