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

[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
125 0.01241 0.3104 b0002 thrA -8.21 0.235915 191 -- 205 9 -- 21 Bifunctional aspartokinase/homoserine dehydrogenase 1  
170 0.01687 0.3104 b0033 carB -11.35 0.071227 1 -- 15 5 -- 17 carbamoyl-phosphate synthase large subunit  
79 0.007292 0.3087 b0063 araB -12.45 0.045578 14 -- 28 6 -- 20 L-ribulokinase  
65 0.005951 0.3087 b0064 araC -16.15 0.009664 167 -- 213 8 -- 48 ara regulon transcriptional activator; autorepressor  
49 0.004401 0.299 b0093 ftsQ -10.19 0.112476 259 -- 274 4 -- 20 divisome assembly protein membrane anchored protein involved in growth of wall at septum  
123 0.01235 0.3104 b0097 secM -7.65 0.286972 189 -- 203 7 -- 21 regulator of secA translation  
111 0.01125 0.3104 b0102 zapD -10.07 0.117779 99 -- 113 8 -- 22 FtsZ stabilizer  
173 0.0173 0.3104 b0145 dksA -10.49 0.099910 175 -- 187 5 -- 21 transcriptional regulator of rRNA transcription; DnaK suppressor protein  
24 0.001508 0.1943 b0150 fhuA -11.07 0.079438 192 -- 210 5 -- 21 ferrichrome outer membrane transporter  
3 3.559e-05 0.03436 b0168 map -14.62 0.018437 228 -- 248 5 -- 21 methionine aminopeptidase  

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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When using CopraRNA please cite :

Results are computed with CopraRNA version 2.1.2