Freiburg RNA Tools
CopraRNA - Results
BIF
IFF
CopraRNA 4894743

Input and runtime details for job 4894743 (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 4894743 (server version trunk)

?Job Submitted & Queued@ Fri Feb 16 15:35:26 CET 2018
?Processing Started@ Fri Feb 16 21:36:09 CET 2018
?CopraRNA Finished & Post-Processing@ Sat Feb 17 05:38:38 CET 2018
?Post-Processing Finished@ Sat Feb 17 05:38:45 CET 2018
?Job Completed@ Sat Feb 17 05:39:16 CET 2018
 DIRECT ACCESS: http://rna.informatik.uni-freiburg.de:80/RetrieveResults.jsp?jobID=4894743&toolName=CopraRNA ( 30 days expiry )

The job description you specified

SR1

Output download complete results [zip]

Downloadable files

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[txt] [svg]


heatmap

? Conserved, identified interactions for NC_000964 Bacillus subtilis subsp. subtilis str. 168

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 1.123e-05 0.04352 bsu13990 kinA -26.46 0.000103 182 -- 297 38 -- 181 sporulation kinase A bsu14490 bsu13530
2 6.323e-05 0.08823 bsu13370 ykoQ -21.23 0.001523 8 -- 146 40 -- 170 metallophosphoesterase  
3 8.73e-05 0.08823 bsu25090 yqfW -16.63 0.015052 29 -- 79 33 -- 81 nucleotidase YqfW  
4 0.0001192 0.08823 bsu12150 yjgB -21.60 0.001260 37 -- 72 32 -- 79 Evidence 5: No homology to any previously reported sequences; PubMedId: 1580552  
5 0.0001198 0.08823 bsu33680 yvaP -23.88 0.000393 26 -- 134 34 -- 167 HTH-type transcriptional regulator YvaP  
6 0.0001543 0.08823 bsu10740 yisJ -16.00 0.020473 36 -- 139 34 -- 134 inner spore coat protein H-like protein  
7 0.0001858 0.08823 bsu34210 yvfG -17.07 0.012126 85 -- 142 32 -- 86 Evidence 4: Homologs of previously reported genes of unknown function  
8 0.0001871 0.08823 bsu22860 yphA -19.72 0.003251 3 -- 123 37 -- 178 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; PubMedId: 15849754 16850406; Product type pm: membrane component'  
9 0.0002071 0.08823 bsu08425 mprF -16.98 0.012672 3 -- 50 34 -- 81 phosphatidylglycerol lysyltransferase  
10 0.0002277 0.08823 bsu05690 ydhB -21.23 0.001523 113 -- 150 136 -- 182 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; PubMedId: 15849754 16850406; Product type pm: membrane component' bsu12400

Details of Selected Interaction Download Interaction Details

mRNA

sRNA

		

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Results are computed with CopraRNA version 2.1.2