Freiburg RNA Tools
CopraRNA - Results
BIF
IFF
CopraRNA 9665788

Input and runtime details for job 9665788 (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 9665788 (server version trunk)

?Job Submitted & Queued@ Mon Oct 27 19:35:16 CET 2014
?Processing Started@ Mon Oct 27 22:32:51 CET 2014
?CopraRNA Finished & Post-Processing@ Tue Oct 28 05:04:15 CET 2014
?Post-Processing Finished@ Tue Oct 28 05:04:18 CET 2014
?Job Completed@ Tue Oct 28 05:05:07 CET 2014
 DIRECT ACCESS: http://rna.informatik.uni-freiburg.de:80/RetrieveResults.jsp?jobID=9665788&toolName=CopraRNA ( 30 days expiry )

The job description you specified

PrrF1

Output download complete results [zip]

Downloadable files

[csv]
[txt]
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[html] [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 sampled p-values
1 5.884e-08 0.0002682 pa3814 iscS -9.26 0.174317 190 -- 204 101 -- 116 cysteine desulfurase   0
2 3.198e-07 0.0006552 pa5490 cc4 -21.40 0.000028 181 -- 254 56 -- 120 cytochrome C4   1
3 4.313e-07 0.0006552 pa1581 sdhC -14.82 0.006855 206 -- 221 108 -- 123 succinate dehydrogenase subunit C   0
4 3.555e-06 0.00405 pa3621 fdxA -18.19 0.000547 244 -- 255 71 -- 82 ferredoxin I   0
5 1.402e-05 0.01172 pa5351 rubA1 -17.41 0.001027 172 -- 222 71 -- 121 rubredoxin   0
6 1.661e-05 0.01172 pa3638 N/A -11.73 0.047380 260 -- 294 54 -- 89 Product name confidence: class 4 (Homologs of previously reported genes of unknown function or no similarity to any previously reported sequences)   0
7 1.8e-05 0.01172 pa5396 N/A -8.33 0.267153 180 -- 186 104 -- 110 Product name confidence: class 4 (Homologs of previously reported genes of unknown function or no similarity to any previously reported sequences)   1
8 3.082e-05 0.01756 pa2953 N/A -14.02 0.011652 173 -- 195 95 -- 119 electron transfer flavoprotein-ubiquinone oxidoreductase   1
9 5.178e-05 0.02622 pa4012 N/A -10.80 0.079492 122 -- 132 100 -- 110 Product name confidence: class 4 (Homologs of previously reported genes of unknown function or no similarity to any previously reported sequences)   0
10 6.965e-05 0.03175 pa1787 acnB -11.78 0.046029 184 -- 193 98 -- 107 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase   0

Details of Selected Interaction Download Interaction Details

mRNA

sRNA

		

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Results are computed with CopraRNA version 2.0.1