Freiburg RNA Tools
CopraRNA - Results
BIF
IFF
CopraRNA 6527768

Input and runtime details for job 6527768 (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 6527768 (server version trunk)

?Job Submitted & Queued@ Fri Feb 16 15:24:51 CET 2018
?Processing Started@ Fri Feb 16 15:25:20 CET 2018
?CopraRNA Finished & Post-Processing@ Fri Feb 16 20:38:58 CET 2018
?Post-Processing Finished@ Fri Feb 16 20:39:05 CET 2018
?Job Completed@ Fri Feb 16 20:39:38 CET 2018
 DIRECT ACCESS: http://rna.informatik.uni-freiburg.de:80/RetrieveResults.jsp?jobID=6527768&toolName=CopraRNA ( 30 days expiry )

The job description you specified

MicA


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 0.004574 0.3024 b3529 yhjK -9.99 0.121635 195 -- 213 1 -- 18 cyclic-di-GMP phosphodiesterase  
52 0.004683 0.3024 b1130 phoP -12.79 0.039529 186 -- 208 6 -- 31 response regulator in two-component regulatory system with PhoQ  
53 0.004896 0.3024 b3790 wecD -9.15 0.167607 125 -- 139 7 -- 21 TDP-fucosamine acetyltransferase  
54 0.004897 0.3024 b1949 fliQ -8.93 0.181731 208 -- 239 7 -- 38 flagellar biosynthesis protein  
55 0.005043 0.3024 b1625 cnu -10.91 0.084723 38 -- 57 1 -- 21 nucleoid-associated oriC-binding protein; H-NS and StpA stabilizing factor  
56 0.005155 0.3024 b3091 uxaA -13.05 0.035558 147 -- 159 6 -- 19 altronate hydrolase  
57 0.005155 0.3024 b3091 uxaA -13.05 0.035558 147 -- 159 6 -- 19 altronate hydrolase  
58 0.00518 0.3024 b4068 yjcH -12.19 0.050580 228 -- 240 8 -- 21 DUF485 family inner membrane protein  
59 0.005538 0.3084 b2812 tcdA -16.71 0.007603 29 -- 48 1 -- 19 tRNA threonylcarbamoyladenosine dehydratase; sulfur acceptor for CsdA  
60 0.00555 0.3084 b2062 wza -10.85 0.086669 18 -- 25 4 -- 11 colanic acid export protein; outer membrane auxillary lipoprotein  

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