Freiburg RNA Tools
CopraRNA - Results
BIF
IFF
CopraRNA 1786318

Input and runtime details for job 1786318 (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 1786318 (server version trunk)

?Job Submitted & Queued@ Fri Feb 16 15:20:27 CET 2018
?Processing Started@ Fri Feb 16 15:20:56 CET 2018
?CopraRNA Finished & Post-Processing@ Fri Feb 16 22:01:46 CET 2018
?Post-Processing Finished@ Fri Feb 16 22:01:53 CET 2018
?Job Completed@ Fri Feb 16 22:02:22 CET 2018
 DIRECT ACCESS: http://rna.informatik.uni-freiburg.de:80/RetrieveResults.jsp?jobID=1786318&toolName=CopraRNA ( 30 days expiry )

The job description you specified

ArcZ


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
41 0.002142 0.1727 b2153 folE -10.82 0.097170 217 -- 276 53 -- 121 GTP cyclohydrolase I  
42 0.002147 0.1727 b0082 rsmH -13.18 0.033634 23 -- 49 70 -- 94 16S rRNA m(4)C1402 methyltransferase SAM-dependent  
43 0.002187 0.1727 b2222 atoA -7.38 0.400797 260 -- 273 68 -- 82 acetyl-CoA:acetoacetyl-CoA transferase beta subunit  
44 0.002208 0.1727 b1859 znuB -7.63 0.365449 19 -- 38 72 -- 88 zinc ABC transporter permease  
45 0.002234 0.1727 b0055 djlA -13.22 0.033048 207 -- 250 35 -- 76 membrane-anchored DnaK co-chaperone DNA-binding protein  
46 0.002359 0.1727 b4139 aspA -15.43 0.012067 239 -- 273 37 -- 76 aspartate ammonia-lyase  
47 0.002359 0.1727 b1520 yneE -16.33 0.007995 225 -- 237 50 -- 62 bestrophin family putative inner membrane protein  
48 0.002388 0.1727 b2198 ccmD -12.59 0.043972 250 -- 282 36 -- 77 cytochrome c biogenesis protein; heme export ABC transporter holo-CcmE release factor  
49 0.00252 0.1727 b3452 ugpA -14.40 0.019328 59 -- 78 52 -- 70 sn-glycerol-3-phosphate ABC transporter permease  
50 0.002535 0.1727 b1879 flhA -12.13 0.054078 218 -- 247 64 -- 89 putative flagellar export pore protein  

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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Feeds the job parameters to the input page to resubmit the job.

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Results are computed with CopraRNA version 2.1.2