Freiburg RNA Tools
CopraRNA - Results
BIF
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CopraRNA 5172788

Input and runtime details for job 5172788 (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 5172788 (server version trunk)

?Job Submitted & Queued@ Fri Feb 16 15:22:27 CET 2018
?Processing Started@ Fri Feb 16 15:22:50 CET 2018
?CopraRNA Finished & Post-Processing@ Fri Feb 16 20:35:14 CET 2018
?Post-Processing Finished@ Fri Feb 16 20:35:22 CET 2018
?Job Completed@ Fri Feb 16 20:35:53 CET 2018
 DIRECT ACCESS: http://rna.informatik.uni-freiburg.de:80/RetrieveResults.jsp?jobID=5172788&toolName=CopraRNA ( 30 days expiry )

The job description you specified

CyaR

Output download complete results [zip]

Downloadable files

[csv]
[txt]
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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
1 0 0 b3824 rhtB -9.47 0.207720 26 -- 71 1 -- 43 homoserine homoserine lactone and S-methyl-methionine efflux pump  
2 1.307e-08 2.196e-05 b1825 yebO -18.49 0.000616 254 -- 287 16 -- 49 putative inner membrane protein  
3 2.088e-07 0.000234 b2077 iceT -18.53 0.000593 226 -- 254 1 -- 30 putative citrate/iron-citrate/zinc-citrate efflux transporter  
4 1.432e-06 0.001203 b4547 ypfN -14.60 0.014593 223 -- 236 33 -- 46 putative membrane protein UPF0370 family  
5 6.68e-06 0.00395 b1918 yecS -16.73 0.003069 259 -- 299 1 -- 36 ABC family putative inner membrane permease  
6 7.051e-06 0.00395 b1213 ychQ -11.22 0.096653 74 -- 98 15 -- 40 SIRB family inner membrane protein  
7 1.492e-05 0.007162 b0903 pflB -20.16 0.000088 81 -- 115 14 -- 49 formate C-acetyltransferase 1 anaerobic; pyruvate formate-lyase 1  
8 1.749e-05 0.007346 b3294 rplQ -17.07 0.002316 5 -- 20 29 -- 46 50S ribosomal subunit protein L17  
9 2.519e-05 0.009407 b0435 bolA -15.32 0.008970 138 -- 163 15 -- 36 stationary-phase morphogene transcriptional repressor for mreB; also regulator for dacA dacC and ampC  
10 2.916e-05 0.0098 b1890 motA -14.10 0.019983 224 -- 242 28 -- 46 proton conductor component of flagella motor  

Details of Selected Interaction Download Interaction Details

mRNA

sRNA

		

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Results are computed with CopraRNA version 2.1.2