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
21 0.001192 0.1727 b2526 hscA -14.48 0.018641 235 -- 259 63 -- 88 DnaK-like molecular chaperone specific for IscU  
22 0.001393 0.1727 b0794 ybhF -14.07 0.022426 148 -- 164 67 -- 84 putative ABC transporter ATPase  
23 0.001421 0.1727 b1234 rssA -12.55 0.044848 179 -- 192 61 -- 74 putative patatin-like family phospholipase  
24 0.001457 0.1727 b0424 yajL -16.26 0.008266 79 -- 97 64 -- 86 oxidative-stress-resistance chaperone  
25 0.001541 0.1727 b1948 fliP -12.25 0.051366 190 -- 216 44 -- 71 flagellar biosynthesis protein  
26 0.001553 0.1727 b0853 ybjN -8.94 0.217650 161 -- 169 52 -- 60 negative regulator of motility; multicopy suppressor of coaA(Ts)  
27 0.001577 0.1727 b1679 sufE -9.94 0.142549 247 -- 262 68 -- 86 sulfur acceptor protein  
28 0.001577 0.1727 b0598 cstA -11.00 0.089647 31 -- 48 28 -- 45 carbon starvation protein involved in peptide utilization; APC peptide transporter family protein  
29 0.001588 0.1727 b4371 rsmC -11.43 0.073969 145 -- 160 74 -- 89 16S rRNA m(2)G1207 methyltransferase SAM-dependent  
30 0.001614 0.1727 b3607 cysE -13.31 0.031682 13 -- 32 63 -- 81 serine acetyltransferase  

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