miRNA display CGI


Results 21 - 40 of 65 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
13311 3' -53.5 NC_003409.1 + 49877 0.66 0.939418
Target:  5'- -aACGCGGCgGUCgaagGCAaCAGCAGCCa -3'
miRNA:   3'- ucUGUGUCGaCAG----UGUgGUUGUCGGg -5'
13311 3' -53.5 NC_003409.1 + 85319 0.66 0.939418
Target:  5'- cGGCAUAGCUGUgCuuACCAcuggacauuGCGGCgCg -3'
miRNA:   3'- uCUGUGUCGACA-GugUGGU---------UGUCGgG- -5'
13311 3' -53.5 NC_003409.1 + 50170 0.67 0.934423
Target:  5'- uGACACAGUuugacaugUGUCggguagACACC-ACcGCCCa -3'
miRNA:   3'- uCUGUGUCG--------ACAG------UGUGGuUGuCGGG- -5'
13311 3' -53.5 NC_003409.1 + 109856 0.67 0.917918
Target:  5'- aAGugACGGCc--CACACCAagACGGCUa -3'
miRNA:   3'- -UCugUGUCGacaGUGUGGU--UGUCGGg -5'
13311 3' -53.5 NC_003409.1 + 99602 0.67 0.91191
Target:  5'- cGGACAacucgcCAGCUGUUuauUCuGCAGCCCu -3'
miRNA:   3'- -UCUGU------GUCGACAGuguGGuUGUCGGG- -5'
13311 3' -53.5 NC_003409.1 + 96074 0.68 0.899142
Target:  5'- uGGGCGUGGUg--CACACCGAC-GCCCu -3'
miRNA:   3'- -UCUGUGUCGacaGUGUGGUUGuCGGG- -5'
13311 3' -53.5 NC_003409.1 + 133634 0.68 0.895118
Target:  5'- cAGACACAGggggcccucaccggcCUGUaugcCACCGAacCGGCCCu -3'
miRNA:   3'- -UCUGUGUC---------------GACAgu--GUGGUU--GUCGGG- -5'
13311 3' -53.5 NC_003409.1 + 119228 0.68 0.892387
Target:  5'- aAGGCAaccuCAGCUGggaAUACCAGCGGacuaccCCCa -3'
miRNA:   3'- -UCUGU----GUCGACag-UGUGGUUGUC------GGG- -5'
13311 3' -53.5 NC_003409.1 + 95582 0.71 0.773233
Target:  5'- cAGAgGCAGCguccucagaggcGUC-CuCCAGCGGCCCa -3'
miRNA:   3'- -UCUgUGUCGa-----------CAGuGuGGUUGUCGGG- -5'
13311 3' -53.5 NC_003409.1 + 109742 0.7 0.812441
Target:  5'- ---gGCAGCUGUgGucCACCuuGCGGCCCc -3'
miRNA:   3'- ucugUGUCGACAgU--GUGGu-UGUCGGG- -5'
13311 3' -53.5 NC_003409.1 + 23579 0.69 0.830078
Target:  5'- -aGCGCAGCUGaguCAUCG-CAGCCCc -3'
miRNA:   3'- ucUGUGUCGACaguGUGGUuGUCGGG- -5'
13311 3' -53.5 NC_003409.1 + 70541 0.69 0.863774
Target:  5'- gGGGCGCGGCagcugacucaaaaagGUCACugCcuCuGCCCa -3'
miRNA:   3'- -UCUGUGUCGa--------------CAGUGugGuuGuCGGG- -5'
13311 3' -53.5 NC_003409.1 + 23752 0.68 0.892388
Target:  5'- aAGGCAaccuCAGCUGggaAUACCAGCGGacuaccCCCa -3'
miRNA:   3'- -UCUGU----GUCGACag-UGUGGUUGUC------GGG- -5'
13311 3' -53.5 NC_003409.1 + 92369 0.71 0.765475
Target:  5'- gGGGCACaAGCuUGUCAC-CCAcuuuguaaAUAGCCUg -3'
miRNA:   3'- -UCUGUG-UCG-ACAGUGuGGU--------UGUCGGG- -5'
13311 3' -53.5 NC_003409.1 + 32677 0.71 0.765475
Target:  5'- gAGAUGCuGCUGUgugaggCAUACCGggACAGCCUc -3'
miRNA:   3'- -UCUGUGuCGACA------GUGUGGU--UGUCGGG- -5'
13311 3' -53.5 NC_003409.1 + 59403 0.71 0.735708
Target:  5'- uGACACgagcacguaaaAGCUGUU--GCCAACGGCCa -3'
miRNA:   3'- uCUGUG-----------UCGACAGugUGGUUGUCGGg -5'
13311 3' -53.5 NC_003409.1 + 19288 0.71 0.725581
Target:  5'- cGuCGCAGCgg-CAagGCCAGCGGCCCc -3'
miRNA:   3'- uCuGUGUCGacaGUg-UGGUUGUCGGG- -5'
13311 3' -53.5 NC_003409.1 + 41870 0.72 0.715368
Target:  5'- gGGACACgAGCUGguuuagaGCCAGCugaaAGCCCa -3'
miRNA:   3'- -UCUGUG-UCGACagug---UGGUUG----UCGGG- -5'
13311 3' -53.5 NC_003409.1 + 33445 0.73 0.663374
Target:  5'- gGGACACGGUcGaUCGCGCCucgagGGCGGCCa -3'
miRNA:   3'- -UCUGUGUCGaC-AGUGUGG-----UUGUCGGg -5'
13311 3' -53.5 NC_003409.1 + 106236 0.66 0.956906
Target:  5'- uGcCACuGCUGagcaUCACcuuACCAACGuGCCCa -3'
miRNA:   3'- uCuGUGuCGAC----AGUG---UGGUUGU-CGGG- -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.