Freiburg RNA Tools
CopraRNA - Results
BIF
IFF
CopraRNA 6860187

Input and runtime details for job 6860187 (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 6860187 (server version trunk)

?Job Submitted & Queued@ Fri Feb 16 15:29:33 CET 2018
?Processing Started@ Fri Feb 16 15:29:58 CET 2018
?CopraRNA Finished & Post-Processing@ Sat Feb 17 01:36:19 CET 2018
?Post-Processing Finished@ Sat Feb 17 01:36:26 CET 2018
?Job Completed@ Sat Feb 17 01:36:50 CET 2018
 DIRECT ACCESS: http://rna.informatik.uni-freiburg.de:80/RetrieveResults.jsp?jobID=6860187&toolName=CopraRNA ( 30 days expiry )

The job description you specified

SgrS

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 b0069 sgrR -186.00 0.000000 1 -- 133 1 -- 133 transcriptional DNA-binding transcriptional activator of sgrS sRNA  
2 4.964e-05 0.08352 b0475 hemH -12.83 0.075395 238 -- 275 45 -- 93 ferrochelatase  
3 8.668e-05 0.08442 b3892 fdoI -15.80 0.018551 255 -- 278 1 -- 22 formate dehydrogenase-O cytochrome b556 subunit  
4 0.0001068 0.08442 b2069 yegD -18.64 0.004982 22 -- 145 51 -- 187 Hsp70 chaperone family protein  
5 0.0001254 0.08442 b4481 wecF -11.27 0.155862 165 -- 206 62 -- 99 TDP-Fuc4NAc:lipidIIFuc4NAc transferase  
6 0.0003621 0.1842 b3242 aaeX -9.38 0.356280 9 -- 19 125 -- 135 DUF1656 family putative inner membrane efflux pump associated protein  
7 0.0005448 0.1842 b1912 pgsA -14.68 0.031521 247 -- 274 111 -- 134 phosphatidylglycerophosphate synthetase  
8 0.0005643 0.1842 b2557 purL -10.01 0.273478 129 -- 143 111 -- 124 phosphoribosylformyl-glycineamide synthetase  
9 0.0005653 0.1842 b3527 yhjJ -12.58 0.084694 198 -- 237 133 -- 170 putative periplasmic M16 family chaperone  
10 0.0006004 0.1842 b3656 yicI -12.42 0.091283 58 -- 101 169 -- 207 putative alpha-glucosidase  

Details of Selected Interaction Download Interaction Details

mRNA

sRNA

		

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Results are computed with CopraRNA version 2.1.2