miRNA display CGI


Results 1 - 17 of 17 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
20539 5' -57.6 NC_004688.1 + 75883 0.66 0.785091
Target:  5'- cCAGAGGGcggcGGGCCCCAGcuucGCgGGCUugGg -3'
miRNA:   3'- uGUUUUCC----CUCGGGGUC----CG-CUGGugC- -5'
20539 5' -57.6 NC_004688.1 + 18292 0.66 0.756544
Target:  5'- aGCAu-GGGGuucuuggcgauGCCCCAGcuGCGGuCCACGa -3'
miRNA:   3'- -UGUuuUCCCu----------CGGGGUC--CGCU-GGUGC- -5'
20539 5' -57.6 NC_004688.1 + 83428 0.67 0.736932
Target:  5'- -----cGGGAGUucagCCCGgucuuGGUGACCACGg -3'
miRNA:   3'- uguuuuCCCUCG----GGGU-----CCGCUGGUGC- -5'
20539 5' -57.6 NC_004688.1 + 102166 0.67 0.736932
Target:  5'- -----uGGGAucaGCCCgAGGCGcuCCACGa -3'
miRNA:   3'- uguuuuCCCU---CGGGgUCCGCu-GGUGC- -5'
20539 5' -57.6 NC_004688.1 + 17431 0.67 0.706837
Target:  5'- aACGAAGucGGGugcgguGCUCCAGGCGGacaucCCACa -3'
miRNA:   3'- -UGUUUU--CCCu-----CGGGGUCCGCU-----GGUGc -5'
20539 5' -57.6 NC_004688.1 + 11843 0.67 0.696662
Target:  5'- gACAGAucuucGGGGGCCCgccauuCAGGCuGACCGa- -3'
miRNA:   3'- -UGUUUu----CCCUCGGG------GUCCG-CUGGUgc -5'
20539 5' -57.6 NC_004688.1 + 59977 0.68 0.676156
Target:  5'- gGCccGAGGGuGCCaCCGcgccGGCGACCAa- -3'
miRNA:   3'- -UGuuUUCCCuCGG-GGU----CCGCUGGUgc -5'
20539 5' -57.6 NC_004688.1 + 93900 0.68 0.676156
Target:  5'- cGCGccAGGGccAGCCCCcGGCGcaucACCGCu -3'
miRNA:   3'- -UGUuuUCCC--UCGGGGuCCGC----UGGUGc -5'
20539 5' -57.6 NC_004688.1 + 85029 0.68 0.665843
Target:  5'- aGCAAAacGGGGAcgauGCCCUcuuGGCGcagcACCACGc -3'
miRNA:   3'- -UGUUU--UCCCU----CGGGGu--CCGC----UGGUGC- -5'
20539 5' -57.6 NC_004688.1 + 525 0.68 0.665843
Target:  5'- -----cGGGcuuGCCCCAGGUGagcucGCCACa -3'
miRNA:   3'- uguuuuCCCu--CGGGGUCCGC-----UGGUGc -5'
20539 5' -57.6 NC_004688.1 + 84093 0.68 0.655501
Target:  5'- uCAGGAGGGcGUCgCugcGGUGGCCGCGg -3'
miRNA:   3'- uGUUUUCCCuCGGgGu--CCGCUGGUGC- -5'
20539 5' -57.6 NC_004688.1 + 41823 0.69 0.603676
Target:  5'- uGguGAuuGGAGaugucgauaCCCCAGGUGACCGCGu -3'
miRNA:   3'- -UguUUucCCUC---------GGGGUCCGCUGGUGC- -5'
20539 5' -57.6 NC_004688.1 + 92037 0.69 0.593345
Target:  5'- cGCGccGGGGGccGCCCCAuGCcuGACCACGa -3'
miRNA:   3'- -UGUuuUCCCU--CGGGGUcCG--CUGGUGC- -5'
20539 5' -57.6 NC_004688.1 + 16921 0.69 0.566637
Target:  5'- gGCGccGGGGaAGCCCCAGuagggcccaucaaccGCGACgACGu -3'
miRNA:   3'- -UGUuuUCCC-UCGGGGUC---------------CGCUGgUGC- -5'
20539 5' -57.6 NC_004688.1 + 6667 0.72 0.445364
Target:  5'- ------cGGGGCCCCAGGCGgugaugGCCugGa -3'
miRNA:   3'- uguuuucCCUCGGGGUCCGC------UGGugC- -5'
20539 5' -57.6 NC_004688.1 + 78885 0.72 0.400661
Target:  5'- gACGGAgccacGGGGAGCCCCAGGaCGGagucCUGCa -3'
miRNA:   3'- -UGUUU-----UCCCUCGGGGUCC-GCU----GGUGc -5'
20539 5' -57.6 NC_004688.1 + 89655 1.09 0.00141
Target:  5'- gACAAAAGGGAGCCCCAGGCGACCACGa -3'
miRNA:   3'- -UGUUUUCCCUCGGGGUCCGCUGGUGC- -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.