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

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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
91 0.009339 0.3104 b2562 yfhL -11.62 0.063873 146 -- 160 6 -- 20 putative 4Fe-4S cluster-containing protein  
92 0.009361 0.3104 b3652 recG -7.88 0.265686 265 -- 278 7 -- 20 ATP-dependent DNA helicase  
93 0.009444 0.3104 b3822 recQ -7.42 0.310549 176 -- 212 9 -- 45 ATP-dependent DNA helicase  
94 0.009498 0.3104 b4198 ulaF -10.74 0.090813 136 -- 150 6 -- 20 L-ribulose 5-phosphate 4-epimerase  
95 0.009629 0.3104 b0781 moaA -11.57 0.065137 257 -- 279 1 -- 21 molybdopterin biosynthesis protein A  
96 0.009671 0.3104 b0941 elfG -12.70 0.041082 222 -- 232 5 -- 15 putative fimbrial-like adhesin protein b3145 b0533
97 0.009805 0.3104 b1306 pspC -10.74 0.090670 128 -- 139 7 -- 18 psp operon transcription co-activator  
98 0.009835 0.3104 b1213 ychQ -13.77 0.026325 164 -- 179 6 -- 23 SIRB family inner membrane protein  
99 0.009943 0.3104 b3405 ompR -10.46 0.101388 231 -- 245 8 -- 21 response regulator in two-component regulatory system with EnvZ  
100 0.01004 0.3104 b3166 truB -9.42 0.151044 113 -- 128 5 -- 18 tRNA pseudouridine synthase B: tRNA pseudouridine(55) synthase and putative tmRNA pseudouridine(342) synthase  

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