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

[csv]
[txt]
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[txt] [svg]


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
151 0.01442 0.3104 b1395 paaH -15.43 0.013105 189 -- 216 8 -- 31 3-hydroxyadipyl-CoA dehydrogenase NAD+-dependent  
152 0.01445 0.3104 b0385 yaiC -12.21 0.050169 39 -- 67 12 -- 42 diguanylate cyclase cellulose regualtor  
153 0.0145 0.3104 b3866 yihI -12.31 0.048207 234 -- 252 5 -- 21 activator of Der GTPase  
154 0.01456 0.3104 b2048 cpsG -9.02 0.175967 42 -- 71 4 -- 44 phosphomannomutase  
155 0.0146 0.3104 b2614 grpE -10.46 0.101070 105 -- 125 1 -- 22 heat shock protein  
156 0.01464 0.3104 b4105 phnD -8.45 0.216438 196 -- 209 4 -- 18 phosphonate ABC transporter periplasmic binding protein  
157 0.01467 0.3104 b0906 ycaP -12.44 0.045773 54 -- 69 5 -- 18 UPF0702 family putative inner membrane protein  
158 0.01496 0.3104 b4278 insG -10.00 0.121023 32 -- 48 3 -- 20 IS4 transposase  
159 0.01499 0.3104 b2476 purC -11.66 0.062723 28 -- 49 4 -- 22 phosphoribosylaminoimidazole-succinocarboxamide synthetase  
160 0.015 0.3104 b2022 hisB -11.12 0.077869 165 -- 171 5 -- 11 histidinol-phosphatase and imidazoleglycerol-phosphate dehydratase  

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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Results are computed with CopraRNA version 2.1.2