miRNA display CGI


Results 1 - 20 of 22 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
17174 3' -56.8 NC_004333.2 + 24770 0.66 0.589895
Target:  5'- ---cGcUGUCGcGCGCGCGgAUCGGCa- -3'
miRNA:   3'- cauaCcACAGC-CGCGCGC-UAGUCGgu -5'
17174 3' -56.8 NC_004333.2 + 680 0.66 0.589895
Target:  5'- -aGUGcccGUGcUCGGUgaGCGCGAUCGuGCCGc -3'
miRNA:   3'- caUAC---CAC-AGCCG--CGCGCUAGU-CGGU- -5'
17174 3' -56.8 NC_004333.2 + 30233 0.66 0.578911
Target:  5'- --uUGGUGcccUCGGCGUacaacacgaaagGCGG-CGGCCAa -3'
miRNA:   3'- cauACCAC---AGCCGCG------------CGCUaGUCGGU- -5'
17174 3' -56.8 NC_004333.2 + 28999 0.66 0.567971
Target:  5'- ---cGG-GUCGGCGUGCGcaucgcgcgCGGCUAg -3'
miRNA:   3'- cauaCCaCAGCCGCGCGCua-------GUCGGU- -5'
17174 3' -56.8 NC_004333.2 + 8864 0.67 0.524816
Target:  5'- ---aGGUaucgCGGCugcgGCGCGGUUAGCCGc -3'
miRNA:   3'- cauaCCAca--GCCG----CGCGCUAGUCGGU- -5'
17174 3' -56.8 NC_004333.2 + 32404 0.67 0.514215
Target:  5'- ---cGGUGUCGGCcCGCGccucgcgCAGCUc -3'
miRNA:   3'- cauaCCACAGCCGcGCGCua-----GUCGGu -5'
17174 3' -56.8 NC_004333.2 + 20590 0.67 0.514215
Target:  5'- -cGUGGUGUUucugcaGGCGCG-GcUCGGCCu -3'
miRNA:   3'- caUACCACAG------CCGCGCgCuAGUCGGu -5'
17174 3' -56.8 NC_004333.2 + 9355 0.67 0.503702
Target:  5'- ------cGUCGGCGCGCGGcgUCGGgCCu -3'
miRNA:   3'- cauaccaCAGCCGCGCGCU--AGUC-GGu -5'
17174 3' -56.8 NC_004333.2 + 11819 0.67 0.493284
Target:  5'- ---aGGUgaacGUCGGUGC-CGGUCGGCUg -3'
miRNA:   3'- cauaCCA----CAGCCGCGcGCUAGUCGGu -5'
17174 3' -56.8 NC_004333.2 + 20990 0.67 0.482965
Target:  5'- aGUG-GGUGcguuUCGaGCGCGUGG-CAGCCGu -3'
miRNA:   3'- -CAUaCCAC----AGC-CGCGCGCUaGUCGGU- -5'
17174 3' -56.8 NC_004333.2 + 3554 0.68 0.472752
Target:  5'- ---cGGUGcCGcGCaGCGCG-UCGGCCGa -3'
miRNA:   3'- cauaCCACaGC-CG-CGCGCuAGUCGGU- -5'
17174 3' -56.8 NC_004333.2 + 29876 0.68 0.472752
Target:  5'- ---cGGUagucGUCGGCgaagcgcuGCGCGAUCgGGCCGc -3'
miRNA:   3'- cauaCCA----CAGCCG--------CGCGCUAG-UCGGU- -5'
17174 3' -56.8 NC_004333.2 + 4918 0.68 0.462648
Target:  5'- ---cGGca-CGGCGCGCGcguacgGUCAGCCGa -3'
miRNA:   3'- cauaCCacaGCCGCGCGC------UAGUCGGU- -5'
17174 3' -56.8 NC_004333.2 + 15280 0.68 0.442789
Target:  5'- -cGUGcUG-CGGCgGCGCGGUCAGCa- -3'
miRNA:   3'- caUACcACaGCCG-CGCGCUAGUCGgu -5'
17174 3' -56.8 NC_004333.2 + 47802 0.69 0.423421
Target:  5'- ---gGGUGUacgaggccaCGGCGCGCGA-CGuGCCGg -3'
miRNA:   3'- cauaCCACA---------GCCGCGCGCUaGU-CGGU- -5'
17174 3' -56.8 NC_004333.2 + 42001 0.69 0.413929
Target:  5'- ---aGGcuuccUGUCGGUGCGCGugaagcgcgCGGCCAa -3'
miRNA:   3'- cauaCC-----ACAGCCGCGCGCua-------GUCGGU- -5'
17174 3' -56.8 NC_004333.2 + 45688 0.69 0.395343
Target:  5'- ---------gGGCGCGCGAUCAGCUAc -3'
miRNA:   3'- cauaccacagCCGCGCGCUAGUCGGU- -5'
17174 3' -56.8 NC_004333.2 + 32801 0.7 0.368497
Target:  5'- ---gGGaUGUCGaGCGguuCGCGAUCAGUCAg -3'
miRNA:   3'- cauaCC-ACAGC-CGC---GCGCUAGUCGGU- -5'
17174 3' -56.8 NC_004333.2 + 4550 0.7 0.363279
Target:  5'- ---cGGUGagcccuuugauccauUCGGCGCuGCGGUCGGCa- -3'
miRNA:   3'- cauaCCAC---------------AGCCGCG-CGCUAGUCGgu -5'
17174 3' -56.8 NC_004333.2 + 20724 0.71 0.28835
Target:  5'- ---cGGUGaugaCGGCGCGCGcgCuGCCGg -3'
miRNA:   3'- cauaCCACa---GCCGCGCGCuaGuCGGU- -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.