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
106 0.005731 0.1855 b0867 amiD -15.82 0.010089 39 -- 60 64 -- 86 1 6-anhydro-N-acetylmuramyl-L-alanine amidase Zn-dependent; OM lipoprotein  
46 0.002359 0.1727 b4139 aspA -15.43 0.012067 239 -- 273 37 -- 76 aspartate ammonia-lyase  
7 0.0001601 0.08054 b1864 yebC -15.40 0.012230 213 -- 249 54 -- 89 UPF0082 family protein  
34 0.001871 0.1727 b4485 ytfR -15.36 0.012458 204 -- 227 64 -- 86 putative sugar ABC transporter ATPase  
93 0.005014 0.1855 b0091 murC -15.25 0.013117 8 -- 30 73 -- 94 UDP-N-acetylmuramate:L-alanine ligase  
17 0.0008046 0.1666 b0590 fepD -14.87 0.015550 17 -- 43 70 -- 94 ferrienterobactin ABC transporter permease  
10 0.0003497 0.1198 b2023 hisH -14.83 0.015853 226 -- 277 39 -- 86 imidazole glycerol phosphate synthase glutamine amidotransferase subunit  
37 0.002023 0.1727 b2197 ccmE -14.61 0.017549 166 -- 218 48 -- 94 periplasmic heme chaperone  
21 0.001192 0.1727 b2526 hscA -14.48 0.018641 235 -- 259 63 -- 88 DnaK-like molecular chaperone specific for IscU  
56 0.002848 0.1727 b0797 rhlE -14.47 0.018687 57 -- 89 53 -- 82 ATP-dependent RNA helicase  

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