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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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
177 0.01048 0.208 b2416 ptsI -10.21 0.127224 180 -- 212 6 -- 36 PEP-protein phosphotransferase of PTS system (enzyme I)  
11 0.0004411 0.1198 b3154 yhbP -10.16 0.129625 138 -- 186 18 -- 75 UPF0306 family protein  
123 0.00672 0.1913 b0882 clpA -10.14 0.130927 50 -- 58 66 -- 74 ATPase and specificity subunit of ClpA-ClpP ATP-dependent serine protease chaperone activity  
82 0.004565 0.1855 b4144 yjeI -10.12 0.132253 163 -- 240 1 -- 93 DUF4156 family lipoprotein  
144 0.008344 0.2033 b3159 yhbV -10.12 0.132236 144 -- 228 15 -- 82 U32 peptidase family protein  
193 0.01192 0.2159 b2453 eutG -10.04 0.136932 27 -- 40 17 -- 30 ethanol dehydrogenase involved in ethanolamine utilization; aldehyde reductase  
194 0.01194 0.2159 b3454 livF -10.01 0.138607 25 -- 47 72 -- 86 branched-chain amino acid ABC transporter ATPase  
172 0.0102 0.2071 b1383 ydbL -9.96 0.141752 21 -- 31 52 -- 62 DUF1318 family protein  
199 0.0124 0.2193 b0128 yadH -9.95 0.142385 61 -- 79 68 -- 88 putative ABC transporter permease  
27 0.001577 0.1727 b1679 sufE -9.94 0.142549 247 -- 262 68 -- 86 sulfur acceptor protein  

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