miRNA display CGI


Results 1 - 20 of 31 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
31121 3' -53.6 NC_006560.1 + 7980 1 0.017363
Target:  5'- cACAU-CACGAUCUGCUCAUGGCCUGCg -3'
miRNA:   3'- -UGUAcGUGCUAGACGAGUACCGGACG- -5'
31121 3' -53.6 NC_006560.1 + 23677 0.78 0.385248
Target:  5'- -gGUGCGCGAcgcgCUgacGCUCAUGcGCCUGCg -3'
miRNA:   3'- ugUACGUGCUa---GA---CGAGUAC-CGGACG- -5'
31121 3' -53.6 NC_006560.1 + 4136 0.77 0.438877
Target:  5'- ---cGCGCGGUCguagcggcgGCUCAUGGCCacgGCg -3'
miRNA:   3'- uguaCGUGCUAGa--------CGAGUACCGGa--CG- -5'
31121 3' -53.6 NC_006560.1 + 94282 0.73 0.651717
Target:  5'- cCGUGCGCGGUCUGCuUCGaGGagCUGUg -3'
miRNA:   3'- uGUACGUGCUAGACG-AGUaCCg-GACG- -5'
31121 3' -53.6 NC_006560.1 + 137526 0.72 0.683182
Target:  5'- cCAUGCGCGGcggGCUCAuguccgUGGCgCUGCa -3'
miRNA:   3'- uGUACGUGCUagaCGAGU------ACCG-GACG- -5'
31121 3' -53.6 NC_006560.1 + 48769 0.71 0.754573
Target:  5'- -gAUGCGCcagGAcCUGUUCGagGGCCUGCg -3'
miRNA:   3'- ugUACGUG---CUaGACGAGUa-CCGGACG- -5'
31121 3' -53.6 NC_006560.1 + 128059 0.71 0.77409
Target:  5'- cGCGUugACGcgCUGCUgAUGcGCCUGCu -3'
miRNA:   3'- -UGUAcgUGCuaGACGAgUAC-CGGACG- -5'
31121 3' -53.6 NC_006560.1 + 13182 0.7 0.808721
Target:  5'- cGCGUGCAUGAggaaccccaggucgUCcucGCUCGUGGCgCUGa -3'
miRNA:   3'- -UGUACGUGCU--------------AGa--CGAGUACCG-GACg -5'
31121 3' -53.6 NC_006560.1 + 51524 0.69 0.837662
Target:  5'- cGCGgcgGCGCGcgC-GCUCcUGGCCgGCg -3'
miRNA:   3'- -UGUa--CGUGCuaGaCGAGuACCGGaCG- -5'
31121 3' -53.6 NC_006560.1 + 105852 0.69 0.866766
Target:  5'- uCGUGCGCGcgCgcuacgggcugcgGUUCAUGGgCCUGUc -3'
miRNA:   3'- uGUACGUGCuaGa------------CGAGUACC-GGACG- -5'
31121 3' -53.6 NC_006560.1 + 108573 0.69 0.869827
Target:  5'- cACcUGCACGAaCUcGCUCAcGGUCgUGCg -3'
miRNA:   3'- -UGuACGUGCUaGA-CGAGUaCCGG-ACG- -5'
31121 3' -53.6 NC_006560.1 + 24639 0.68 0.877318
Target:  5'- cGCcgGCGCcGUCgaGUUCcugGGCCUGCu -3'
miRNA:   3'- -UGuaCGUGcUAGa-CGAGua-CCGGACG- -5'
31121 3' -53.6 NC_006560.1 + 102523 0.68 0.884578
Target:  5'- ---cGCuCGAUCUccaccggcaGCUCGgcGGCCUGCg -3'
miRNA:   3'- uguaCGuGCUAGA---------CGAGUa-CCGGACG- -5'
31121 3' -53.6 NC_006560.1 + 4333 0.68 0.8916
Target:  5'- ---cGCGCGGguUCUGCagccagccCAUGGCCUcGCg -3'
miRNA:   3'- uguaCGUGCU--AGACGa-------GUACCGGA-CG- -5'
31121 3' -53.6 NC_006560.1 + 18334 0.68 0.8916
Target:  5'- uCGUGCGCGcggccgacCUGCggcgCGUGGCC-GCg -3'
miRNA:   3'- uGUACGUGCua------GACGa---GUACCGGaCG- -5'
31121 3' -53.6 NC_006560.1 + 115810 0.68 0.8916
Target:  5'- cCGUGUACGAggcGCUCGUcGCCUGg -3'
miRNA:   3'- uGUACGUGCUagaCGAGUAcCGGACg -5'
31121 3' -53.6 NC_006560.1 + 107598 0.68 0.904916
Target:  5'- --uUGUACGAUUUGC-C-UGGUCUGUg -3'
miRNA:   3'- uguACGUGCUAGACGaGuACCGGACG- -5'
31121 3' -53.6 NC_006560.1 + 129831 0.67 0.928552
Target:  5'- gGCA-GCucuACGcgCUGCUCAUGGC--GCa -3'
miRNA:   3'- -UGUaCG---UGCuaGACGAGUACCGgaCG- -5'
31121 3' -53.6 NC_006560.1 + 18653 0.67 0.933828
Target:  5'- cGCGUGgGCGGagggggGCUCGUGGCCc-- -3'
miRNA:   3'- -UGUACgUGCUaga---CGAGUACCGGacg -5'
31121 3' -53.6 NC_006560.1 + 77877 0.67 0.933828
Target:  5'- gGCcgGgGCGAUcCUGUUCGUGcagcGCCUGa -3'
miRNA:   3'- -UGuaCgUGCUA-GACGAGUAC----CGGACg -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.