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
32086 3' -56.2 NC_007016.1 + 111949 0.66 0.905186
Target:  5'- uACGuuGGCGUAaaaggCCCgggCGauuUGGGUGCCc -3'
miRNA:   3'- -UGCcgCCGCAUa----GGGa--GC---ACCUAUGG- -5'
32086 3' -56.2 NC_007016.1 + 78007 0.66 0.898868
Target:  5'- -gGGUGGCGgccugGUCCCUauaCGaGGAggaggACCu -3'
miRNA:   3'- ugCCGCCGCa----UAGGGA---GCaCCUa----UGG- -5'
32086 3' -56.2 NC_007016.1 + 26746 0.66 0.892319
Target:  5'- cUGGUGGCgGUAUCCa-CGagGGAUACg -3'
miRNA:   3'- uGCCGCCG-CAUAGGgaGCa-CCUAUGg -5'
32086 3' -56.2 NC_007016.1 + 130125 0.66 0.878544
Target:  5'- cCGGCGGCGcc-CCgCUCG-GGGgcCCg -3'
miRNA:   3'- uGCCGCCGCauaGG-GAGCaCCUauGG- -5'
32086 3' -56.2 NC_007016.1 + 16595 0.66 0.871326
Target:  5'- cGCGGCGcGCGUggCCCcCG-GGuucGUGCUa -3'
miRNA:   3'- -UGCCGC-CGCAuaGGGaGCaCC---UAUGG- -5'
32086 3' -56.2 NC_007016.1 + 115828 0.67 0.856255
Target:  5'- -gGGCGGCaaaaaccgCCC-CGUGGGcACCa -3'
miRNA:   3'- ugCCGCCGcaua----GGGaGCACCUaUGG- -5'
32086 3' -56.2 NC_007016.1 + 113565 0.67 0.823743
Target:  5'- cCGGUGGgGUgcagGUCCCcCGgugGGGUGCa -3'
miRNA:   3'- uGCCGCCgCA----UAGGGaGCa--CCUAUGg -5'
32086 3' -56.2 NC_007016.1 + 114077 0.67 0.823743
Target:  5'- cCGGUGGgGUgcagGUCCCcCGgugGGGUGCa -3'
miRNA:   3'- uGCCGCCgCA----UAGGGaGCa--CCUAUGg -5'
32086 3' -56.2 NC_007016.1 + 114039 0.67 0.823743
Target:  5'- cCGGUGGgGUgcagGUCCCcCGgugGGGUGCa -3'
miRNA:   3'- uGCCGCCgCA----UAGGGaGCa--CCUAUGg -5'
32086 3' -56.2 NC_007016.1 + 114001 0.67 0.823743
Target:  5'- cCGGUGGgGUgcagGUCCCcCGgugGGGUGCa -3'
miRNA:   3'- uGCCGCCgCA----UAGGGaGCa--CCUAUGg -5'
32086 3' -56.2 NC_007016.1 + 113963 0.67 0.823743
Target:  5'- cCGGUGGgGUgcagGUCCCcCGgugGGGUGCa -3'
miRNA:   3'- uGCCGCCgCA----UAGGGaGCa--CCUAUGg -5'
32086 3' -56.2 NC_007016.1 + 113925 0.67 0.823743
Target:  5'- cCGGUGGgGUgcagGUCCCcCGgugGGGUGCa -3'
miRNA:   3'- uGCCGCCgCA----UAGGGaGCa--CCUAUGg -5'
32086 3' -56.2 NC_007016.1 + 113887 0.67 0.823743
Target:  5'- cCGGUGGgGUgcagGUCCCcCGgugGGGUGCa -3'
miRNA:   3'- uGCCGCCgCA----UAGGGaGCa--CCUAUGg -5'
32086 3' -56.2 NC_007016.1 + 113849 0.67 0.823743
Target:  5'- cCGGUGGgGUgcagGUCCCcCGgugGGGUGCa -3'
miRNA:   3'- uGCCGCCgCA----UAGGGaGCa--CCUAUGg -5'
32086 3' -56.2 NC_007016.1 + 113811 0.67 0.823743
Target:  5'- cCGGUGGgGUgcagGUCCCcCGgugGGGUGCa -3'
miRNA:   3'- uGCCGCCgCA----UAGGGaGCa--CCUAUGg -5'
32086 3' -56.2 NC_007016.1 + 113773 0.67 0.823743
Target:  5'- cCGGUGGgGUgcagGUCCCcCGgugGGGUGCa -3'
miRNA:   3'- uGCCGCCgCA----UAGGGaGCa--CCUAUGg -5'
32086 3' -56.2 NC_007016.1 + 113527 0.67 0.823743
Target:  5'- cCGGUGGgGUgcagGUCCCcCGgugGGGUGCa -3'
miRNA:   3'- uGCCGCCgCA----UAGGGaGCa--CCUAUGg -5'
32086 3' -56.2 NC_007016.1 + 113679 0.67 0.823743
Target:  5'- cCGGUGGgGUgcagGUCCCcCGgugGGGUGCa -3'
miRNA:   3'- uGCCGCCgCA----UAGGGaGCa--CCUAUGg -5'
32086 3' -56.2 NC_007016.1 + 113641 0.67 0.823743
Target:  5'- cCGGUGGgGUgcagGUCCCcCGgugGGGUGCa -3'
miRNA:   3'- uGCCGCCgCA----UAGGGaGCa--CCUAUGg -5'
32086 3' -56.2 NC_007016.1 + 113603 0.67 0.823743
Target:  5'- cCGGUGGgGUgcagGUCCCcCGgugGGGUGCa -3'
miRNA:   3'- uGCCGCCgCA----UAGGGaGCa--CCUAUGg -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.