miRNA display CGI


Results 1 - 18 of 18 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
29930 3' -48.9 NC_006273.1 + 63059 0.66 0.999692
Target:  5'- aAGUGAacAGAgugAUGAGGaacaGGAggaGGGUGCu -3'
miRNA:   3'- -UCACU--UCU---UACUCCa---CCUag-UCCAUG- -5'
29930 3' -48.9 NC_006273.1 + 57177 0.66 0.999613
Target:  5'- --cGGAcAAUGAGGaGGAccccaUCAGGUACu -3'
miRNA:   3'- ucaCUUcUUACUCCaCCU-----AGUCCAUG- -5'
29930 3' -48.9 NC_006273.1 + 120350 0.66 0.999613
Target:  5'- --cGAaggcGGGAUGGGGggaGGGUCAGGggaUGCg -3'
miRNA:   3'- ucaCU----UCUUACUCCa--CCUAGUCC---AUG- -5'
29930 3' -48.9 NC_006273.1 + 160499 0.67 0.999401
Target:  5'- cGUGcAGGAUGAcGUGGAUUcuccGGUGCc -3'
miRNA:   3'- uCACuUCUUACUcCACCUAGu---CCAUG- -5'
29930 3' -48.9 NC_006273.1 + 115551 0.67 0.999401
Target:  5'- --aGGAGGAUGGGGgggaccgGGGUgGuGGUGCu -3'
miRNA:   3'- ucaCUUCUUACUCCa------CCUAgU-CCAUG- -5'
29930 3' -48.9 NC_006273.1 + 211369 0.67 0.999261
Target:  5'- uGGUGAaaAGGAUGAGaauGAgCAGGUACa -3'
miRNA:   3'- -UCACU--UCUUACUCcacCUaGUCCAUG- -5'
29930 3' -48.9 NC_006273.1 + 126635 0.68 0.997692
Target:  5'- uGGUGggGuuUGAguagaaacGGUGGAa-AGGUACg -3'
miRNA:   3'- -UCACuuCuuACU--------CCACCUagUCCAUG- -5'
29930 3' -48.9 NC_006273.1 + 141698 0.68 0.99726
Target:  5'- aAGggGggGggUGAGGggggGGGUUAcGGUGg -3'
miRNA:   3'- -UCa-CuuCuuACUCCa---CCUAGU-CCAUg -5'
29930 3' -48.9 NC_006273.1 + 109525 0.69 0.996764
Target:  5'- uGGUGGAGAca-GGGUaGGAgauaccuuugaUCAGGUACu -3'
miRNA:   3'- -UCACUUCUuacUCCA-CCU-----------AGUCCAUG- -5'
29930 3' -48.9 NC_006273.1 + 195886 0.69 0.996764
Target:  5'- cGGUGAcAGAagGAGGUGGc-CAcGGUGCc -3'
miRNA:   3'- -UCACU-UCUuaCUCCACCuaGU-CCAUG- -5'
29930 3' -48.9 NC_006273.1 + 26811 0.7 0.993043
Target:  5'- gGGUGggGAcgGGGGacgcgguagGGAgcaaaacCGGGUACa -3'
miRNA:   3'- -UCACuuCUuaCUCCa--------CCUa------GUCCAUG- -5'
29930 3' -48.9 NC_006273.1 + 188424 0.7 0.993043
Target:  5'- uGGUGAAGGgcgGUG-GGUGGAacagCAGGUu- -3'
miRNA:   3'- -UCACUUCU---UACuCCACCUa---GUCCAug -5'
29930 3' -48.9 NC_006273.1 + 156470 0.71 0.986498
Target:  5'- aAGUGGAGGGcgccucgggucUGAGcaugaagggcGUGGAUCuGGUGCg -3'
miRNA:   3'- -UCACUUCUU-----------ACUC----------CACCUAGuCCAUG- -5'
29930 3' -48.9 NC_006273.1 + 100812 0.71 0.980752
Target:  5'- cGGUGggGAccuUGAGGUcggcgGGGUaGGGUGCc -3'
miRNA:   3'- -UCACuuCUu--ACUCCA-----CCUAgUCCAUG- -5'
29930 3' -48.9 NC_006273.1 + 130572 0.71 0.97848
Target:  5'- aAGUGggGGAggggGAaacGGUGGAaaUCAGGgACa -3'
miRNA:   3'- -UCACuuCUUa---CU---CCACCU--AGUCCaUG- -5'
29930 3' -48.9 NC_006273.1 + 167707 0.72 0.967388
Target:  5'- --cGAGGGAggagGAGGUGGuggUGGGUACg -3'
miRNA:   3'- ucaCUUCUUa---CUCCACCua-GUCCAUG- -5'
29930 3' -48.9 NC_006273.1 + 198011 0.76 0.870457
Target:  5'- uGUGGAGGAcGGGGUGGAgCGGGUcGCc -3'
miRNA:   3'- uCACUUCUUaCUCCACCUaGUCCA-UG- -5'
29930 3' -48.9 NC_006273.1 + 64406 1.12 0.013873
Target:  5'- aAGUGAAGAAUGAGGUGGAUCAGGUACg -3'
miRNA:   3'- -UCACUUCUUACUCCACCUAGUCCAUG- -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.