miRNA display CGI


Results 1 - 20 of 24 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
32089 3' -61.7 NC_007016.1 + 70724 0.66 0.635851
Target:  5'- -gUGCCCgCACgGGCGCUgcgCGggACCUcGGg -3'
miRNA:   3'- uaGCGGG-GUGgCCGCGGa--GU--UGGA-CC- -5'
32089 3' -61.7 NC_007016.1 + 104588 0.66 0.635851
Target:  5'- --aGCCCCaugccGCCGcGCGCCUggcccaGGCgCUGGg -3'
miRNA:   3'- uagCGGGG-----UGGC-CGCGGAg-----UUG-GACC- -5'
32089 3' -61.7 NC_007016.1 + 8459 0.66 0.635851
Target:  5'- -cCGaCCCCuagcGCCGGCGCC-Cua-CUGGc -3'
miRNA:   3'- uaGC-GGGG----UGGCCGCGGaGuugGACC- -5'
32089 3' -61.7 NC_007016.1 + 130054 0.66 0.605963
Target:  5'- -cCGCCCCgcGCCGcGCGCCg-GGCCg-- -3'
miRNA:   3'- uaGCGGGG--UGGC-CGCGGagUUGGacc -5'
32089 3' -61.7 NC_007016.1 + 130009 0.66 0.586119
Target:  5'- -gCGCCgCCGCUaggGGC-CCUC-GCCUGGc -3'
miRNA:   3'- uaGCGG-GGUGG---CCGcGGAGuUGGACC- -5'
32089 3' -61.7 NC_007016.1 + 20702 0.66 0.586119
Target:  5'- cUCGCCgCgGCCGuccggggcacGCGCCgcggCAACCUcGGa -3'
miRNA:   3'- uAGCGG-GgUGGC----------CGCGGa---GUUGGA-CC- -5'
32089 3' -61.7 NC_007016.1 + 119668 0.67 0.576241
Target:  5'- -aCGCCCCcuACCGcgacuGCGCCcccCGGCCUGu -3'
miRNA:   3'- uaGCGGGG--UGGC-----CGCGGa--GUUGGACc -5'
32089 3' -61.7 NC_007016.1 + 66547 0.67 0.576241
Target:  5'- cUCGCCCCugaGCUGGUGCCUaucuCacaUGGu -3'
miRNA:   3'- uAGCGGGG---UGGCCGCGGAguu-Gg--ACC- -5'
32089 3' -61.7 NC_007016.1 + 20995 0.67 0.5664
Target:  5'- aGUC-CCCC-CCGGCGUCUCc-CCcGGa -3'
miRNA:   3'- -UAGcGGGGuGGCCGCGGAGuuGGaCC- -5'
32089 3' -61.7 NC_007016.1 + 78632 0.67 0.546856
Target:  5'- -cCGUCaCGCCGGUGCCUCcACCa-- -3'
miRNA:   3'- uaGCGGgGUGGCCGCGGAGuUGGacc -5'
32089 3' -61.7 NC_007016.1 + 130016 0.67 0.537164
Target:  5'- -cCGCCCgGCCGGCccggGCCcgCGGCCg-- -3'
miRNA:   3'- uaGCGGGgUGGCCG----CGGa-GUUGGacc -5'
32089 3' -61.7 NC_007016.1 + 116248 0.68 0.517965
Target:  5'- gGUCGaaCCCGCCGGCGUCaacgucgCAGCC-GGc -3'
miRNA:   3'- -UAGCg-GGGUGGCCGCGGa------GUUGGaCC- -5'
32089 3' -61.7 NC_007016.1 + 104499 0.68 0.517965
Target:  5'- -cCGCCUCAaaagcggacacCCGGCGUgUUugaAGCCUGGa -3'
miRNA:   3'- uaGCGGGGU-----------GGCCGCGgAG---UUGGACC- -5'
32089 3' -61.7 NC_007016.1 + 106464 0.68 0.4897
Target:  5'- -cCGCCCCGagcguugccCCGGUgGCCUCcACCcuUGGg -3'
miRNA:   3'- uaGCGGGGU---------GGCCG-CGGAGuUGG--ACC- -5'
32089 3' -61.7 NC_007016.1 + 10799 0.68 0.471262
Target:  5'- -gCGCCucggCCACCGGCGaacuCUUCAgguuuaACCUGGa -3'
miRNA:   3'- uaGCGG----GGUGGCCGC----GGAGU------UGGACC- -5'
32089 3' -61.7 NC_007016.1 + 19704 0.68 0.471262
Target:  5'- --aGCCCUacGCUGGCGCCUCccccgacuGCCgcUGGa -3'
miRNA:   3'- uagCGGGG--UGGCCGCGGAGu-------UGG--ACC- -5'
32089 3' -61.7 NC_007016.1 + 7825 0.69 0.444286
Target:  5'- -cCGCCCuCACCguccaaacgacGGCGCgUCAGCC-GGu -3'
miRNA:   3'- uaGCGGG-GUGG-----------CCGCGgAGUUGGaCC- -5'
32089 3' -61.7 NC_007016.1 + 116301 0.69 0.444286
Target:  5'- gAUCGCaCCUuugGCCGGCcgGCCUCuGCCcGGc -3'
miRNA:   3'- -UAGCG-GGG---UGGCCG--CGGAGuUGGaCC- -5'
32089 3' -61.7 NC_007016.1 + 119214 0.7 0.376863
Target:  5'- -cCaCCCCGCCGGgcCGUCUCGGCCaGGa -3'
miRNA:   3'- uaGcGGGGUGGCC--GCGGAGUUGGaCC- -5'
32089 3' -61.7 NC_007016.1 + 22857 0.71 0.345835
Target:  5'- -aCGCCaCCACCGGcCGCCUCugcuCCg-- -3'
miRNA:   3'- uaGCGG-GGUGGCC-GCGGAGuu--GGacc -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.