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
11914 3' -61.1 NC_003278.1 + 21322 0.66 0.289809
Target:  5'- cUGcuCGCCGGcuuagggcagaucaaGCGCGccGUCCAGCGCg -3'
miRNA:   3'- aACucGCGGUC---------------CGCGCc-UAGGUCGCG- -5'
11914 3' -61.1 NC_003278.1 + 9389 0.66 0.286889
Target:  5'- ---uGCGCCAGGUGuuGua-CAGCGCc -3'
miRNA:   3'- aacuCGCGGUCCGCgcCuagGUCGCG- -5'
11914 3' -61.1 NC_003278.1 + 3462 0.66 0.272639
Target:  5'- --aGGUGCCGGcCGCGGcucgCCAGaCGCg -3'
miRNA:   3'- aacUCGCGGUCcGCGCCua--GGUC-GCG- -5'
11914 3' -61.1 NC_003278.1 + 15895 0.66 0.272639
Target:  5'- gUUGAugGCGCCAuuGGcCGCcuGGAUCUGcGCGCg -3'
miRNA:   3'- -AACU--CGCGGU--CC-GCG--CCUAGGU-CGCG- -5'
11914 3' -61.1 NC_003278.1 + 16132 0.66 0.272639
Target:  5'- ---cGUGCCuguuGCGCGG--CCAGCGCg -3'
miRNA:   3'- aacuCGCGGuc--CGCGCCuaGGUCGCG- -5'
11914 3' -61.1 NC_003278.1 + 24826 0.66 0.26573
Target:  5'- cUGGGCGUCGcccuuGGCGCGcagaUAGCGCa -3'
miRNA:   3'- aACUCGCGGU-----CCGCGCcuagGUCGCG- -5'
11914 3' -61.1 NC_003278.1 + 1888 0.66 0.26573
Target:  5'- -aGGGCGCUcuguaGGGCGCaGAaccacUCCGGCa- -3'
miRNA:   3'- aaCUCGCGG-----UCCGCGcCU-----AGGUCGcg -5'
11914 3' -61.1 NC_003278.1 + 15223 0.66 0.261653
Target:  5'- -aGAGCGCaucgAGGUGCcggccaugcugcccuGGAcgCCAGCGUu -3'
miRNA:   3'- aaCUCGCGg---UCCGCG---------------CCUa-GGUCGCG- -5'
11914 3' -61.1 NC_003278.1 + 19603 0.67 0.252337
Target:  5'- aUGAGCGCgAccuGcGCGCGcaGAUCCAG-GCg -3'
miRNA:   3'- aACUCGCGgU---C-CGCGC--CUAGGUCgCG- -5'
11914 3' -61.1 NC_003278.1 + 8675 0.67 0.251682
Target:  5'- --cGGCGCCgccaccgAGGaCGCGGugcgugccuUCCAGCGUu -3'
miRNA:   3'- aacUCGCGG-------UCC-GCGCCu--------AGGUCGCG- -5'
11914 3' -61.1 NC_003278.1 + 26526 0.67 0.233296
Target:  5'- ---cGC-CCGGGCGaGGGUucaCCAGCGCg -3'
miRNA:   3'- aacuCGcGGUCCGCgCCUA---GGUCGCG- -5'
11914 3' -61.1 NC_003278.1 + 30331 0.67 0.233296
Target:  5'- -gGAGCGCCAGGaCGCcGucaacgCCGacGCGCc -3'
miRNA:   3'- aaCUCGCGGUCC-GCGcCua----GGU--CGCG- -5'
11914 3' -61.1 NC_003278.1 + 13852 0.67 0.227223
Target:  5'- -gGGGCGCU-GGCGCcGAgcaCCAGgGCa -3'
miRNA:   3'- aaCUCGCGGuCCGCGcCUa--GGUCgCG- -5'
11914 3' -61.1 NC_003278.1 + 2453 0.67 0.227223
Target:  5'- ---uGUGCCAGGUGCc-AUCCAGCGa -3'
miRNA:   3'- aacuCGCGGUCCGCGccUAGGUCGCg -5'
11914 3' -61.1 NC_003278.1 + 29201 0.67 0.221284
Target:  5'- --cAGUGcCCAGGuCGCGGcggCCAGCGa -3'
miRNA:   3'- aacUCGC-GGUCC-GCGCCua-GGUCGCg -5'
11914 3' -61.1 NC_003278.1 + 21470 0.68 0.209803
Target:  5'- -cGAucGuCGCCAGGCcgugGCGGGccaggaugUCCGGCGUg -3'
miRNA:   3'- aaCU--C-GCGGUCCG----CGCCU--------AGGUCGCG- -5'
11914 3' -61.1 NC_003278.1 + 25628 0.68 0.20646
Target:  5'- aUGGGUaGCCccuuGGGUGCGGAugaucaugucgaccuUCgCGGCGCa -3'
miRNA:   3'- aACUCG-CGG----UCCGCGCCU---------------AG-GUCGCG- -5'
11914 3' -61.1 NC_003278.1 + 17418 0.68 0.204257
Target:  5'- cUGGGCGUCAGGCGuuGAcgcggCUGGCGa -3'
miRNA:   3'- aACUCGCGGUCCGCgcCUa----GGUCGCg -5'
11914 3' -61.1 NC_003278.1 + 9617 0.68 0.193547
Target:  5'- ---uGCGCCAGGCGCuGGccAUCC-GCGa -3'
miRNA:   3'- aacuCGCGGUCCGCG-CC--UAGGuCGCg -5'
11914 3' -61.1 NC_003278.1 + 26480 0.68 0.188378
Target:  5'- -cGAGCguucGCCAGGCGCuGGUgcUCGGCGg -3'
miRNA:   3'- aaCUCG----CGGUCCGCGcCUA--GGUCGCg -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.