miRNA display CGI


Results 1 - 11 of 11 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
30717 3' -55.6 NC_006552.1 + 20479 0.66 0.790534
Target:  5'- aUUUCCCAGG---UGGCCGCUUGCa- -3'
miRNA:   3'- cGGAGGGUCCucaACUGGUGGAUGcc -5'
30717 3' -55.6 NC_006552.1 + 57163 0.66 0.780889
Target:  5'- gGCgUUCCUcaAGGGGUUGACCGgC-AUGGu -3'
miRNA:   3'- -CG-GAGGG--UCCUCAACUGGUgGaUGCC- -5'
30717 3' -55.6 NC_006552.1 + 47301 0.66 0.780889
Target:  5'- gGCCUUCgGcGAGUUGAUCAUCUG-GGu -3'
miRNA:   3'- -CGGAGGgUcCUCAACUGGUGGAUgCC- -5'
30717 3' -55.6 NC_006552.1 + 59839 0.66 0.749086
Target:  5'- cGCCgcuuuuccaucgCgCAGGAGUUG-CUACC-GCGGa -3'
miRNA:   3'- -CGGa-----------GgGUCCUCAACuGGUGGaUGCC- -5'
30717 3' -55.6 NC_006552.1 + 45836 0.66 0.740941
Target:  5'- cGCUuugCUCAGGGcGUaGAaaUCACCUGCGGg -3'
miRNA:   3'- -CGGa--GGGUCCU-CAaCU--GGUGGAUGCC- -5'
30717 3' -55.6 NC_006552.1 + 7225 0.67 0.734787
Target:  5'- aGCCgcugCCgCGGGccugcgccaucaacuGGUgGACCuCCUGCGGg -3'
miRNA:   3'- -CGGa---GG-GUCC---------------UCAaCUGGuGGAUGCC- -5'
30717 3' -55.6 NC_006552.1 + 2969 0.68 0.624461
Target:  5'- cGCCcgaguuggCCCGGGAGUgGAUUACCcgGCGa -3'
miRNA:   3'- -CGGa-------GGGUCCUCAaCUGGUGGa-UGCc -5'
30717 3' -55.6 NC_006552.1 + 59559 0.69 0.570982
Target:  5'- gGCCaUCCCugcGGAgGUUGAU-GCCUACGGc -3'
miRNA:   3'- -CGG-AGGGu--CCU-CAACUGgUGGAUGCC- -5'
30717 3' -55.6 NC_006552.1 + 46944 0.7 0.508434
Target:  5'- cGCCUaCCCGgcGGAGgcauCCGCCUGCGc -3'
miRNA:   3'- -CGGA-GGGU--CCUCaacuGGUGGAUGCc -5'
30717 3' -55.6 NC_006552.1 + 21083 0.74 0.342743
Target:  5'- gGCC-CCCAGGGGcuuccggcUUGACCAgCggcgACGGg -3'
miRNA:   3'- -CGGaGGGUCCUC--------AACUGGUgGa---UGCC- -5'
30717 3' -55.6 NC_006552.1 + 54267 1.12 0.000831
Target:  5'- cGCCUCCCAGGAGUUGACCACCUACGGc -3'
miRNA:   3'- -CGGAGGGUCCUCAACUGGUGGAUGCC- -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.