Freiburg RNA Tools
CopraRNA - Results
BIF
IFF
CopraRNA 6527768

Input and runtime details for job 6527768 (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 6527768 (server version trunk)

?Job Submitted & Queued@ Fri Feb 16 15:24:51 CET 2018
?Processing Started@ Fri Feb 16 15:25:20 CET 2018
?CopraRNA Finished & Post-Processing@ Fri Feb 16 20:38:58 CET 2018
?Post-Processing Finished@ Fri Feb 16 20:39:05 CET 2018
?Job Completed@ Fri Feb 16 20:39:38 CET 2018
 DIRECT ACCESS: http://rna.informatik.uni-freiburg.de:80/RetrieveResults.jsp?jobID=6527768&toolName=CopraRNA ( 30 days expiry )

The job description you specified

MicA


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
181 0.01793 0.3104 b1594 mlc -11.10 0.078496 11 -- 37 1 -- 18 glucosamine anaerobic growth regulon transcriptional repressor; autorepressor  
182 0.01795 0.3104 b0403 malZ -8.22 0.235274 180 -- 211 10 -- 46 maltodextrin glucosidase  
183 0.01807 0.3104 b1508 hipB -7.23 0.331427 238 -- 247 10 -- 19 antitoxin of HipAB toxin-antitoxin system b1299 b1434
184 0.01824 0.3104 b2055 wcaE -6.17 0.461247 221 -- 230 4 -- 12 putative glycosyl transferase  
185 0.01831 0.3104 b3164 pnp -7.42 0.310961 131 -- 137 8 -- 14 polynucleotide phosphorylase/polyadenylase  
186 0.01836 0.3104 b3521 yhjC -9.62 0.140197 158 -- 166 5 -- 13 LysR family putative transcriptional regulator  
187 0.01837 0.3104 b2151 galS -10.59 0.096282 222 -- 228 5 -- 11 galactose- and fucose-inducible galactose regulon transcriptional isorepressor; mgl operon transcriptional repressor; autorepressor  
188 0.0185 0.3104 b3364 tsgA -7.52 0.300608 282 -- 299 12 -- 29 putative transporter  
189 0.01853 0.3104 b3743 asnC -7.74 0.278830 255 -- 266 5 -- 18 transcriptional activator of asnA; autorepressor  
190 0.01867 0.3104 b0196 rcsF -10.27 0.109081 201 -- 211 2 -- 13 putative outer membrane protein  

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