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]
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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
105 0.005654 0.1855 b0004 thrC -10.56 0.108775 227 -- 299 1 -- 79 L-threonine synthase  
79 0.004357 0.1855 b0008 talB -10.61 0.106795 240 -- 280 50 -- 88 transaldolase B  
33 0.001709 0.1727 b0023 rpsT -12.95 0.037339 65 -- 78 72 -- 85 30S ribosomal subunit protein S20  
45 0.002234 0.1727 b0055 djlA -13.22 0.033048 207 -- 250 35 -- 76 membrane-anchored DnaK co-chaperone DNA-binding protein  
145 0.008374 0.2033 b0068 thiB -7.61 0.367750 229 -- 244 73 -- 87 thiamine/thiamine pyrophosphate/thiamine monophosphate ABC transporter periplasmic binding protein  
147 0.008705 0.2059 b0071 leuD -8.42 0.269085 76 -- 114 1 -- 54 3-isopropylmalate dehydratase small subunit  
42 0.002147 0.1727 b0082 rsmH -13.18 0.033634 23 -- 49 70 -- 94 16S rRNA m(4)C1402 methyltransferase SAM-dependent  
93 0.005014 0.1855 b0091 murC -15.25 0.013117 8 -- 30 73 -- 94 UDP-N-acetylmuramate:L-alanine ligase  
135 0.007679 0.1993 b0096 lpxC -11.14 0.084212 289 -- 298 76 -- 85 UDP-3-O-acyl N-acetylglucosamine deacetylase  
61 0.003042 0.1727 b0104 guaC -6.79 0.490983 117 -- 124 52 -- 59 GMP reductase  

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