miRNA display CGI


Results 1 - 20 of 54 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
30654 5' -66.1 NC_006549.1 + 7047 0.66 0.458834
Target:  5'- -cGGaCCCCgC-GGACC-CCgcgGGCCCg -3'
miRNA:   3'- gaCC-GGGGgGuCCUGGaGGa--CCGGGg -5'
30654 5' -66.1 NC_006549.1 + 123849 0.66 0.458834
Target:  5'- -cGGCCUUCgAGGaaGCCUCUUcGGCCUUc -3'
miRNA:   3'- gaCCGGGGGgUCC--UGGAGGA-CCGGGG- -5'
30654 5' -66.1 NC_006549.1 + 123891 0.66 0.458834
Target:  5'- -cGGCCUUCgAGGaaGCCUCUUcGGCCUUc -3'
miRNA:   3'- gaCCGGGGGgUCC--UGGAGGA-CCGGGG- -5'
30654 5' -66.1 NC_006549.1 + 7149 0.66 0.450175
Target:  5'- -gGGCCCUCCGGGAgcggauacggUCUUguUUGGUUCCg -3'
miRNA:   3'- gaCCGGGGGGUCCU----------GGAG--GACCGGGG- -5'
30654 5' -66.1 NC_006549.1 + 49620 0.66 0.450175
Target:  5'- -aGGUCCUCUAGGcccggguuuGCC-CCUaGGCCCg -3'
miRNA:   3'- gaCCGGGGGGUCC---------UGGaGGA-CCGGGg -5'
30654 5' -66.1 NC_006549.1 + 50889 0.66 0.441606
Target:  5'- -gGGUCCUCUGGGGCCUUg-GGaCCCa -3'
miRNA:   3'- gaCCGGGGGGUCCUGGAGgaCCgGGG- -5'
30654 5' -66.1 NC_006549.1 + 41332 0.66 0.43313
Target:  5'- -aGGCCUCCgGGGAaacag-GGCCCCu -3'
miRNA:   3'- gaCCGGGGGgUCCUggaggaCCGGGG- -5'
30654 5' -66.1 NC_006549.1 + 50226 0.66 0.43313
Target:  5'- -gGGCCCUuggacgCCAGGAgcgcccauaUCUCCgauUGGUCCCc -3'
miRNA:   3'- gaCCGGGG------GGUCCU---------GGAGG---ACCGGGG- -5'
30654 5' -66.1 NC_006549.1 + 101926 0.66 0.43313
Target:  5'- cCUGGagaCCCgGGGGCC-CUgcaGGCCCUg -3'
miRNA:   3'- -GACCgg-GGGgUCCUGGaGGa--CCGGGG- -5'
30654 5' -66.1 NC_006549.1 + 41739 0.66 0.424749
Target:  5'- uCUGGCaagacuggaCCCAGGGgCgcCCgcgGGCCCCc -3'
miRNA:   3'- -GACCGgg-------GGGUCCUgGa-GGa--CCGGGG- -5'
30654 5' -66.1 NC_006549.1 + 123786 0.66 0.424749
Target:  5'- -cGGCCUUCgAGGaagccucuguuGCCUUCUGGCCagCCu -3'
miRNA:   3'- gaCCGGGGGgUCC-----------UGGAGGACCGG--GG- -5'
30654 5' -66.1 NC_006549.1 + 122905 0.66 0.424749
Target:  5'- -cGGCCUUCgAGGaagcguccgugGCCUUCUGGCCagCCu -3'
miRNA:   3'- gaCCGGGGGgUCC-----------UGGAGGACCGG--GG- -5'
30654 5' -66.1 NC_006549.1 + 6647 0.67 0.392221
Target:  5'- gCUGGCgaUCCGGGuCCUCCcgGGCCg- -3'
miRNA:   3'- -GACCGggGGGUCCuGGAGGa-CCGGgg -5'
30654 5' -66.1 NC_006549.1 + 50561 0.67 0.392221
Target:  5'- -gGGCCaaCCu-GACCUUgaGGCCCCg -3'
miRNA:   3'- gaCCGGggGGucCUGGAGgaCCGGGG- -5'
30654 5' -66.1 NC_006549.1 + 49813 0.67 0.384346
Target:  5'- uUGGUCCCgUGGGcCCagCUGGgCCCa -3'
miRNA:   3'- gACCGGGGgGUCCuGGagGACCgGGG- -5'
30654 5' -66.1 NC_006549.1 + 50375 0.67 0.383564
Target:  5'- uCUGGCCCgggaggaCCCucuGGGCCgUCC--GCCCCc -3'
miRNA:   3'- -GACCGGG-------GGGu--CCUGG-AGGacCGGGG- -5'
30654 5' -66.1 NC_006549.1 + 122968 0.67 0.376576
Target:  5'- -cGGCCUUCgAGGaagcguccgugGCCUUCUGGUCCg -3'
miRNA:   3'- gaCCGGGGGgUCC-----------UGGAGGACCGGGg -5'
30654 5' -66.1 NC_006549.1 + 122737 0.67 0.376576
Target:  5'- -cGGCCUUCgAGGaagcguccgugGCCUUCUGGUCCg -3'
miRNA:   3'- gaCCGGGGGgUCC-----------UGGAGGACCGGGg -5'
30654 5' -66.1 NC_006549.1 + 122653 0.67 0.376576
Target:  5'- -cGGCCUUCgAGGaagcguccgugGCCUUCUGGUCCg -3'
miRNA:   3'- gaCCGGGGGgUCC-----------UGGAGGACCGGGg -5'
30654 5' -66.1 NC_006549.1 + 123303 0.67 0.376576
Target:  5'- -cGGCCUUCgAGGaagcguccgugGCCUUCUGGUCCg -3'
miRNA:   3'- gaCCGGGGGgUCC-----------UGGAGGACCGGGg -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.