miRNA display CGI


Results 1 - 20 of 30 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
30189 3' -62.1 NC_006273.1 + 187027 1.08 0.001524
Target:  5'- cACACCCGGGAGCCGCCUGAUCGCCAGg -3'
miRNA:   3'- -UGUGGGCCCUCGGCGGACUAGCGGUC- -5'
30189 3' -62.1 NC_006273.1 + 189443 0.79 0.155655
Target:  5'- aGCACCCGGGAGCCGgCCUcgcGAcgaagucUCGUCGGa -3'
miRNA:   3'- -UGUGGGCCCUCGGC-GGA---CU-------AGCGGUC- -5'
30189 3' -62.1 NC_006273.1 + 214758 0.74 0.296453
Target:  5'- aGCACCgUGGGuGCCGgCgguaUGAUCGCCAGu -3'
miRNA:   3'- -UGUGG-GCCCuCGGCgG----ACUAGCGGUC- -5'
30189 3' -62.1 NC_006273.1 + 46311 0.73 0.366296
Target:  5'- cCGCCCGGGcgcaagaagcGGCCGCCUacgcCGCCGGu -3'
miRNA:   3'- uGUGGGCCC----------UCGGCGGAcua-GCGGUC- -5'
30189 3' -62.1 NC_006273.1 + 145605 0.72 0.404429
Target:  5'- cACGUCCGGuGAGCC-CCUGAaagaugcucugggUCGCCAGg -3'
miRNA:   3'- -UGUGGGCC-CUCGGcGGACU-------------AGCGGUC- -5'
30189 3' -62.1 NC_006273.1 + 147904 0.71 0.460431
Target:  5'- gGCGCCCGG--GCCGCCUGAggaaggggaggagUGUCAGa -3'
miRNA:   3'- -UGUGGGCCcuCGGCGGACUa------------GCGGUC- -5'
30189 3' -62.1 NC_006273.1 + 62047 0.71 0.481472
Target:  5'- gGCACCgCGGcGGCgGCggacUUGAUCGCCAGu -3'
miRNA:   3'- -UGUGG-GCCcUCGgCG----GACUAGCGGUC- -5'
30189 3' -62.1 NC_006273.1 + 161641 0.7 0.499357
Target:  5'- cGCugCCGGGccucGGCCGCCgc--CGCCAc -3'
miRNA:   3'- -UGugGGCCC----UCGGCGGacuaGCGGUc -5'
30189 3' -62.1 NC_006273.1 + 140789 0.7 0.526716
Target:  5'- ---aCCGGGaAGCCGgCggaGGUCGCCGGg -3'
miRNA:   3'- ugugGGCCC-UCGGCgGa--CUAGCGGUC- -5'
30189 3' -62.1 NC_006273.1 + 114723 0.69 0.57346
Target:  5'- uUugCUGGGGG-CGCCcaUGAUCGCCGu -3'
miRNA:   3'- uGugGGCCCUCgGCGG--ACUAGCGGUc -5'
30189 3' -62.1 NC_006273.1 + 137177 0.69 0.577247
Target:  5'- -aGCCgGGGuGCCGCCgcUGccgcucagcgagcucGUCGCCAGc -3'
miRNA:   3'- ugUGGgCCCuCGGCGG--AC---------------UAGCGGUC- -5'
30189 3' -62.1 NC_006273.1 + 62124 0.68 0.611536
Target:  5'- --uUCCGGGGGCCagcaGCCgcUGGUCcGCCGGg -3'
miRNA:   3'- uguGGGCCCUCGG----CGG--ACUAG-CGGUC- -5'
30189 3' -62.1 NC_006273.1 + 159734 0.68 0.630679
Target:  5'- gUACUCGaGGAGCCaGCuCUGGUCGCa-- -3'
miRNA:   3'- uGUGGGC-CCUCGG-CG-GACUAGCGguc -5'
30189 3' -62.1 NC_006273.1 + 52527 0.68 0.646955
Target:  5'- gACugCUGGGGGCCGUugugCUGcagcagccgagcucGUCGCCGc -3'
miRNA:   3'- -UGugGGCCCUCGGCG----GAC--------------UAGCGGUc -5'
30189 3' -62.1 NC_006273.1 + 151979 0.68 0.649825
Target:  5'- cCGCUCGGGcGCCGCCgg---GCCGGg -3'
miRNA:   3'- uGUGGGCCCuCGGCGGacuagCGGUC- -5'
30189 3' -62.1 NC_006273.1 + 141174 0.67 0.659383
Target:  5'- uGCGCCgGGGGGCgGCggGcaCGCCGGg -3'
miRNA:   3'- -UGUGGgCCCUCGgCGgaCuaGCGGUC- -5'
30189 3' -62.1 NC_006273.1 + 123127 0.67 0.659383
Target:  5'- cGCACCCGGuccauGAGCaCGuCCUcg-CGCCAGc -3'
miRNA:   3'- -UGUGGGCC-----CUCG-GC-GGAcuaGCGGUC- -5'
30189 3' -62.1 NC_006273.1 + 177679 0.67 0.659383
Target:  5'- cGCGCCUcucGGAGCCGCC-GA-CGCUGGc -3'
miRNA:   3'- -UGUGGGc--CCUCGGCGGaCUaGCGGUC- -5'
30189 3' -62.1 NC_006273.1 + 84883 0.67 0.678435
Target:  5'- -gGCCaCGGGAGCUGUUggcacGUCGCCAc -3'
miRNA:   3'- ugUGG-GCCCUCGGCGGac---UAGCGGUc -5'
30189 3' -62.1 NC_006273.1 + 134860 0.67 0.678435
Target:  5'- -aGCCaGGuGAGCCGCCaggugaggcggGAUCGCCGu -3'
miRNA:   3'- ugUGGgCC-CUCGGCGGa----------CUAGCGGUc -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.