Freiburg RNA Tools
CopraRNA - Results
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IFF
CopraRNA 6398368

Input and runtime details for job 6398368 (precomputed example)

Input Parameters

? sRNA sequences[.fa]
? Putative target sequences (organism of interest)[.fa]
? Extract sequences aroundstart codon
? nt up (1-300)200
? nt down (1-300)100
? Minimal rel. cluster size0.5
? Iterative organism subset analysis (beta)no

Job ID 6398368 (server version trunk)

?Job Submitted & Queued@ Mon Oct 27 19:34:09 CET 2014
?Processing Started@ Mon Oct 27 19:34:21 CET 2014
?CopraRNA Finished & Post-Processing@ Mon Oct 27 21:54:35 CET 2014
?Post-Processing Finished@ Mon Oct 27 21:54:35 CET 2014
?Job Completed@ Mon Oct 27 21:54:46 CET 2014
 DIRECT ACCESS: http://rna.informatik.uni-freiburg.de:80/RetrieveResults.jsp?jobID=6398368&toolName=CopraRNA ( 30 days expiry )

The job description you specified

RyhB

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 sampled p-values
1 0 0 b3441 yhhY -114.34 0.000000 1 -- 79 1 -- 79 putative acetyltransferase   0
2 2.02e-05 0.03701 b1683 sufB -20.39 0.002175 208 -- 233 38 -- 66 component of SufBCD Fe-S cluster assembly scaffold   0
3 3.259e-05 0.03982 b1107 nagZ -16.75 0.010460 186 -- 225 37 -- 64 beta N-acetyl-glucosaminidase   0
4 6.104e-05 0.05592 b4019 metH -17.92 0.006311 191 -- 208 42 -- 58 homocysteine-N5-methyltetrahydrofolate transmethylase B12-dependent   0
5 0.0002279 0.1671 b3365 nirB -15.22 0.020181 192 -- 212 38 -- 57 nitrite reductase large subunit NAD(P)H-binding   0
6 0.0004844 0.2653 b3867 hemN -16.56 0.011323 188 -- 239 3 -- 58 coproporphyrinogen III oxidase SAM and NAD(P)H dependent oxygen-independent   0
7 0.0005506 0.2653 b4255 rraB -18.63 0.004641 136 -- 158 39 -- 61 protein inhibitor of RNase E   0
8 0.0006092 0.2653 b3981 secE -15.31 0.019405 240 -- 262 36 -- 60 preprotein translocase membrane subunit   0
9 0.0006689 0.2653 b4154 frdA -14.53 0.027096 184 -- 204 34 -- 53 fumarate reductase (anaerobic) catalytic and NAD/flavoprotein subunit   0
10 0.0007717 0.2653 b3248 yhdE -18.51 0.004890 101 -- 162 1 -- 68 Maf-like protein   0

Details of Selected Interaction Download Interaction Details

mRNA

sRNA

		

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Results are computed with CopraRNA version 2.0.1