Freiburg RNA Tools
CopraRNA - Results
BIF
IFF
CopraRNA 4416371

Input and runtime details for job 4416371 (precomputed example)

Input Parameters

? sRNA sequences[.fa]
? Putative target sequences (organism of interest)[.fa]
? Extract sequences aroundstart codon
? nt up (1-300)200
? nt down (1-300)100
? Minimal rel. cluster size0.5
? Iterative organism subset analysis (beta)no

Job ID 4416371 (server version trunk)

?Job Submitted & Queued@ Mon Oct 27 19:30:02 CET 2014
?Processing Started@ Mon Oct 27 19:30:06 CET 2014
?CopraRNA Finished & Post-Processing@ Mon Oct 27 21:34:24 CET 2014
?Post-Processing Finished@ Mon Oct 27 21:34:24 CET 2014
?Job Completed@ Mon Oct 27 21:34:35 CET 2014
 DIRECT ACCESS: http://rna.informatik.uni-freiburg.de:80/RetrieveResults.jsp?jobID=4416371&toolName=CopraRNA ( 30 days expiry )

The job description you specified

ChiX

Output download complete results [zip]

Downloadable files

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[html] [pdf]
[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 sampled p-values
1 0 0 b0481 ybaK -88.56 0.000000 1 -- 79 1 -- 79 Cys-tRNA(Pro)/Cys-tRNA(Cys) deacylase   0
2 8.283e-07 0.001502 b1737 chbC -17.14 0.000469 134 -- 152 38 -- 56 N N'-diacetylchitobiose-specific enzyme IIC component of PTS   0
3 8.002e-06 0.009674 b0681 chiP -14.84 0.001536 182 -- 193 45 -- 56 chitoporin uptake of chitosugars   0
4 0.0003681 0.3338 b1040 csgD -8.90 0.035889 185 -- 199 38 -- 52 csgBAC operon transcriptional regulator   0
5 0.0006671 0.4839 b1048 opgG -10.76 0.013253 159 -- 168 44 -- 53 osmoregulated periplasmic glucan (OPG) biosynthesis periplasmic protein   0
6 0.001688 0.8623 b1276 acnA -9.00 0.033954 184 -- 198 44 -- 55 aconitate hydratase 1   0
7 0.002278 0.8623 b0847 ybjL -11.75 0.007820 224 -- 253 26 -- 55 putative transporter   0
8 0.002313 0.8623 b1476 fdnI -8.82 0.037413 152 -- 174 48 -- 69 formate dehydrogenase-N cytochrome B556 (gamma) subunit nitrate-inducible   0
9 0.002378 0.8623 b0480 ushA -7.61 0.071407 186 -- 212 25 -- 55 bifunctional UDP-sugar hydrolase/5'-nucleotidase   0
10 0.002619 0.8635 b0886 cydC -10.13 0.018541 184 -- 194 44 -- 55 fused glutathione cysteine exporter subunits of ABC superfamily: membrane component/ATP-binding component   0

Details of Selected Interaction Download Interaction Details

mRNA

sRNA

		

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Results are computed with CopraRNA version 2.0.1