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
1 0 0 b2687 luxS -86.29 0.000000 61 -- 132 1 -- 72 S-ribosylhomocysteine lyase  
4 4.059e-05 0.03436 b2748 ftsB -19.92 0.001892 154 -- 190 1 -- 44 cell division protein  
7 9.926e-05 0.04801 b1113 ldtC -15.69 0.011765 184 -- 223 1 -- 45 L D-transpeptidase linking Lpp to murein  
8 0.000167 0.07068 b0814 ompX -11.11 0.078421 202 -- 223 1 -- 22 outer membrane protein X  
18 0.00061 0.1147 b2126 yehU -11.17 0.076396 235 -- 252 1 -- 18 inner membrane putative sensory kinase in two-component system with YehT  
20 0.0008552 0.1448 b4137 cutA -9.23 0.162618 220 -- 236 1 -- 16 divalent-cation tolerance protein copper sensitivity  
22 0.001004 0.1545 b0583 entD -18.10 0.004183 41 -- 63 1 -- 22 phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex  
25 0.001519 0.1943 b2817 amiC -17.97 0.004427 110 -- 131 1 -- 21 N-acetylmuramoyl-L-alanine amidase  
45 0.00309 0.2325 b0584 fepA -13.78 0.026215 91 -- 106 1 -- 17 ferrienterobactin outer membrane transporter  
51 0.004574 0.3024 b3529 yhjK -9.99 0.121635 195 -- 213 1 -- 18 cyclic-di-GMP phosphodiesterase  

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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When using CopraRNA please cite :

Results are computed with CopraRNA version 2.1.2