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
71 0.006638 0.3087 b3857 mobA -12.61 0.042607 253 -- 264 7 -- 18 molybdopterin-guanine dinucleotide synthase  
72 0.006739 0.3087 b2520 yfhM -8.19 0.237735 190 -- 217 6 -- 30 bacterial alpha2-macroglobulin colonization factor ECAM; anti-host protease defense factor; periplasmic inner membrane-anchored lipoprotein  
73 0.006809 0.3087 b4146 epmB -12.79 0.039583 278 -- 298 1 -- 22 EF-P-Lys34 lysylation protein; weak lysine 2 3-aminomutase  
74 0.006875 0.3087 b2474 tmcA -10.30 0.108021 196 -- 222 5 -- 31 elongator methionine tRNA (ac4C34) acetyltransferase  
75 0.006972 0.3087 b4348 hsdS -13.63 0.027959 190 -- 211 7 -- 29 specificity determinant for hsdM and hsdR  
76 0.007084 0.3087 b4214 cysQ -5.34 0.578728 11 -- 17 26 -- 32 3'(2') 5'-bisphosphate nucleotidase  
77 0.007102 0.3087 b0832 gsiD -8.78 0.192254 77 -- 85 7 -- 15 glutathione ABC transporter permease  
78 0.007118 0.3087 b1118 lolE -12.65 0.041861 19 -- 36 6 -- 21 lipoprotein-releasing system transmembrane protein  
79 0.007292 0.3087 b0063 araB -12.45 0.045578 14 -- 28 6 -- 20 L-ribulokinase  
80 0.007305 0.3087 b2392 mntH -9.52 0.145914 200 -- 218 5 -- 21 manganese/divalent cation transporter  

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