miRNA display CGI


Results 1 - 20 of 33 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
28406 3' -60.1 NC_005946.1 + 50037 0.66 0.666275
Target:  5'- cGGGACaguagccgcucUUGGCCAaguGAGGG-CUGCgaaaGCCg -3'
miRNA:   3'- uCCCUG-----------GACUGGU---CUCCCuGACG----CGG- -5'
28406 3' -60.1 NC_005946.1 + 36422 0.66 0.645927
Target:  5'- gAGGGACggaaggGGCaCGGAGGGAC-GCGg- -3'
miRNA:   3'- -UCCCUGga----CUG-GUCUCCCUGaCGCgg -5'
28406 3' -60.1 NC_005946.1 + 48929 0.66 0.625535
Target:  5'- cGGGuccCCUGGuCCAGucGGAUggagGCGUCa -3'
miRNA:   3'- uCCCu--GGACU-GGUCucCCUGa---CGCGG- -5'
28406 3' -60.1 NC_005946.1 + 8707 0.66 0.615343
Target:  5'- gAGaGGGCCUccACuCGGAGGGcCUGUGCa -3'
miRNA:   3'- -UC-CCUGGAc-UG-GUCUCCCuGACGCGg -5'
28406 3' -60.1 NC_005946.1 + 84831 0.66 0.615343
Target:  5'- uGGGAgUCUGACagguuCAG-GGGGCUGUGUUa -3'
miRNA:   3'- uCCCU-GGACUG-----GUCuCCCUGACGCGG- -5'
28406 3' -60.1 NC_005946.1 + 12227 0.67 0.605163
Target:  5'- cAGGGACgUGACacaggguaAGAGGGACaagGUGg- -3'
miRNA:   3'- -UCCCUGgACUGg-------UCUCCCUGa--CGCgg -5'
28406 3' -60.1 NC_005946.1 + 68554 0.67 0.584871
Target:  5'- gAGGGuCCUGGCCccAGGGcACU-CGCUu -3'
miRNA:   3'- -UCCCuGGACUGGucUCCC-UGAcGCGG- -5'
28406 3' -60.1 NC_005946.1 + 10306 0.67 0.574772
Target:  5'- gAGGGACuCUcucACCGGAucGGGA--GCGCCg -3'
miRNA:   3'- -UCCCUG-GAc--UGGUCU--CCCUgaCGCGG- -5'
28406 3' -60.1 NC_005946.1 + 60262 0.67 0.554702
Target:  5'- cAGGGGaaUGuCCAGGGGGGCagucUGCuGCUg -3'
miRNA:   3'- -UCCCUggACuGGUCUCCCUG----ACG-CGG- -5'
28406 3' -60.1 NC_005946.1 + 3074 0.68 0.534843
Target:  5'- gGGGGGCCUGugGCUggAGAGGGGa--CGCUg -3'
miRNA:   3'- -UCCCUGGAC--UGG--UCUCCCUgacGCGG- -5'
28406 3' -60.1 NC_005946.1 + 42388 0.68 0.534843
Target:  5'- uGGGACCUcugucucccggGACCAacGGGACccuuUGgGCCg -3'
miRNA:   3'- uCCCUGGA-----------CUGGUcuCCCUG----ACgCGG- -5'
28406 3' -60.1 NC_005946.1 + 2618 0.68 0.531885
Target:  5'- aGGGGcACCUgcggcaaggacuggGACCuGGGGGAgcagacgUGCGCCu -3'
miRNA:   3'- -UCCC-UGGA--------------CUGGuCUCCCUg------ACGCGG- -5'
28406 3' -60.1 NC_005946.1 + 71958 0.68 0.525007
Target:  5'- uGGGGCCUGAggaaCAGAgaguGGGACUaCGaCCu -3'
miRNA:   3'- uCCCUGGACUg---GUCU----CCCUGAcGC-GG- -5'
28406 3' -60.1 NC_005946.1 + 9076 0.68 0.495935
Target:  5'- -cGGACCUGGCCuG-GGGACccUGCGg- -3'
miRNA:   3'- ucCCUGGACUGGuCuCCCUG--ACGCgg -5'
28406 3' -60.1 NC_005946.1 + 2063 0.69 0.467613
Target:  5'- uGGGGAC----CCAGAGGGACa-CGCCg -3'
miRNA:   3'- -UCCCUGgacuGGUCUCCCUGacGCGG- -5'
28406 3' -60.1 NC_005946.1 + 14402 0.69 0.467613
Target:  5'- aAGGG-UCUGACCAGAGG--CUGCauaguccugGCCa -3'
miRNA:   3'- -UCCCuGGACUGGUCUCCcuGACG---------CGG- -5'
28406 3' -60.1 NC_005946.1 + 23791 0.69 0.467613
Target:  5'- gAGGGACUgcagGcCCAGGaGGAuCUGCGCg -3'
miRNA:   3'- -UCCCUGGa---CuGGUCUcCCU-GACGCGg -5'
28406 3' -60.1 NC_005946.1 + 14964 0.69 0.458358
Target:  5'- aGGGGGCg-GGgUAGAcGGGcACUGUGCCg -3'
miRNA:   3'- -UCCCUGgaCUgGUCU-CCC-UGACGCGG- -5'
28406 3' -60.1 NC_005946.1 + 41604 0.69 0.458358
Target:  5'- cGGGGCCggcggGACCAGAaGGACccaccccucCGCCg -3'
miRNA:   3'- uCCCUGGa----CUGGUCUcCCUGac-------GCGG- -5'
28406 3' -60.1 NC_005946.1 + 41498 0.69 0.449202
Target:  5'- -uGGACCUGugccGCCAcGGGGACccGCGUCa -3'
miRNA:   3'- ucCCUGGAC----UGGUcUCCCUGa-CGCGG- -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.