miRNA display CGI


Results 1 - 20 of 46 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
28806 3' -56.8 NC_006146.1 + 159548 0.66 0.875926
Target:  5'- cGCGCagCGCCUGCGCCaggcccguguACAGcGUCu-- -3'
miRNA:   3'- aCGCG--GCGGACGCGG----------UGUUcUAGuuu -5'
28806 3' -56.8 NC_006146.1 + 111157 0.66 0.875198
Target:  5'- aGCGCCGCUucagGCGCUcggggagGCGAGAg---- -3'
miRNA:   3'- aCGCGGCGGa---CGCGG-------UGUUCUaguuu -5'
28806 3' -56.8 NC_006146.1 + 38256 0.66 0.868542
Target:  5'- gGCGCCGUgUGUGCCugGAacAUCu-- -3'
miRNA:   3'- aCGCGGCGgACGCGGugUUc-UAGuuu -5'
28806 3' -56.8 NC_006146.1 + 70701 0.66 0.868542
Target:  5'- cGgGCCGCCUgGUGUCucuggcgauGCAaaAGAUCGAAg -3'
miRNA:   3'- aCgCGGCGGA-CGCGG---------UGU--UCUAGUUU- -5'
28806 3' -56.8 NC_006146.1 + 3148 0.66 0.868542
Target:  5'- cGCGCCcacccggccCCUGCGCC-Cu-GAUCGAGc -3'
miRNA:   3'- aCGCGGc--------GGACGCGGuGuuCUAGUUU- -5'
28806 3' -56.8 NC_006146.1 + 150217 0.66 0.868542
Target:  5'- uUGCGCUugGCCa--GCCAgGAGGUCAGc -3'
miRNA:   3'- -ACGCGG--CGGacgCGGUgUUCUAGUUu -5'
28806 3' -56.8 NC_006146.1 + 106274 0.66 0.867792
Target:  5'- gGCGgaagacauccuccUgGCCUGCGCCaugaaccucaGCAAGGUCAu- -3'
miRNA:   3'- aCGC-------------GgCGGACGCGG----------UGUUCUAGUuu -5'
28806 3' -56.8 NC_006146.1 + 152237 0.66 0.860942
Target:  5'- aGCGUCGCCUGCgaagGCCggGCAugcGAUCc-- -3'
miRNA:   3'- aCGCGGCGGACG----CGG--UGUu--CUAGuuu -5'
28806 3' -56.8 NC_006146.1 + 57939 0.66 0.853131
Target:  5'- gGCGCCGCCaugGUGCUGCA---UCAc- -3'
miRNA:   3'- aCGCGGCGGa--CGCGGUGUucuAGUuu -5'
28806 3' -56.8 NC_006146.1 + 102906 0.66 0.845116
Target:  5'- gGgGCCGUguggcguggCUGCGCCcCAAGAUCn-- -3'
miRNA:   3'- aCgCGGCG---------GACGCGGuGUUCUAGuuu -5'
28806 3' -56.8 NC_006146.1 + 55554 0.66 0.836904
Target:  5'- cGCGCUGCCUGUGUaguuuccuGCGAGAa---- -3'
miRNA:   3'- aCGCGGCGGACGCGg-------UGUUCUaguuu -5'
28806 3' -56.8 NC_006146.1 + 125920 0.67 0.828502
Target:  5'- cUGCGCCuCCgucgGCGC-ACGAGGUCu-- -3'
miRNA:   3'- -ACGCGGcGGa---CGCGgUGUUCUAGuuu -5'
28806 3' -56.8 NC_006146.1 + 121070 0.67 0.811159
Target:  5'- cUGaC-CCGCCUGCGgCACAcgugccAGAUCAu- -3'
miRNA:   3'- -AC-GcGGCGGACGCgGUGU------UCUAGUuu -5'
28806 3' -56.8 NC_006146.1 + 152659 0.67 0.802236
Target:  5'- uUGgGCUguuguGCCUGCGCCuucuCAGGAggucUCGAAg -3'
miRNA:   3'- -ACgCGG-----CGGACGCGGu---GUUCU----AGUUU- -5'
28806 3' -56.8 NC_006146.1 + 108075 0.67 0.802236
Target:  5'- aUG-GCCaGCCUGgGCCACAGGcaCAAGa -3'
miRNA:   3'- -ACgCGG-CGGACgCGGUGUUCuaGUUU- -5'
28806 3' -56.8 NC_006146.1 + 121813 0.67 0.793155
Target:  5'- --aGCCGCCUGaGCCACAgccGGAgccUCAGc -3'
miRNA:   3'- acgCGGCGGACgCGGUGU---UCU---AGUUu -5'
28806 3' -56.8 NC_006146.1 + 51574 0.67 0.783926
Target:  5'- gGCGCCGCCgggagGgGCC-CGGGGgagcCAGAg -3'
miRNA:   3'- aCGCGGCGGa----CgCGGuGUUCUa---GUUU- -5'
28806 3' -56.8 NC_006146.1 + 160211 0.67 0.783926
Target:  5'- cUGUGCUGCCUGCaugaugcCCGCGGGuAUCGc- -3'
miRNA:   3'- -ACGCGGCGGACGc------GGUGUUC-UAGUuu -5'
28806 3' -56.8 NC_006146.1 + 47218 0.68 0.768875
Target:  5'- cUG-GCCGCCUcCGCCACGaucuugagcuggcgcGGGUCGAc -3'
miRNA:   3'- -ACgCGGCGGAcGCGGUGU---------------UCUAGUUu -5'
28806 3' -56.8 NC_006146.1 + 42446 0.68 0.765061
Target:  5'- cGCGCCGCCaGCaugGCgGCcGGGUCGu- -3'
miRNA:   3'- aCGCGGCGGaCG---CGgUGuUCUAGUuu -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.