miRNA display CGI


Results 1 - 20 of 38 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
18457 3' -61.6 NC_004681.1 + 1148 0.66 0.488353
Target:  5'- gGGCCGUacaUC-CUCUCGGCg--UCCGCg -3'
miRNA:   3'- aCCGGCG---GGaGAGGGUCGaugAGGCG- -5'
18457 3' -61.6 NC_004681.1 + 45051 0.66 0.488353
Target:  5'- gGGCCugaGCCCgagCUCgCGGUggcgGCUCCa- -3'
miRNA:   3'- aCCGG---CGGGa--GAGgGUCGa---UGAGGcg -5'
18457 3' -61.6 NC_004681.1 + 4331 0.66 0.487386
Target:  5'- cGG-UGCCCUUgcacucaUCCCAcGCUGgcaUCCGCa -3'
miRNA:   3'- aCCgGCGGGAG-------AGGGU-CGAUg--AGGCG- -5'
18457 3' -61.6 NC_004681.1 + 69133 0.66 0.478729
Target:  5'- cUGGCCuCCCUCgccuaccggCUCGGCUACaccaCCGg -3'
miRNA:   3'- -ACCGGcGGGAGa--------GGGUCGAUGa---GGCg -5'
18457 3' -61.6 NC_004681.1 + 25073 0.66 0.478729
Target:  5'- gGGCgGCaCCUCgCUCAGCcucCUCgGCa -3'
miRNA:   3'- aCCGgCG-GGAGaGGGUCGau-GAGgCG- -5'
18457 3' -61.6 NC_004681.1 + 38982 0.66 0.478729
Target:  5'- aGGCUgGCCUUCUCcaguggcgCCAGCU-CUCCu- -3'
miRNA:   3'- aCCGG-CGGGAGAG--------GGUCGAuGAGGcg -5'
18457 3' -61.6 NC_004681.1 + 1662 0.66 0.4692
Target:  5'- gGGCCGUcuuCCUCUCCCccGCcGC-CCaGCu -3'
miRNA:   3'- aCCGGCG---GGAGAGGGu-CGaUGaGG-CG- -5'
18457 3' -61.6 NC_004681.1 + 19229 0.66 0.4692
Target:  5'- cGGauGUCCUCUCCCA-Cg--UCCGCa -3'
miRNA:   3'- aCCggCGGGAGAGGGUcGaugAGGCG- -5'
18457 3' -61.6 NC_004681.1 + 73183 0.66 0.450439
Target:  5'- -aGCCGCgCacCUCCCGGC-ACUCCa- -3'
miRNA:   3'- acCGGCGgGa-GAGGGUCGaUGAGGcg -5'
18457 3' -61.6 NC_004681.1 + 59796 0.66 0.441215
Target:  5'- aGGCCGCa--CUCCCAGCaggggGCguggCgGCg -3'
miRNA:   3'- aCCGGCGggaGAGGGUCGa----UGa---GgCG- -5'
18457 3' -61.6 NC_004681.1 + 20129 0.66 0.441215
Target:  5'- cGGCCaCCCg-UCCUGGU--CUCCGCg -3'
miRNA:   3'- aCCGGcGGGagAGGGUCGauGAGGCG- -5'
18457 3' -61.6 NC_004681.1 + 24038 0.66 0.441215
Target:  5'- uUGGCaCGCCCga-UCCGGCg---CCGCg -3'
miRNA:   3'- -ACCG-GCGGGagaGGGUCGaugaGGCG- -5'
18457 3' -61.6 NC_004681.1 + 34295 0.67 0.426681
Target:  5'- cGGCCugcgugucaauucacGCCCUagcucaUCCCAGCacccgaagucuUACgCCGCg -3'
miRNA:   3'- aCCGG---------------CGGGAg-----AGGGUCG-----------AUGaGGCG- -5'
18457 3' -61.6 NC_004681.1 + 33493 0.67 0.423092
Target:  5'- gUGGCCGUCUUC-CUCAuGCUcAUcCCGCa -3'
miRNA:   3'- -ACCGGCGGGAGaGGGU-CGA-UGaGGCG- -5'
18457 3' -61.6 NC_004681.1 + 14503 0.67 0.423092
Target:  5'- cGGCCGCCUgCUUgcgcuuggcgUCGGCgaugcgguuCUCCGCg -3'
miRNA:   3'- aCCGGCGGGaGAG----------GGUCGau-------GAGGCG- -5'
18457 3' -61.6 NC_004681.1 + 39446 0.67 0.423092
Target:  5'- aGGCCGauccacagcggcCCCUCggagccgugUCCAGCgcgGCgCCGCg -3'
miRNA:   3'- aCCGGC------------GGGAGa--------GGGUCGa--UGaGGCG- -5'
18457 3' -61.6 NC_004681.1 + 8392 0.67 0.4142
Target:  5'- aGGCCGUCCUUgg-CGGCg--UCCGCg -3'
miRNA:   3'- aCCGGCGGGAGaggGUCGaugAGGCG- -5'
18457 3' -61.6 NC_004681.1 + 16300 0.67 0.4142
Target:  5'- gUGGCCGUUCUg-CUUGGcCUGCUCUGCc -3'
miRNA:   3'- -ACCGGCGGGAgaGGGUC-GAUGAGGCG- -5'
18457 3' -61.6 NC_004681.1 + 18039 0.67 0.405424
Target:  5'- gGaGCCGCCCUCggcaCUCAcCUGCggggaCCGCu -3'
miRNA:   3'- aC-CGGCGGGAGa---GGGUcGAUGa----GGCG- -5'
18457 3' -61.6 NC_004681.1 + 23332 0.67 0.405424
Target:  5'- gGGCCa-CCUCUUCCGGCaGCUUCagGCg -3'
miRNA:   3'- aCCGGcgGGAGAGGGUCGaUGAGG--CG- -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.