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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[txt] [svg]


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
81 0.007385 0.3087 b0736 ybgC -11.71 0.061637 220 -- 237 4 -- 21 acyl-CoA thioester hydrolase  
82 0.007621 0.3104 b3388 damX -7.48 0.304490 3 -- 13 8 -- 18 cell division protein that binds to the septal ring  
83 0.007683 0.3104 b4244 pyrI -7.62 0.290375 210 -- 222 10 -- 21 aspartate carbamoyltransferase regulatory subunit  
84 0.008129 0.3104 b2579 grcA -9.71 0.135356 279 -- 291 5 -- 18 autonomous glycyl radical cofactor  
85 0.008151 0.3104 b0914 msbA -12.09 0.052799 181 -- 198 1 -- 18 lipid ABC transporter permease/ATPase  
86 0.008729 0.3104 b4213 cpdB -12.03 0.054140 68 -- 81 8 -- 21 2':3'-cyclic-nucleotide 2'-phosphodiesterase  
87 0.008927 0.3104 b0195 tsaA -8.24 0.234029 220 -- 237 1 -- 18 tRNA-Thr(GGU) m(6)t(6)A37 methyltransferase SAM-dependent  
88 0.008928 0.3104 b0405 queA -8.89 0.184414 201 -- 209 5 -- 13 S-adenosylmethionine:tRNA ribosyltransferase-isomerase  
89 0.009028 0.3104 b0529 folD -8.62 0.203566 239 -- 251 4 -- 17 bifunctional 5 10-methylene-tetrahydrofolate dehydrogenase/ 5 10-methylene-tetrahydrofolate cyclohydrolase  
90 0.009145 0.3104 b1079 flgH -6.81 0.379144 179 -- 204 10 -- 38 flagellar protein of basal-body outer-membrane L ring  

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