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
151 0.008943 0.2059 b1284 yciT -9.40 0.179701 94 -- 109 63 -- 77 global regulator of transcription; DeoR family  
152 0.009044 0.2059 b1448 mnaT -7.00 0.457084 229 -- 266 50 -- 86 methionine N-acyltransferase; L-amino acid N-acyltransferase  
153 0.009069 0.2059 b3529 yhjK -8.15 0.299018 186 -- 212 47 -- 74 cyclic-di-GMP phosphodiesterase  
154 0.009082 0.2059 b2676 nrdF -13.94 0.023769 159 -- 176 53 -- 69 ribonucleoside-diphosphate reductase 2 beta subunit ferritin-like protein  
155 0.009115 0.2059 b1531 marA -9.94 0.142609 213 -- 231 72 -- 89 multiple antibiotic resistance transcriptional regulator  
156 0.009123 0.2059 b2683 ygaH -13.79 0.025463 164 -- 213 27 -- 86 putative L-valine exporter norvaline resistance protein  
157 0.009216 0.2062 b3361 fic -9.77 0.153316 103 -- 112 5 -- 14 stationary phase-induced protein putative toxin  
158 0.009324 0.2062 b3574 yiaJ -10.56 0.109206 175 -- 190 70 -- 85 transcriptional repressor for the yiaKLMNO-lyxK-sgbHUE operon  
159 0.009346 0.2062 b3661 nlpA -7.63 0.365650 232 -- 240 1 -- 9 cytoplasmic membrane lipoprotein-28  
160 0.009416 0.2062 b2095 gatZ -8.10 0.305092 155 -- 170 18 -- 33 D-tagatose 1 6-bisphosphate aldolase 2 subunit b3132

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