miRNA display CGI


Results 1 - 19 of 19 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
29623 5' -46.2 NC_006151.1 + 24347 0.66 0.99993
Target:  5'- gCAUCUCCCCGuu-GAUCgCGGGc-- -3'
miRNA:   3'- gGUAGAGGGGUuuuUUAGaGUCUcug -5'
29623 5' -46.2 NC_006151.1 + 68823 0.66 0.99991
Target:  5'- aCCAUCUCCCgCGccggcgugugCUC-GAGGCg -3'
miRNA:   3'- -GGUAGAGGG-GUuuuuua----GAGuCUCUG- -5'
29623 5' -46.2 NC_006151.1 + 109073 0.66 0.999908
Target:  5'- gCCGUCcccgCCCCc-GGAGUCggcccCGGAGGCc -3'
miRNA:   3'- -GGUAGa---GGGGuuUUUUAGa----GUCUCUG- -5'
29623 5' -46.2 NC_006151.1 + 42765 0.66 0.999908
Target:  5'- cCCcUCUCCCCGGGGGGU----GGGACg -3'
miRNA:   3'- -GGuAGAGGGGUUUUUUAgaguCUCUG- -5'
29623 5' -46.2 NC_006151.1 + 140991 0.67 0.999879
Target:  5'- cCCAUCUCCCCc----GUCgCAacaccacacgcGAGACg -3'
miRNA:   3'- -GGUAGAGGGGuuuuuUAGaGU-----------CUCUG- -5'
29623 5' -46.2 NC_006151.1 + 93347 0.67 0.999842
Target:  5'- cCCGUCccacccucgCCCCAAGGAugacggC-CGGAGGCg -3'
miRNA:   3'- -GGUAGa--------GGGGUUUUUua----GaGUCUCUG- -5'
29623 5' -46.2 NC_006151.1 + 80573 0.67 0.999837
Target:  5'- gCCGUCUCCCCGA-------CGGAcGGCg -3'
miRNA:   3'- -GGUAGAGGGGUUuuuuagaGUCU-CUG- -5'
29623 5' -46.2 NC_006151.1 + 125009 0.67 0.999664
Target:  5'- gCGUC-CUCCGcGAGGcCUCGGAGGCc -3'
miRNA:   3'- gGUAGaGGGGUuUUUUaGAGUCUCUG- -5'
29623 5' -46.2 NC_006151.1 + 37414 0.67 0.999664
Target:  5'- gCCGgggaCUCCCgCGAGGGG-CUCuGGGACg -3'
miRNA:   3'- -GGUa---GAGGG-GUUUUUUaGAGuCUCUG- -5'
29623 5' -46.2 NC_006151.1 + 29947 0.68 0.999613
Target:  5'- uCCAUCUCUCCuggccgagCUCGGAccgcGGCg -3'
miRNA:   3'- -GGUAGAGGGGuuuuuua-GAGUCU----CUG- -5'
29623 5' -46.2 NC_006151.1 + 80639 0.68 0.999317
Target:  5'- cCCGUCUCCCCcgcgcccgacaagGAAAAAcacgCgcacgCAGAGAg -3'
miRNA:   3'- -GGUAGAGGGG-------------UUUUUUa---Ga----GUCUCUg -5'
29623 5' -46.2 NC_006151.1 + 124013 0.69 0.998936
Target:  5'- gCguUCUCCCCcggccc-CUCGGAGGCc -3'
miRNA:   3'- -GguAGAGGGGuuuuuuaGAGUCUCUG- -5'
29623 5' -46.2 NC_006151.1 + 8188 0.69 0.998476
Target:  5'- gCCGggaCCCCGGGGGcgCUCcgGGAGACg -3'
miRNA:   3'- -GGUagaGGGGUUUUUuaGAG--UCUCUG- -5'
29623 5' -46.2 NC_006151.1 + 49711 0.69 0.998476
Target:  5'- aCCccCUCCCCGGGAGGgggugCUCGGgagcgaAGACg -3'
miRNA:   3'- -GGuaGAGGGGUUUUUUa----GAGUC------UCUG- -5'
29623 5' -46.2 NC_006151.1 + 10764 0.69 0.998155
Target:  5'- uCCGUCUCCCUcgccu-UCUCcguuuuggggGGAGACc -3'
miRNA:   3'- -GGUAGAGGGGuuuuuuAGAG----------UCUCUG- -5'
29623 5' -46.2 NC_006151.1 + 52195 0.7 0.995574
Target:  5'- gCGg--CCCCGAAGAG-CUCGGAGAg -3'
miRNA:   3'- gGUagaGGGGUUUUUUaGAGUCUCUg -5'
29623 5' -46.2 NC_006151.1 + 12693 0.7 0.994807
Target:  5'- uCCGUcCUCCCCAuuc-AUCUuuuuucCAGAGGCc -3'
miRNA:   3'- -GGUA-GAGGGGUuuuuUAGA------GUCUCUG- -5'
29623 5' -46.2 NC_006151.1 + 22804 0.72 0.985964
Target:  5'- gCCGUCUCCCCGGcc-GUCaggugCAGGGGg -3'
miRNA:   3'- -GGUAGAGGGGUUuuuUAGa----GUCUCUg -5'
29623 5' -46.2 NC_006151.1 + 1516 1.13 0.014361
Target:  5'- uCCAUCUCCCCAAAAAAUCUCAGAGACu -3'
miRNA:   3'- -GGUAGAGGGGUUUUUUAGAGUCUCUG- -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.