Freiburg RNA Tools
CopraRNA - Results
BIF
IFF
CopraRNA 2786068

Input and runtime details for job 2786068 (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 2786068 (server version trunk)

?Job Submitted & Queued@ Mon Oct 27 19:32:54 CET 2014
?Processing Started@ Mon Oct 27 19:33:06 CET 2014
?CopraRNA Finished & Post-Processing@ Mon Oct 27 22:55:50 CET 2014
?Post-Processing Finished@ Mon Oct 27 22:55:50 CET 2014
?Job Completed@ Mon Oct 27 22:56:08 CET 2014
 DIRECT ACCESS: http://rna.informatik.uni-freiburg.de:80/RetrieveResults.jsp?jobID=2786068&toolName=CopraRNA ( 30 days expiry )

The job description you specified

OmrB

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 2.6e-08 9.413e-05 b2324 mnmC -13.82 0.007763 43 -- 54 3 -- 14 fused 5-methylaminomethyl-2-thiouridine-forming enzyme methyltransferase and FAD-dependent demodification enzyme   0
2 1.986e-07 0.0003596 b1040 csgD -14.52 0.004736 122 -- 140 2 -- 20 csgBAC operon transcriptional regulator   2
3 3.134e-05 0.03782 b1642 slyA -8.70 0.166364 244 -- 282 2 -- 45 global transcriptional regulator   0
4 8.623e-05 0.06348 b3967 murI -9.52 0.109397 1 -- 39 6 -- 51 glutamate racemase   0
5 8.765e-05 0.06348 b1973 zinT -6.30 0.463241 33 -- 51 5 -- 22 zinc and cadmium binding protein periplasmic   4
6 0.0004103 0.2476 b3875 ompL -7.80 0.253832 236 -- 246 3 -- 14 outer membrane porin L b4311 3
7 0.000688 0.2979 b4068 yjcH -14.67 0.004217 173 -- 190 2 -- 21 DUF485 family inner membrane protein   0
8 0.0007258 0.2979 b3405 ompR -10.44 0.066090 182 -- 190 1 -- 9 response regulator in two-component regulatory system with EnvZ   0
9 0.0007404 0.2979 b0034 caiF -7.78 0.256288 205 -- 251 2 -- 53 cai operon transcriptional activator   3
10 0.001233 0.3761 b2438 eutK -12.08 0.024708 181 -- 217 1 -- 42 putative ethanol utilization carboxysome structural protein   3

Details of Selected Interaction Download Interaction Details

mRNA

sRNA

		

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Results are computed with CopraRNA version 2.0.1