miRNA display CGI


Results 1 - 20 of 25 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
30539 3' -54.7 NC_006548.1 + 1681 0.66 0.638597
Target:  5'- aAGCUgCAUUggGCCG-GGGCGgagagAGUuaUCGGCu -3'
miRNA:   3'- -UCGA-GUAG--CGGCuCCCGU-----UCA--AGUCG- -5'
30539 3' -54.7 NC_006548.1 + 29729 0.66 0.638597
Target:  5'- cGGCU--UCGCCGAGGGUGgccagguccguGGUcCAGg -3'
miRNA:   3'- -UCGAguAGCGGCUCCCGU-----------UCAaGUCg -5'
30539 3' -54.7 NC_006548.1 + 28380 0.66 0.637454
Target:  5'- uGC-CAUCGCuCGGGaaaccgaguacauGGCAagGGUUCAGUc -3'
miRNA:   3'- uCGaGUAGCG-GCUC-------------CCGU--UCAAGUCG- -5'
30539 3' -54.7 NC_006548.1 + 18555 0.66 0.62717
Target:  5'- cGCagAcCGuuGAGGGCAugAGcgCAGCu -3'
miRNA:   3'- uCGagUaGCggCUCCCGU--UCaaGUCG- -5'
30539 3' -54.7 NC_006548.1 + 7321 0.66 0.62717
Target:  5'- cAGCUaCAgagCGCCGgucaGGGGCAGcGcaCGGCg -3'
miRNA:   3'- -UCGA-GUa--GCGGC----UCCCGUU-CaaGUCG- -5'
30539 3' -54.7 NC_006548.1 + 28779 0.66 0.615749
Target:  5'- uGCUCG-CGCCGccuGGGCGAcccuGgaugCGGCa -3'
miRNA:   3'- uCGAGUaGCGGCu--CCCGUU----Caa--GUCG- -5'
30539 3' -54.7 NC_006548.1 + 32742 0.66 0.604343
Target:  5'- cGGCUUcgaaugaaCGCCGGGGuGaCAGGcgCAGCg -3'
miRNA:   3'- -UCGAGua------GCGGCUCC-C-GUUCaaGUCG- -5'
30539 3' -54.7 NC_006548.1 + 25638 0.66 0.592963
Target:  5'- uGGCau-UCGCCGGGGGaGAGga-AGCa -3'
miRNA:   3'- -UCGaguAGCGGCUCCCgUUCaagUCG- -5'
30539 3' -54.7 NC_006548.1 + 22902 0.67 0.559074
Target:  5'- uGGCgauucaGUCGCgCGGcGGCGAGUUgGGCc -3'
miRNA:   3'- -UCGag----UAGCG-GCUcCCGUUCAAgUCG- -5'
30539 3' -54.7 NC_006548.1 + 8001 0.67 0.559074
Target:  5'- gAGUgaaGUCGCCGuGGGGCucaugcucuUUCAGCa -3'
miRNA:   3'- -UCGag-UAGCGGC-UCCCGuuc------AAGUCG- -5'
30539 3' -54.7 NC_006548.1 + 120 0.67 0.546777
Target:  5'- cGGCUCAUUcgGCCGGGucaaaaaGGCccaacugaucGGUUCGGCg -3'
miRNA:   3'- -UCGAGUAG--CGGCUC-------CCGu---------UCAAGUCG- -5'
30539 3' -54.7 NC_006548.1 + 13362 0.67 0.546777
Target:  5'- cGGCgggCAaaccggCGCCGAGGGCGGuGUUgaagucgcgcaccCAGCc -3'
miRNA:   3'- -UCGa--GUa-----GCGGCUCCCGUU-CAA-------------GUCG- -5'
30539 3' -54.7 NC_006548.1 + 20866 0.68 0.503954
Target:  5'- gAGU---UCGCCGAGGGCGA---CGGCc -3'
miRNA:   3'- -UCGaguAGCGGCUCCCGUUcaaGUCG- -5'
30539 3' -54.7 NC_006548.1 + 22128 0.68 0.503954
Target:  5'- -cCUCGUCGCCGAGGGagccGUUauauGCc -3'
miRNA:   3'- ucGAGUAGCGGCUCCCguu-CAAgu--CG- -5'
30539 3' -54.7 NC_006548.1 + 36806 0.69 0.461612
Target:  5'- uGCgagCGUCGCCGAGcuGGUGcGGcUCAGCa -3'
miRNA:   3'- uCGa--GUAGCGGCUC--CCGU-UCaAGUCG- -5'
30539 3' -54.7 NC_006548.1 + 8207 0.69 0.441155
Target:  5'- gAGCaCAgUGCCGAGgucauGGCGcAGUUCGGCg -3'
miRNA:   3'- -UCGaGUaGCGGCUC-----CCGU-UCAAGUCG- -5'
30539 3' -54.7 NC_006548.1 + 17612 0.69 0.431121
Target:  5'- aGGC-CAUgGCCGAgGGGCuGGaggCAGCu -3'
miRNA:   3'- -UCGaGUAgCGGCU-CCCGuUCaa-GUCG- -5'
30539 3' -54.7 NC_006548.1 + 12408 0.7 0.373857
Target:  5'- cGGCUgGUuggUGCCGAGGGCGgccggauacAGgcCGGCg -3'
miRNA:   3'- -UCGAgUA---GCGGCUCCCGU---------UCaaGUCG- -5'
30539 3' -54.7 NC_006548.1 + 12335 0.71 0.355949
Target:  5'- aGGCcCugugCGCCGAcGGGCGAGcgggcaUCAGCa -3'
miRNA:   3'- -UCGaGua--GCGGCU-CCCGUUCa-----AGUCG- -5'
30539 3' -54.7 NC_006548.1 + 18221 0.71 0.347224
Target:  5'- gAGCUggCAUCGCU--GGGCAAGgaCGGCc -3'
miRNA:   3'- -UCGA--GUAGCGGcuCCCGUUCaaGUCG- -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.