miRNA display CGI


Results 1 - 20 of 24 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
2935 3' -56.5 NC_001493.1 + 24609 0.7 0.661018
Target:  5'- uCGCCGaugaUGGUGAUgAUgGUGAUGGUGAu -3'
miRNA:   3'- -GUGGC----ACCACUGaUGgCGCUGCCACU- -5'
2935 3' -56.5 NC_001493.1 + 44051 0.72 0.569676
Target:  5'- gCACCGUGGUGACggccccucagACCGUcGCGGcccagGAg -3'
miRNA:   3'- -GUGGCACCACUGa---------UGGCGcUGCCa----CU- -5'
2935 3' -56.5 NC_001493.1 + 46202 0.66 0.862433
Target:  5'- -uUCGUGGUcACcACCGCGGCauccuugGGUGAg -3'
miRNA:   3'- guGGCACCAcUGaUGGCGCUG-------CCACU- -5'
2935 3' -56.5 NC_001493.1 + 59233 0.68 0.769367
Target:  5'- gCAUCGUGGaGAUU-CgCGCGAcCGGUGAu -3'
miRNA:   3'- -GUGGCACCaCUGAuG-GCGCU-GCCACU- -5'
2935 3' -56.5 NC_001493.1 + 59822 0.68 0.769367
Target:  5'- gCGCCGaUGGguucacgcaaGCUAUCGgGACGGUGGu -3'
miRNA:   3'- -GUGGC-ACCac--------UGAUGGCgCUGCCACU- -5'
2935 3' -56.5 NC_001493.1 + 63153 1.09 0.002515
Target:  5'- aCACCGUGGUGACUACCGCGACGGUGAa -3'
miRNA:   3'- -GUGGCACCACUGAUGGCGCUGCCACU- -5'
2935 3' -56.5 NC_001493.1 + 63234 0.76 0.344292
Target:  5'- aCACCGUGGUGACcACCGCacCGGcGAc -3'
miRNA:   3'- -GUGGCACCACUGaUGGCGcuGCCaCU- -5'
2935 3' -56.5 NC_001493.1 + 63324 0.7 0.648821
Target:  5'- aCACCGUGGUGACcAccacaccggcgaagcCCGCGGgagcgaacggcaccgUGGUGAc -3'
miRNA:   3'- -GUGGCACCACUGaU---------------GGCGCU---------------GCCACU- -5'
2935 3' -56.5 NC_001493.1 + 63413 0.7 0.646785
Target:  5'- aCACCGUGGUGACcaccacaccggcgaUGCCcacgggaGCGACcgcaccguGGUGAc -3'
miRNA:   3'- -GUGGCACCACUG--------------AUGG-------CGCUG--------CCACU- -5'
2935 3' -56.5 NC_001493.1 + 63458 0.69 0.740763
Target:  5'- aCACCGUGGUGACcACCacaccgGCGAugcccaCGG-GAg -3'
miRNA:   3'- -GUGGCACCACUGaUGG------CGCU------GCCaCU- -5'
2935 3' -56.5 NC_001493.1 + 63539 0.69 0.731029
Target:  5'- aCACCGUGGUGACcACCacaccgGCGaugcccGCGG-GAg -3'
miRNA:   3'- -GUGGCACCACUGaUGG------CGC------UGCCaCU- -5'
2935 3' -56.5 NC_001493.1 + 63584 0.66 0.866185
Target:  5'- uCGCCGUGGUGAUauUCGCGgugucguuggcucccGCGGg-- -3'
miRNA:   3'- -GUGGCACCACUGauGGCGC---------------UGCCacu -5'
2935 3' -56.5 NC_001493.1 + 63626 0.66 0.863188
Target:  5'- uCGCCGgugUGGUGGucACCGCGgugccguucGCGGUGu -3'
miRNA:   3'- -GUGGC---ACCACUgaUGGCGC---------UGCCACu -5'
2935 3' -56.5 NC_001493.1 + 63662 0.69 0.740763
Target:  5'- aCACCGUGGUGACcACCacaccgGCGAugcccaCGG-GAg -3'
miRNA:   3'- -GUGGCACCACUGaUGG------CGCU------GCCaCU- -5'
2935 3' -56.5 NC_001493.1 + 63830 0.66 0.860918
Target:  5'- uCGCCGUGGUGAUauucgcggugucguUGgcucCCGCGGgcgugccgUGGUGAu -3'
miRNA:   3'- -GUGGCACCACUG--------------AU----GGCGCU--------GCCACU- -5'
2935 3' -56.5 NC_001493.1 + 63842 0.69 0.731029
Target:  5'- aCACCGUGGUGACcACCacaccgGCGaugcccGCGG-GAg -3'
miRNA:   3'- -GUGGCACCACUGaUGG------CGC------UGCCaCU- -5'
2935 3' -56.5 NC_001493.1 + 63913 0.66 0.866185
Target:  5'- uCGCCGUGGUGAUauUCGCGgugucguuggcucccGCGGg-- -3'
miRNA:   3'- -GUGGCACCACUGauGGCGC---------------UGCCacu -5'
2935 3' -56.5 NC_001493.1 + 63944 0.66 0.890279
Target:  5'- aCACCGcGGUGACcAccacaucggcgacgcCCGCGggagccaacgacaccGCGGUGAc -3'
miRNA:   3'- -GUGGCaCCACUGaU---------------GGCGC---------------UGCCACU- -5'
2935 3' -56.5 NC_001493.1 + 66137 0.66 0.876409
Target:  5'- aGCgG-GGUGACUcgaugggaacauCCGCGACGGUc- -3'
miRNA:   3'- gUGgCaCCACUGAu-----------GGCGCUGCCAcu -5'
2935 3' -56.5 NC_001493.1 + 85804 0.72 0.54968
Target:  5'- aCACCgGUGG-GACcGCCGCGGCauaaaacucGGUGAu -3'
miRNA:   3'- -GUGG-CACCaCUGaUGGCGCUG---------CCACU- -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.