miRNA display CGI


Results 1 - 12 of 12 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
28498 3' -49.3 NC_005946.1 + 66338 0.66 0.992128
Target:  5'- --cAGAGUCUGuGAGGGUGU--GUGGc -3'
miRNA:   3'- uucUUUCGGGCuCUUCCACAaaCACC- -5'
28498 3' -49.3 NC_005946.1 + 69612 0.67 0.982479
Target:  5'- cAGGuAGGUCUG-GAAGGUGUg-GUGGg -3'
miRNA:   3'- -UUCuUUCGGGCuCUUCCACAaaCACC- -5'
28498 3' -49.3 NC_005946.1 + 85547 0.67 0.982479
Target:  5'- uGAGcAGGCUgGAGAAGGUGUccGcGGc -3'
miRNA:   3'- -UUCuUUCGGgCUCUUCCACAaaCaCC- -5'
28498 3' -49.3 NC_005946.1 + 2906 0.68 0.969178
Target:  5'- aAGGGAGGgCCGGGAgacacGGGgacgGUUaUGUGGa -3'
miRNA:   3'- -UUCUUUCgGGCUCU-----UCCa---CAA-ACACC- -5'
28498 3' -49.3 NC_005946.1 + 45620 0.7 0.917846
Target:  5'- --uAAAGUCCGAcGGGGUGUUUGUcaGGg -3'
miRNA:   3'- uucUUUCGGGCUcUUCCACAAACA--CC- -5'
28498 3' -49.3 NC_005946.1 + 47942 0.72 0.859783
Target:  5'- cAGAcucuGAGCaCGGGAGGGUGUacGUGGg -3'
miRNA:   3'- uUCU----UUCGgGCUCUUCCACAaaCACC- -5'
28498 3' -49.3 NC_005946.1 + 11218 0.72 0.851376
Target:  5'- gGAGGAuuGGCgUCGAGGAGGUGguacGUGGa -3'
miRNA:   3'- -UUCUU--UCG-GGCUCUUCCACaaa-CACC- -5'
28498 3' -49.3 NC_005946.1 + 50677 0.75 0.712719
Target:  5'- gAGGAcacugucgucucuGAGCCUGAGGAGGcUGU-UGUGGa -3'
miRNA:   3'- -UUCU-------------UUCGGGCUCUUCC-ACAaACACC- -5'
28498 3' -49.3 NC_005946.1 + 50841 0.78 0.560015
Target:  5'- aGAGAAgcagcAGCCUGAGGAGGcUGU-UGUGGa -3'
miRNA:   3'- -UUCUU-----UCGGGCUCUUCC-ACAaACACC- -5'
28498 3' -49.3 NC_005946.1 + 50802 0.78 0.560015
Target:  5'- aGAGAAgcagcAGCCUGAGGAGGcUGU-UGUGGa -3'
miRNA:   3'- -UUCUU-----UCGGGCUCUUCC-ACAaACACC- -5'
28498 3' -49.3 NC_005946.1 + 50763 0.78 0.560015
Target:  5'- aGAGAAgcagcAGCCUGAGGAGGcUGU-UGUGGa -3'
miRNA:   3'- -UUCUU-----UCGGGCUCUUCC-ACAaACACC- -5'
28498 3' -49.3 NC_005946.1 + 50724 0.79 0.506559
Target:  5'- aGAGAAgcagcAGCCUGAGAAGGcUGU-UGUGGa -3'
miRNA:   3'- -UUCUU-----UCGGGCUCUUCC-ACAaACACC- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.