miRNA display CGI


Results 1 - 20 of 28 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
7114 3' -59 NC_001895.1 + 1392 0.66 0.408268
Target:  5'- gCGCCACCuAUgagGCCAGccgcagcgaggaAGCCaGCCacGCCg -3'
miRNA:   3'- gGUGGUGG-UGa--UGGUC------------UCGG-CGG--CGG- -5'
7114 3' -59 NC_001895.1 + 10489 0.66 0.408268
Target:  5'- uCCugCgcgaugggucaGCCACUgaaGCCAGucgguGCacauGCCGCCg -3'
miRNA:   3'- -GGugG-----------UGGUGA---UGGUCu----CGg---CGGCGG- -5'
7114 3' -59 NC_001895.1 + 1306 0.66 0.389892
Target:  5'- cUCACCGCCGgUAUCAGcaCC-CCGCUg -3'
miRNA:   3'- -GGUGGUGGUgAUGGUCucGGcGGCGG- -5'
7114 3' -59 NC_001895.1 + 25013 0.66 0.389892
Target:  5'- cUCACCAaagaauaacuCCGCUucaAUCAGGGCUguaaacauGCCGCUa -3'
miRNA:   3'- -GGUGGU----------GGUGA---UGGUCUCGG--------CGGCGG- -5'
7114 3' -59 NC_001895.1 + 21665 0.66 0.372065
Target:  5'- aCCACgGCCACaACCGGccAGCUaauaGCC-CCg -3'
miRNA:   3'- -GGUGgUGGUGaUGGUC--UCGG----CGGcGG- -5'
7114 3' -59 NC_001895.1 + 13690 0.67 0.338111
Target:  5'- --uUCGggUCAUUGcCCAGcGCCGCCGCCa -3'
miRNA:   3'- gguGGU--GGUGAU-GGUCuCGGCGGCGG- -5'
7114 3' -59 NC_001895.1 + 6495 0.67 0.329982
Target:  5'- gCGCCACCGC--CCAGcGCauaucCCGCCa -3'
miRNA:   3'- gGUGGUGGUGauGGUCuCGgc---GGCGG- -5'
7114 3' -59 NC_001895.1 + 2910 0.67 0.321999
Target:  5'- gCACggaaaACCcCUGCCAGuacAGCagCGCCGCCu -3'
miRNA:   3'- gGUGg----UGGuGAUGGUC---UCG--GCGGCGG- -5'
7114 3' -59 NC_001895.1 + 11883 0.68 0.306467
Target:  5'- -gGCCgACCGCgugACCGuGcAGuCUGCCGCCa -3'
miRNA:   3'- ggUGG-UGGUGa--UGGU-C-UC-GGCGGCGG- -5'
7114 3' -59 NC_001895.1 + 5977 0.68 0.306467
Target:  5'- uUCACCGUCACUgACCGGcguGCCGCC-CUg -3'
miRNA:   3'- -GGUGGUGGUGA-UGGUCu--CGGCGGcGG- -5'
7114 3' -59 NC_001895.1 + 13581 0.68 0.298918
Target:  5'- -uGCCGCC-CUugUAGAcUCGUCGCCu -3'
miRNA:   3'- ggUGGUGGuGAugGUCUcGGCGGCGG- -5'
7114 3' -59 NC_001895.1 + 7680 0.68 0.291515
Target:  5'- aCCACCggcaACCACa--CAGAuaaCCGUCGCCa -3'
miRNA:   3'- -GGUGG----UGGUGaugGUCUc--GGCGGCGG- -5'
7114 3' -59 NC_001895.1 + 21155 0.68 0.284256
Target:  5'- gCCAgCucaGCCGCUGCCGugcuGAuGaCUGCCGCCu -3'
miRNA:   3'- -GGUgG---UGGUGAUGGU----CU-C-GGCGGCGG- -5'
7114 3' -59 NC_001895.1 + 4655 0.69 0.26879
Target:  5'- aCGCCGCCGgUGCUucauugcGGuauuucugcagccAGCCGaCCGCCa -3'
miRNA:   3'- gGUGGUGGUgAUGG-------UC-------------UCGGC-GGCGG- -5'
7114 3' -59 NC_001895.1 + 12832 0.69 0.254667
Target:  5'- uCCGCCuucccggcgcgguuGCCGCUGCCAGcuUUGCUGCa -3'
miRNA:   3'- -GGUGG--------------UGGUGAUGGUCucGGCGGCGg -5'
7114 3' -59 NC_001895.1 + 5786 0.69 0.243685
Target:  5'- -aGCUgaaACCGaaGCCGGAGCCGCaGCCc -3'
miRNA:   3'- ggUGG---UGGUgaUGGUCUCGGCGgCGG- -5'
7114 3' -59 NC_001895.1 + 21994 0.69 0.243685
Target:  5'- -gACaCACUug-ACCAGA-CCGCCGCCa -3'
miRNA:   3'- ggUG-GUGGugaUGGUCUcGGCGGCGG- -5'
7114 3' -59 NC_001895.1 + 28919 0.71 0.181871
Target:  5'- ---aCACCAUUGCCGguauuGAGCguuCGCCGCCg -3'
miRNA:   3'- ggugGUGGUGAUGGU-----CUCG---GCGGCGG- -5'
7114 3' -59 NC_001895.1 + 12744 0.71 0.176999
Target:  5'- uUAUCACCACUGCCGGuGCaGCaaaGCUg -3'
miRNA:   3'- gGUGGUGGUGAUGGUCuCGgCGg--CGG- -5'
7114 3' -59 NC_001895.1 + 20718 0.72 0.154344
Target:  5'- gCCAgCGCCAUguucagcgugACCGGcGuuGCCGCCu -3'
miRNA:   3'- -GGUgGUGGUGa---------UGGUCuCggCGGCGG- -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.