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
187 0.01114 0.2089 b0801 ybiC -12.72 0.041489 266 -- 279 27 -- 40 putative dehydrogenase b0517
108 0.005783 0.1855 b3951 pflD -15.90 0.009733 233 -- 258 63 -- 86 putative glycine radical domain-containing pyruvate formate-lyase b0823
161 0.009429 0.2062 b1372 stfR -7.17 0.431291 283 -- 297 69 -- 83 Rac prophage; putative tail fiber protein b1547
117 0.006292 0.1893 b1769 ydjE -12.05 0.056060 116 -- 139 36 -- 59 putative MFS sugar transporter membrane protein b1775
97 0.005188 0.1855 b3060 ttdR -16.80 0.006462 125 -- 147 67 -- 90 transcriptional activator of ttdABT b1799
125 0.006795 0.1914 b3003 yghA -11.52 0.071261 264 -- 274 70 -- 80 putative oxidoreductase b2902
160 0.009416 0.2062 b2095 gatZ -8.10 0.305092 155 -- 170 18 -- 33 D-tagatose 1 6-bisphosphate aldolase 2 subunit b3132
59 0.002989 0.1727 b2713 hydN -12.16 0.053402 276 -- 298 54 -- 76 formate dehydrogenase-H [4Fe-4S] ferredoxin subunit b3573
120 0.006631 0.1913 b0825 fsaA -14.24 0.020734 15 -- 76 31 -- 86 fructose-6-phosphate aldolase 1 b3946
169 0.01004 0.2071 b2384 ypdE -12.38 0.048278 93 -- 137 31 -- 75 aminopeptidase b4305 b3898

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