Freiburg RNA Tools
CopraRNA - Results
BIF
IFF
CopraRNA 5774122

Input and runtime details for job 5774122 (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 5774122 (server version trunk)

?Job Submitted & Queued@ Fri Feb 16 15:30:38 CET 2018
?CopraRNA Started@ Fri Feb 16 20:16:08 CET 2018
?CopraRNA Finished & Post-Processing@ Fri Feb 16 23:32:42 CET 2018
?Post-Processing Finished@ Fri Feb 16 23:32:50 CET 2018
?Job Completed@ Fri Feb 16 23:33:10 CET 2018
 DIRECT ACCESS: http://rna.informatik.uni-freiburg.de/RetrieveResults.jsp?jobID=5774122&toolName=CopraRNA ( 30 days expiry )

Description of the job

FsrA

Output download complete results [zip]

Downloadable files

[csv]
[txt]
[csv]
[png] [pdf] [ps]
[png] [pdf] [ps]
[html] [pdf]
[png] [pdf]
[txt] [svg]


heatmap

? Conserved, identified interactions for NC_000964 Bacillus subtilis subsp. subtilis str. 168

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
86 0.006791 0.2588 bsu17010 ymcB -10.99 0.152529 169 -- 190 33 -- 52 (dimethylallyl)adenosine tRNA methylthiotransferase MiaB  
144 0.01244 0.2883 bsu15720 def -10.99 0.152648 175 -- 193 31 -- 50 peptide deformylase  
25 0.0005172 0.06638 bsu30210 bioD -10.94 0.155183 179 -- 210 28 -- 53 ATP-dependent dethiobiotin synthetase BioD  
145 0.01267 0.2913 bsu36760 murAA -10.92 0.156018 188 -- 194 30 -- 36 UDP-N-acetylglucosamine 1-carboxyvinyltransferase 1  
194 0.01929 0.3269 bsu14860 pycA -10.87 0.159030 149 -- 193 23 -- 51 pyruvate carboxylase  
159 0.01439 0.3008 bsu00560 spoVT -10.85 0.160189 242 -- 254 41 -- 53 stage V sporulation protein T  
186 0.01872 0.3269 bsu09880 yhaR -10.74 0.166509 137 -- 152 16 -- 29 enoyl-CoA hydratase/isomerase YhaR  
197 0.0195 0.3269 bsu04670 rsbRA -10.67 0.170227 19 -- 37 34 -- 52 RsbT co-antagonist protein RsbRA  
102 0.008773 0.2778 bsu06170 ydjE -10.58 0.175640 264 -- 284 30 -- 50 sugar kinase YdjE  
147 0.013 0.2949 bsu12910 proG -10.46 0.183122 211 -- 241 23 -- 53 pyrroline-5-carboxylate reductase 3  

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)

Job resubmission

Use the following button if you want to resubmit the job with altered input or parameterization:
Feeds the job parameters to the input page to resubmit the job.

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Results are computed with CopraRNA version 2.1.2