Freiburg RNA Tools
CopraRNA - Results
BIF
IFF
CopraRNA 6038639

Input and runtime details for job 6038639 (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 6038639 (server version trunk)

?Job Submitted & Queued@ Fri Feb 16 15:35:57 CET 2018
?CopraRNA Started@ Fri Feb 16 20:19:35 CET 2018
?CopraRNA Finished & Post-Processing@ Fri Feb 16 21:35:30 CET 2018
?Post-Processing Finished@ Fri Feb 16 21:35:37 CET 2018
?Job Completed@ Fri Feb 16 21:35:51 CET 2018
 DIRECT ACCESS: http://rna.informatik.uni-freiburg.de/RetrieveResults.jsp?jobID=6038639&toolName=CopraRNA ( 30 days expiry )

Description of the job

IhtA

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_000117 Chlamydia trachomatis D/UW-3/CX

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
123 0.04914 0.3262 ct_754 icc -7.18 0.131374 254 -- 264 47 -- 57    
134 0.05433 0.3262 ct_581 thrS -7.17 0.132364 52 -- 64 21 -- 33 threonine--tRNA ligase  
27 0.007389 0.2199 ct_855 fumC -7.16 0.132975 201 -- 207 82 -- 88 fumarate hydratase  
86 0.03096 0.29 ct_221 yqfU -7.15 0.133289 38 -- 44 80 -- 86    
54 0.02089 0.29 ct_119 incA -7.14 0.134009 237 -- 243 52 -- 58 inclusion membrane protein A  
184 0.0822 0.363 ct_497 dnaB -7.07 0.138978 138 -- 179 3 -- 57 replicative DNA helicase  
37 0.01294 0.2859 ct_591 sdhB -7.06 0.139804 161 -- 176 18 -- 34 succinate dehydrogenase iron sulfur subunit  
98 0.03528 0.2959 ct_676 N/A -6.99 0.144558 38 -- 44 80 -- 86 protein-arginine kinase activator protein  
156 0.06505 0.3424 ct_254 N/A -6.97 0.146186 84 -- 91 80 -- 87    
142 0.0566 0.3262 ct_284 N/A -6.95 0.147726 278 -- 292 18 -- 30 phospholipase D  

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

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Feeds the job parameters to the input page to resubmit the job.

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When using CopraRNA please cite :

Results are computed with CopraRNA version 2.1.2