Freiburg RNA Tools
CopraRNA - Results
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IFF
CopraRNA 9295705

Input and runtime details for job 9295705 (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 9295705 (server version trunk)

?Job Submitted & Queued@ Mon Oct 27 19:33:05 CET 2014
?Processing Started@ Mon Oct 27 19:33:21 CET 2014
?CopraRNA Finished & Post-Processing@ Mon Oct 27 22:11:58 CET 2014
?Post-Processing Finished@ Mon Oct 27 22:11:58 CET 2014
?Job Completed@ Mon Oct 27 22:12:08 CET 2014
 DIRECT ACCESS: http://rna.informatik.uni-freiburg.de:80/RetrieveResults.jsp?jobID=9295705&toolName=CopraRNA ( 30 days expiry )

The job description you specified

OxyS

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 sampled p-values
1 0 0 b3961 oxyR -147.82 0.000000 1 -- 105 1 -- 105 oxidative and nitrosative stress transcriptional regulator   0
2 0.0004304 0.6437 b1823 cspC -13.77 0.022501 19 -- 44 2 -- 27 stress protein member of the CspA-family   0
3 0.0005371 0.6437 b3663 yicN -11.05 0.070369 243 -- 256 60 -- 80 DUF1198 family protein   1
4 0.0007058 0.6437 b2175 mepS -14.31 0.017897 178 -- 188 25 -- 35 murein DD-endopeptidase space-maker hydrolase mutational suppressor of prc thermosensitivity outer membrane lipoprotein   0
5 0.0009688 0.6448 b2729 hypD -13.09 0.029919 75 -- 91 71 -- 87 hydrogenase maturation protein   0
6 0.001093 0.6448 b3310 rplN -10.99 0.072072 6 -- 16 77 -- 87 50S ribosomal subunit protein L14   0
7 0.001314 0.6448 b4026 yjbE -11.10 0.068884 117 -- 134 66 -- 85 extracellular polysaccharide production threonine-rich protein   1
8 0.001414 0.6448 b3829 metE -12.06 0.046210 233 -- 242 75 -- 84 5-methyltetrahydropteroyltriglutamate- homocysteine S-methyltransferase   0
9 0.001858 0.7532 b3230 rpsI -11.15 0.067324 122 -- 137 75 -- 90 30S ribosomal subunit protein S9   0
10 0.002414 0.8257 b3738 atpB -10.54 0.086903 128 -- 143 69 -- 84 F0 sector of membrane-bound ATP synthase subunit a   0

Details of Selected Interaction Download Interaction Details

mRNA

sRNA

		

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Results are computed with CopraRNA version 2.0.1