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
1 0 0 b3209 elbB -118.30 0.000000 1 -- 83 1 -- 83 isoprenoid biosynthesis protein with amidotransferase-like domain  
2 1.572e-09 2.767e-06 b3749 rbsA -20.95 0.000983 43 -- 64 65 -- 86 D-ribose ABC transporter ATPase  
12 0.0004488 0.1198 b3133 agaV -20.63 0.001136 94 -- 118 64 -- 86 N-acetylgalactosamine-specific enzyme IIB component of PTS  
4 3.471e-06 0.003055 b2099 yegU -19.38 0.001997 173 -- 198 64 -- 88 ADP-ribosylglycohydrolase family protein  
97 0.005188 0.1855 b3060 ttdR -16.80 0.006462 125 -- 147 67 -- 90 transcriptional activator of ttdABT b1799
110 0.005921 0.1855 b0156 erpA -16.74 0.006653 106 -- 166 29 -- 94 iron-sulfur cluster insertion protein  
15 0.000767 0.1666 b2497 uraA -16.56 0.007223 161 -- 232 28 -- 90 uracil permease  
47 0.002359 0.1727 b1520 yneE -16.33 0.007995 225 -- 237 50 -- 62 bestrophin family putative inner membrane protein  
24 0.001457 0.1727 b0424 yajL -16.26 0.008266 79 -- 97 64 -- 86 oxidative-stress-resistance chaperone  
108 0.005783 0.1855 b3951 pflD -15.90 0.009733 233 -- 258 63 -- 86 putative glycine radical domain-containing pyruvate formate-lyase b0823

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