miRNA display CGI


Results 1 - 20 of 50 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
23886 3' -53.3 NC_005262.1 + 39429 0.66 0.871718
Target:  5'- gGCGuCGAcaGGGUugCAGGU-AUCaGGCGCg -3'
miRNA:   3'- gCGC-GCU--CCCA--GUUUAuUAGcCCGCG- -5'
23886 3' -53.3 NC_005262.1 + 50453 0.66 0.863744
Target:  5'- aGCGCuucgaGAGGG----GUGAUCGGGC-Cg -3'
miRNA:   3'- gCGCG-----CUCCCaguuUAUUAGCCCGcG- -5'
23886 3' -53.3 NC_005262.1 + 21189 0.66 0.863744
Target:  5'- gGCaGCGAGauaaggccGGUCAGGUcGUCcggcGGCGCg -3'
miRNA:   3'- gCG-CGCUC--------CCAGUUUAuUAGc---CCGCG- -5'
23886 3' -53.3 NC_005262.1 + 23849 0.66 0.862933
Target:  5'- aGCGCaaggagaGAGGGagGAAUcccgCGcGGCGCa -3'
miRNA:   3'- gCGCG-------CUCCCagUUUAuua-GC-CCGCG- -5'
23886 3' -53.3 NC_005262.1 + 13707 0.66 0.855529
Target:  5'- uCGCGCGGcgcGGGUUc---GGUCGG-CGCa -3'
miRNA:   3'- -GCGCGCU---CCCAGuuuaUUAGCCcGCG- -5'
23886 3' -53.3 NC_005262.1 + 31893 0.66 0.841907
Target:  5'- gGCGCGucgagcGGGUUgcccgcguagcccguGAA--GUCGGGCGUu -3'
miRNA:   3'- gCGCGCu-----CCCAG---------------UUUauUAGCCCGCG- -5'
23886 3' -53.3 NC_005262.1 + 57280 0.66 0.838413
Target:  5'- aGCGUGAcGG-CGAG--GUCGGcGCGCu -3'
miRNA:   3'- gCGCGCUcCCaGUUUauUAGCC-CGCG- -5'
23886 3' -53.3 NC_005262.1 + 59477 0.66 0.838413
Target:  5'- -cCGCGAGGcucgccguaGUCGacGAUGAg-GGGCGCg -3'
miRNA:   3'- gcGCGCUCC---------CAGU--UUAUUagCCCGCG- -5'
23886 3' -53.3 NC_005262.1 + 56554 0.66 0.835769
Target:  5'- aGCGCGAGGGgcgCAucauccgccaGGGCa- -3'
miRNA:   3'- gCGCGCUCCCa--GUuuauuag---CCCGcg -5'
23886 3' -53.3 NC_005262.1 + 8892 0.67 0.829527
Target:  5'- gGUGCGAGccGUCGAAcuggCGcGGCGCg -3'
miRNA:   3'- gCGCGCUCc-CAGUUUauuaGC-CCGCG- -5'
23886 3' -53.3 NC_005262.1 + 23108 0.67 0.829527
Target:  5'- cCGUGCGAguguccaGGGUCGuAgacgcuaugcgcgugGGUCGGGuCGCu -3'
miRNA:   3'- -GCGCGCU-------CCCAGUuUa--------------UUAGCCC-GCG- -5'
23886 3' -53.3 NC_005262.1 + 21822 0.67 0.820435
Target:  5'- uGCGCGGcGGuGUCAGGcAA-CaGGCGCg -3'
miRNA:   3'- gCGCGCU-CC-CAGUUUaUUaGcCCGCG- -5'
23886 3' -53.3 NC_005262.1 + 9681 0.67 0.820435
Target:  5'- --gGCGAGGGcgccgUCGAc--GUCGaGGCGCa -3'
miRNA:   3'- gcgCGCUCCC-----AGUUuauUAGC-CCGCG- -5'
23886 3' -53.3 NC_005262.1 + 62702 0.67 0.801673
Target:  5'- aGCGCGAcgauGGGUaaucgcgcacgCAcccUGAUCGGcGCGCu -3'
miRNA:   3'- gCGCGCU----CCCA-----------GUuu-AUUAGCC-CGCG- -5'
23886 3' -53.3 NC_005262.1 + 47002 0.67 0.800715
Target:  5'- gCGCGCGAcgcagauGGG-CGAcaucgaGGGCGCa -3'
miRNA:   3'- -GCGCGCU-------CCCaGUUuauuagCCCGCG- -5'
23886 3' -53.3 NC_005262.1 + 53677 0.68 0.782206
Target:  5'- uGCcCGAGGG-CAucUAucagcCGGGCGCg -3'
miRNA:   3'- gCGcGCUCCCaGUuuAUua---GCCCGCG- -5'
23886 3' -53.3 NC_005262.1 + 15833 0.68 0.77923
Target:  5'- gGCGCGAGaGGUCGuucgcgccuucGGUGaacaaaucuucgauGUCGccGGCGCu -3'
miRNA:   3'- gCGCGCUC-CCAGU-----------UUAU--------------UAGC--CCGCG- -5'
23886 3' -53.3 NC_005262.1 + 28419 0.68 0.772235
Target:  5'- aCGUGCucGaGGUCGA---AUCGGGcCGCg -3'
miRNA:   3'- -GCGCGcuC-CCAGUUuauUAGCCC-GCG- -5'
23886 3' -53.3 NC_005262.1 + 23669 0.68 0.751874
Target:  5'- aGCGCGAGcGUCGuacuuUCGGGaucaaGCg -3'
miRNA:   3'- gCGCGCUCcCAGUuuauuAGCCCg----CG- -5'
23886 3' -53.3 NC_005262.1 + 24173 0.68 0.751874
Target:  5'- gCGCGCGAGGGcgUCGGuagacgaagguGUAAuauucuucUUGGcGCGCu -3'
miRNA:   3'- -GCGCGCUCCC--AGUU-----------UAUU--------AGCC-CGCG- -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.