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
171 0.01011 0.2071 b4086 alsC -10.38 0.118114 189 -- 207 53 -- 70 D-allose ABC transporter permease  
172 0.0102 0.2071 b1383 ydbL -9.96 0.141752 21 -- 31 52 -- 62 DUF1318 family protein  
173 0.01023 0.2071 b3297 rpsK -11.54 0.070538 32 -- 43 48 -- 59 30S ribosomal subunit protein S11  
174 0.01024 0.2071 b0889 lrp -11.01 0.089440 79 -- 112 38 -- 78 leucine-responsive global transcriptional regulator  
175 0.01031 0.2074 b1834 yebT -10.32 0.121003 270 -- 282 51 -- 62 MCE domain protein  
176 0.01044 0.208 b0933 ssuB -9.69 0.158756 203 -- 226 69 -- 90 aliphatic sulfonate ABC transporter ATPase  
177 0.01048 0.208 b2416 ptsI -10.21 0.127224 180 -- 212 6 -- 36 PEP-protein phosphotransferase of PTS system (enzyme I)  
178 0.01053 0.208 b3582 sgbU -5.91 0.640260 169 -- 196 65 -- 84 putative L-xylulose 5-phosphate 3-epimerase  
179 0.01058 0.208 b1325 ycjG -11.81 0.062523 258 -- 297 32 -- 77 L-Ala-D/L-Glu epimerase  
180 0.01069 0.2089 b4529 ydbJ -7.20 0.426635 222 -- 243 41 -- 61 DUF333 family putative lipoprotein  

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