miRNA display CGI


Results 1 - 20 of 30 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
15983 5' -53.2 NC_004065.1 + 80415 0.66 0.992762
Target:  5'- --aCGGUGGAcgacAACCGgGUCGucugcaacaGCUUCUu -3'
miRNA:   3'- cgaGCUACCU----UUGGCgCAGC---------CGAAGA- -5'
15983 5' -53.2 NC_004065.1 + 103099 0.66 0.991398
Target:  5'- -aUCGAgugggugaccuuccUGGGAACgGCGUUGGCg--- -3'
miRNA:   3'- cgAGCU--------------ACCUUUGgCGCAGCCGaaga -5'
15983 5' -53.2 NC_004065.1 + 59741 0.66 0.990583
Target:  5'- gGCggCGAUGGugccGACCGCGUggccgaugguggCGGCggCg -3'
miRNA:   3'- -CGa-GCUACCu---UUGGCGCA------------GCCGaaGa -5'
15983 5' -53.2 NC_004065.1 + 19384 0.66 0.990583
Target:  5'- cGCUCGGgccuggguaguaUGGGGacguuacccGCCgGCGUCGGCg--- -3'
miRNA:   3'- -CGAGCU------------ACCUU---------UGG-CGCAGCCGaaga -5'
15983 5' -53.2 NC_004065.1 + 187565 0.66 0.990462
Target:  5'- aCUCGcgccagcAUGGcGACCGCGucUCGGCUg-- -3'
miRNA:   3'- cGAGC-------UACCuUUGGCGC--AGCCGAaga -5'
15983 5' -53.2 NC_004065.1 + 95267 0.66 0.989316
Target:  5'- cGCUCGAaguagGGGAugugcucccaGCgCGCGUCGGg-UCUg -3'
miRNA:   3'- -CGAGCUa----CCUU----------UG-GCGCAGCCgaAGA- -5'
15983 5' -53.2 NC_004065.1 + 182319 0.67 0.986386
Target:  5'- cGCUCGAgGGGAugCGCagcgucaugagGUCGGUg--- -3'
miRNA:   3'- -CGAGCUaCCUUugGCG-----------CAGCCGaaga -5'
15983 5' -53.2 NC_004065.1 + 140362 0.67 0.984707
Target:  5'- aGCUCGucuccauUGGGGAuuCCGUGUCGGUc--- -3'
miRNA:   3'- -CGAGCu------ACCUUU--GGCGCAGCCGaaga -5'
15983 5' -53.2 NC_004065.1 + 115905 0.67 0.984707
Target:  5'- gGCUCGG----GGCCGuCGUCGGCcUCg -3'
miRNA:   3'- -CGAGCUaccuUUGGC-GCAGCCGaAGa -5'
15983 5' -53.2 NC_004065.1 + 22783 0.67 0.984707
Target:  5'- uCUUGAUGGuggguACCGUG-CGGCU-CUg -3'
miRNA:   3'- cGAGCUACCuu---UGGCGCaGCCGAaGA- -5'
15983 5' -53.2 NC_004065.1 + 128137 0.67 0.982875
Target:  5'- aGCUCGGaGG-AGCCGCccCGGCgUCg -3'
miRNA:   3'- -CGAGCUaCCuUUGGCGcaGCCGaAGa -5'
15983 5' -53.2 NC_004065.1 + 169247 0.67 0.982875
Target:  5'- uGUUCGcgaggcgGGAGGCCGCGgcccugugCGGCcUCg -3'
miRNA:   3'- -CGAGCua-----CCUUUGGCGCa-------GCCGaAGa -5'
15983 5' -53.2 NC_004065.1 + 24082 0.68 0.976384
Target:  5'- gGCUCGAUGaugaugccGAGgacguccauggcGCCGaCGUCGGCcUCg -3'
miRNA:   3'- -CGAGCUAC--------CUU------------UGGC-GCAGCCGaAGa -5'
15983 5' -53.2 NC_004065.1 + 37459 0.68 0.976384
Target:  5'- aGC-CGGUGuaucaGAGCCGUGUCGGCa--- -3'
miRNA:   3'- -CGaGCUACc----UUUGGCGCAGCCGaaga -5'
15983 5' -53.2 NC_004065.1 + 170148 0.68 0.971155
Target:  5'- gGCUC--UGGAAA-CGCGUCGGggUCg -3'
miRNA:   3'- -CGAGcuACCUUUgGCGCAGCCgaAGa -5'
15983 5' -53.2 NC_004065.1 + 109224 0.68 0.961828
Target:  5'- uGCUCGGcgacgGGAGACgGCGgcgguagCGGCgUCg -3'
miRNA:   3'- -CGAGCUa----CCUUUGgCGCa------GCCGaAGa -5'
15983 5' -53.2 NC_004065.1 + 71753 0.68 0.961828
Target:  5'- cGCUacCGGUcGGuGACCGUGUUGGCgUCg -3'
miRNA:   3'- -CGA--GCUA-CCuUUGGCGCAGCCGaAGa -5'
15983 5' -53.2 NC_004065.1 + 186382 0.68 0.961828
Target:  5'- uGCgaCGgcGGAGGCUGCGUUGGUggUUCg -3'
miRNA:   3'- -CGa-GCuaCCUUUGGCGCAGCCG--AAGa -5'
15983 5' -53.2 NC_004065.1 + 169845 0.69 0.954556
Target:  5'- gGCUC---GGGAACCGCGaCGGgUUCg -3'
miRNA:   3'- -CGAGcuaCCUUUGGCGCaGCCgAAGa -5'
15983 5' -53.2 NC_004065.1 + 56915 0.69 0.95059
Target:  5'- gGCUgCGGUcGGAAcCgCGCGUCGGCcagUCg -3'
miRNA:   3'- -CGA-GCUA-CCUUuG-GCGCAGCCGa--AGa -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.