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

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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
51 0.002608 0.1727 b2299 yfcD -9.22 0.194301 162 -- 171 49 -- 58 putative NUDIX hydrolase  
91 0.004841 0.1855 b3194 mlaE -9.16 0.198986 180 -- 189 67 -- 76 ABC transporter maintaining OM lipid asymmetry inner membrane permease protein  
188 0.01115 0.2089 b4377 yjjU -9.16 0.198952 213 -- 243 51 -- 77 putative patatin-like family phospholipase  
191 0.01171 0.2159 b4221 tamB -9.06 0.207346 81 -- 101 52 -- 76 translocation and assembly module for autotransporter export inner membrane subunit  
92 0.004911 0.1855 b3732 atpD -9.01 0.211333 117 -- 128 1 -- 11 F1 sector of membrane-bound ATP synthase beta subunit  
71 0.003482 0.1727 b4046 zur -8.96 0.216158 254 -- 300 53 -- 94 transcriptional repressor Zn(II)-binding  
26 0.001553 0.1727 b0853 ybjN -8.94 0.217650 161 -- 169 52 -- 60 negative regulator of motility; multicopy suppressor of coaA(Ts)  
55 0.002731 0.1727 b2480 bcp -8.89 0.222722 156 -- 187 28 -- 56 peroxiredoxin; thiol peroxidase thioredoxin-dependent  
146 0.008611 0.2059 b3750 rbsC -8.88 0.223197 137 -- 159 56 -- 77 D-ribose ABC transporter permease  
163 0.009572 0.2068 b4126 yjdI -8.84 0.226749 182 -- 194 26 -- 41 putative 4Fe-4S mono-cluster 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