Freiburg RNA Tools
CopraRNA - Results
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CopraRNA 1654565

Input and runtime details for job 1654565 (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 1654565 (server version trunk)

?Job Submitted & Queued@ Fri Feb 16 15:23:36 CET 2018
?Processing Started@ Fri Feb 16 15:24:05 CET 2018
?CopraRNA Finished & Post-Processing@ Fri Feb 16 22:25:53 CET 2018
?Post-Processing Finished@ Fri Feb 16 22:26:01 CET 2018
?Job Completed@ Fri Feb 16 22:26:34 CET 2018
 DIRECT ACCESS: http://rna.informatik.uni-freiburg.de:80/RetrieveResults.jsp?jobID=1654565&toolName=CopraRNA ( 30 days expiry )

The job description you specified

FnrS

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 1.057e-08 3.724e-05 b0889 lrp -13.58 0.012310 166 -- 227 21 -- 70 leucine-responsive global transcriptional regulator  
2 4.208e-07 0.0007412 b2531 iscR -21.46 0.000012 188 -- 264 2 -- 56 isc operon transcriptional repressor; suf operon transcriptional activator; oxidative stress- and iron starvation-inducible; autorepressor  
3 7.57e-07 0.0008889 b1763 topB -11.97 0.035059 233 -- 258 1 -- 37 DNA topoisomerase III  
4 1.28e-06 0.001128 b0884 infA -17.67 0.000535 178 -- 264 1 -- 71 translation initiation factor IF-1  
5 2.521e-06 0.001776 b3365 nirB -15.77 0.002536 156 -- 206 35 -- 88 nitrite reductase large subunit NAD(P)H-binding  
6 5.595e-06 0.003285 b2048 cpsG -15.91 0.002276 49 -- 82 20 -- 54 phosphomannomutase  
7 8.167e-06 0.003921 b1531 marA -12.70 0.022098 183 -- 204 40 -- 62 multiple antibiotic resistance transcriptional regulator  
8 8.903e-06 0.003921 b1654 grxD -12.06 0.033180 187 -- 203 41 -- 57 glutaredoxin-4  
9 1.504e-05 0.005627 b1189 dadA -11.44 0.048458 195 -- 226 48 -- 78 D-amino acid dehydrogenase  
10 1.762e-05 0.005627 b1112 bhsA -13.86 0.010205 165 -- 186 1 -- 22 biofilm cell surface and signaling protein b0806 b0802

Details of Selected Interaction Download Interaction Details

mRNA

sRNA

		

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Results are computed with CopraRNA version 2.1.2