Freiburg RNA Tools
CopraRNA - Results
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IFF
CopraRNA 1229462

Input and runtime details for job 1229462 (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 1229462 (server version trunk)

?Job Submitted & Queued@ Fri Feb 16 15:25:41 CET 2018
?Processing Started@ Fri Feb 16 15:25:59 CET 2018
?CopraRNA Finished & Post-Processing@ Fri Feb 16 20:22:57 CET 2018
?Post-Processing Finished@ Fri Feb 16 20:23:04 CET 2018
?Job Completed@ Fri Feb 16 20:23:29 CET 2018
 DIRECT ACCESS: http://rna.informatik.uni-freiburg.de:80/RetrieveResults.jsp?jobID=1229462&toolName=CopraRNA ( 30 days expiry )

The job description you specified

MicF

Output download complete results [zip]

Downloadable files

[csv]
[txt]
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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 2.411e-07 0.0007914 b0889 lrp -21.69 0.000065 168 -- 212 1 -- 64 leucine-responsive global transcriptional regulator  
2 1.932e-06 0.003171 b1243 oppA -16.40 0.003005 12 -- 82 1 -- 59 oligopeptide ABC transporter periplasmic binding protein  
3 3.826e-06 0.004187 b0090 murG -16.88 0.002220 177 -- 235 1 -- 51 N-acetylglucosaminyl transferase  
4 6.512e-06 0.005344 b0929 ompF -18.50 0.000749 185 -- 210 1 -- 33 outer membrane porin 1a (Ia;b;F)  
5 3.022e-05 0.01984 b4553 ysaB -16.91 0.002179 166 -- 209 3 -- 54 uncharacterized protein  
6 0.0001423 0.07172 b3183 obgE -17.58 0.001399 174 -- 220 1 -- 51 GTPase involved in cell partioning and DNA repair  
7 0.0001529 0.07172 b0687 seqA -15.48 0.005290 212 -- 226 5 -- 19 negative modulator of initiation of replication  
8 0.0001978 0.08119 b3391 hofQ -22.13 0.000045 16 -- 73 27 -- 88 DNA catabolic putative fimbrial transporter  
9 0.000223 0.08136 b1826 mgrB -16.34 0.003128 178 -- 244 1 -- 63 regulatory peptide for PhoPQ feedback inhibition  
10 0.0003219 0.1057 b2727 hypB -18.91 0.000562 181 -- 230 1 -- 53 GTP hydrolase involved in nickel liganding into hydrogenases  

Details of Selected Interaction Download Interaction Details

mRNA

sRNA

		

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Results are computed with CopraRNA version 2.1.2