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

[csv]
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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
191 0.01171 0.2159 b4221 tamB -9.06 0.207346 81 -- 101 52 -- 76 translocation and assembly module for autotransporter export inner membrane subunit  
192 0.01187 0.2159 b2600 tyrA -9.34 0.184498 136 -- 155 70 -- 86 fused chorismate mutase T/prephenate dehydrogenase  
193 0.01192 0.2159 b2453 eutG -10.04 0.136932 27 -- 40 17 -- 30 ethanol dehydrogenase involved in ethanolamine utilization; aldehyde reductase  
194 0.01194 0.2159 b3454 livF -10.01 0.138607 25 -- 47 72 -- 86 branched-chain amino acid ABC transporter ATPase  
195 0.01197 0.2159 b0738 tolR -7.83 0.338188 180 -- 193 26 -- 40 membrane spanning protein in TolA-TolQ-TolR complex  
196 0.01202 0.2159 b1729 ydjN -13.87 0.024594 143 -- 155 72 -- 84 putative transporter  
197 0.01211 0.2164 b0495 ybbA -7.53 0.379415 88 -- 97 1 -- 10 putative ABC transporter ATPase  
198 0.01217 0.2164 b1236 galU -11.62 0.068156 187 -- 208 56 -- 74 glucose-1-phosphate uridylyltransferase  
199 0.0124 0.2193 b0128 yadH -9.95 0.142385 61 -- 79 68 -- 88 putative ABC transporter permease  
200 0.01246 0.2193 b0425 panE -12.07 0.055655 285 -- 293 54 -- 62 2-dehydropantoate reductase NADPH-specific  

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