Freiburg RNA Tools
CopraRNA - Results
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CopraRNA 2727377

Input and runtime details for job 2727377 (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 2727377 (server version trunk)

?Job Submitted & Queued@ Fri Feb 16 15:29:09 CET 2018
?Processing Started@ Fri Feb 16 15:29:28 CET 2018
?CopraRNA Finished & Post-Processing@ Fri Feb 16 20:18:35 CET 2018
?Post-Processing Finished@ Fri Feb 16 20:18:43 CET 2018
?Job Completed@ Fri Feb 16 20:19:11 CET 2018
 DIRECT ACCESS: http://rna.informatik.uni-freiburg.de:80/RetrieveResults.jsp?jobID=2727377&toolName=CopraRNA ( 30 days expiry )

The job description you specified

RyhB

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
1 0 0 b3441 yhhY -117.23 0.000000 1 -- 79 1 -- 79 aminoacyl nucleotide detoxifying acetyltransferase  
2 1.064e-05 0.01787 b1683 sufB -21.37 0.002185 208 -- 233 38 -- 66 component of SufBCD Fe-S cluster assembly scaffold  
3 2.244e-05 0.02513 b1107 nagZ -17.54 0.010122 191 -- 218 37 -- 58 beta N-acetyl-glucosaminidase  
4 0.0001495 0.1256 b3867 hemN -18.37 0.007265 188 -- 239 3 -- 58 coproporphyrinogen III oxidase SAM and NAD(P)H dependent oxygen-independent  
5 0.0002772 0.1521 b3365 nirB -15.55 0.022306 192 -- 212 38 -- 57 nitrite reductase large subunit NAD(P)H-binding  
6 0.0003052 0.1521 b4255 rraB -18.72 0.006315 136 -- 158 39 -- 61 protein inhibitor of RNase E  
7 0.0003168 0.1521 b0894 dmsA -18.01 0.008378 163 -- 184 42 -- 62 dimethyl sulfoxide reductase anaerobic subunit A b1588 b1587
8 0.0004259 0.161 b4019 metH -17.34 0.010954 191 -- 208 42 -- 58 homocysteine-N5-methyltetrahydrofolate transmethylase B12-dependent  
9 0.0004314 0.161 b1647 ydhF -17.39 0.010703 25 -- 48 37 -- 61 putative oxidoreductase  
10 0.0006218 0.2043 b1423 ydcJ -15.65 0.021404 209 -- 256 38 -- 84 putative metalloenzyme  

Details of Selected Interaction Download Interaction Details

mRNA

sRNA

		

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Results are computed with CopraRNA version 2.1.2