Freiburg RNA Tools
CopraRNA - Results
BIF
IFF
CopraRNA 7743500

Input and runtime details for job 7743500 (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 7743500 (server version trunk)

?Job Submitted & Queued@ Fri Feb 16 15:35:00 CET 2018
?Processing Started@ Fri Feb 16 21:27:12 CET 2018
?CopraRNA Finished & Post-Processing@ Sat Feb 17 06:56:30 CET 2018
?Post-Processing Finished@ Sat Feb 17 06:56:38 CET 2018
?Job Completed@ Sat Feb 17 06:57:11 CET 2018
 DIRECT ACCESS: http://rna.informatik.uni-freiburg.de:80/RetrieveResults.jsp?jobID=7743500&toolName=CopraRNA ( 30 days expiry )

The job description you specified

PrrF1

Output download complete results [zip]

Downloadable files

[csv]
[txt]
[csv]
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[html] [pdf]
[png] [pdf]
[txt] [svg]


heatmap

? Conserved, identified interactions for NC_002516 Pseudomonas aeruginosa PAO1

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 0 0 pa3775 N/A -6.65 0.627514 32 -- 38 50 -- 56 'Product name confidence: class 4 (Homologs of previously reported genes of unknown function or no similarity to any previously reported sequences)'  
2 9.847e-10 2.263e-06 pa5490 cc4 -23.49 0.000003 181 -- 254 56 -- 120 cytochrome C4  
3 1.464e-07 0.0002243 pa3814 iscS -11.38 0.090161 182 -- 237 39 -- 110 cysteine desulfurase  
4 5.154e-07 0.0005922 pa1581 sdhC -15.05 0.009907 206 -- 221 108 -- 123 succinate dehydrogenase subunit C  
5 7.253e-07 0.0006667 pa5351 rubA1 -17.51 0.001615 172 -- 222 71 -- 121 rubredoxin  
6 4.972e-06 0.003808 pa1336 N/A -12.31 0.054230 242 -- 253 107 -- 120 two-component sensor  
7 9.272e-06 0.004211 pa1571 N/A -18.24 0.000884 168 -- 194 96 -- 121 'Product name confidence: class 4 (Homologs of previously reported genes of unknown function or no similarity to any previously reported sequences)'  
8 1.007e-05 0.004211 pa3621 fdxA -18.47 0.000724 244 -- 255 71 -- 82 ferredoxin I  
9 1.098e-05 0.004211 pa0119 N/A -18.72 0.000584 256 -- 296 78 -- 118 C4-dicarboxylate transporter DctA pa5479 pa1183
10 1.1e-05 0.004211 pa5300 cycB -16.80 0.002828 155 -- 174 99 -- 117 cytochrome C5  

Details of Selected Interaction Download Interaction Details

mRNA

sRNA

		

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Results are computed with CopraRNA version 2.1.2