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 + 35352 0.66 0.761668
Target:  5'- gGCGCCCGGuaggucAGCaUGUCUGAUaccgggCGCCGGg -3'
miRNA:   3'- -UGUGGGCCc-----UCG-GCGGACUA------GCGGUC- -5'
30189 3' -62.1 NC_006273.1 + 200667 0.66 0.741863
Target:  5'- cACGCCCGaGGAucuggcgGCCGCCggcGGUcagaaaaggaaaaCGCCGGc -3'
miRNA:   3'- -UGUGGGC-CCU-------CGGCGGa--CUA-------------GCGGUC- -5'
30189 3' -62.1 NC_006273.1 + 36759 0.66 0.725354
Target:  5'- -gGCuCCGGcGGGUgGCCUGAgcaCGCCGa -3'
miRNA:   3'- ugUG-GGCC-CUCGgCGGACUa--GCGGUc -5'
30189 3' -62.1 NC_006273.1 + 83675 0.66 0.719798
Target:  5'- gGCGCCCuuccguccgcuggcgGuGGAGgacaaCCGCCUGGUgGCCAa -3'
miRNA:   3'- -UGUGGG---------------C-CCUC-----GGCGGACUAgCGGUc -5'
30189 3' -62.1 NC_006273.1 + 85748 0.66 0.716081
Target:  5'- cGCACCCGuaAGCCGUuuucgCUGccGUCGCCGu -3'
miRNA:   3'- -UGUGGGCccUCGGCG-----GAC--UAGCGGUc -5'
30189 3' -62.1 NC_006273.1 + 33065 0.67 0.706745
Target:  5'- cCGCCguCGGGuGCgCGCCUGcUCGUCAu -3'
miRNA:   3'- uGUGG--GCCCuCG-GCGGACuAGCGGUc -5'
30189 3' -62.1 NC_006273.1 + 185342 0.67 0.706745
Target:  5'- uCGCCCGGGAuGcCCGCaaCUGAgCGuCCGGu -3'
miRNA:   3'- uGUGGGCCCU-C-GGCG--GACUaGC-GGUC- -5'
30189 3' -62.1 NC_006273.1 + 119276 0.67 0.706745
Target:  5'- gGCugUCGGuguuccaaauGAaCgGCCUGAUCGCCGGu -3'
miRNA:   3'- -UGugGGCC----------CUcGgCGGACUAGCGGUC- -5'
30189 3' -62.1 NC_006273.1 + 213120 0.67 0.697354
Target:  5'- aGCGCaCCGacggcGGAGCCGCgUcGcUCGCCGGc -3'
miRNA:   3'- -UGUG-GGC-----CCUCGGCGgA-CuAGCGGUC- -5'
30189 3' -62.1 NC_006273.1 + 95295 0.67 0.687915
Target:  5'- aGCGCUCGGGgucgacggugGGCCGCCaUGAcaccucaaUUGCCGu -3'
miRNA:   3'- -UGUGGGCCC----------UCGGCGG-ACU--------AGCGGUc -5'
30189 3' -62.1 NC_006273.1 + 134860 0.67 0.678435
Target:  5'- -aGCCaGGuGAGCCGCCaggugaggcggGAUCGCCGu -3'
miRNA:   3'- ugUGGgCC-CUCGGCGGa----------CUAGCGGUc -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 + 141174 0.67 0.659383
Target:  5'- uGCGCCgGGGGGCgGCggGcaCGCCGGg -3'
miRNA:   3'- -UGUGGgCCCUCGgCGgaCuaGCGGUC- -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 + 123127 0.67 0.659383
Target:  5'- cGCACCCGGuccauGAGCaCGuCCUcg-CGCCAGc -3'
miRNA:   3'- -UGUGGGCC-----CUCG-GC-GGAcuaGCGGUC- -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 + 52527 0.68 0.646955
Target:  5'- gACugCUGGGGGCCGUugugCUGcagcagccgagcucGUCGCCGc -3'
miRNA:   3'- -UGugGGCCCUCGGCG----GAC--------------UAGCGGUc -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 + 62124 0.68 0.611536
Target:  5'- --uUCCGGGGGCCagcaGCCgcUGGUCcGCCGGg -3'
miRNA:   3'- uguGGGCCCUCGG----CGG--ACUAG-CGGUC- -5'
30189 3' -62.1 NC_006273.1 + 137177 0.69 0.577247
Target:  5'- -aGCCgGGGuGCCGCCgcUGccgcucagcgagcucGUCGCCAGc -3'
miRNA:   3'- ugUGGgCCCuCGGCGG--AC---------------UAGCGGUC- -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.