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
67 0.006163 0.3087 b0773 ybhB -10.36 0.105479 214 -- 228 7 -- 20 kinase inhibitor homolog UPF0098 family b0545
150 0.01436 0.3104 b3951 pflD -11.87 0.057659 67 -- 75 5 -- 13 putative glycine radical domain-containing pyruvate formate-lyase b0823
21 0.0009524 0.1536 b0241 phoE -11.39 0.070016 174 -- 180 5 -- 11 outer membrane phosphoporin protein E b0929 b2215 b1377
183 0.01807 0.3104 b1508 hipB -7.23 0.331427 238 -- 247 10 -- 19 antitoxin of HipAB toxin-antitoxin system b1299 b1434
179 0.01766 0.3104 b0377 sbmA -9.49 0.147268 6 -- 15 3 -- 12 peptide antibiotic transporter b1496
127 0.01249 0.3104 b2964 nupG -12.57 0.043346 150 -- 164 1 -- 16 nucleoside transporter b2406
68 0.006348 0.3087 b1202 ycgV -6.40 0.429936 233 -- 244 4 -- 18 putative adhesin b2647
40 0.002726 0.2279 b1799 dmlR -13.48 0.029707 223 -- 239 2 -- 20 transcriptional activator of dmlA b3060
96 0.009671 0.3104 b0941 elfG -12.70 0.041082 222 -- 232 5 -- 15 putative fimbrial-like adhesin protein b3145 b0533
171 0.01687 0.3104 b1512 lsrR -11.43 0.068975 231 -- 262 7 -- 31 lsr operon transcriptional repressor b4295

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