miRNA display CGI


Results 1 - 20 of 69 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
23055 3' -53.5 NC_005178.1 + 36098 0.72 0.355107
Target:  5'- cUAUCUGGGAGUAcauGCCG-CCCAGGu -3'
miRNA:   3'- -GUGGGCCUUCGUuauUGGCuGGGUCC- -5'
23055 3' -53.5 NC_005178.1 + 35604 0.72 0.37291
Target:  5'- gGCCCGGAAGCug-GGgCGACggugacgcuCCAGGu -3'
miRNA:   3'- gUGGGCCUUCGuuaUUgGCUG---------GGUCC- -5'
23055 3' -53.5 NC_005178.1 + 34638 0.69 0.513038
Target:  5'- uCGCCCGGccAGCuccccGGUGGCaCG-CCCAGGa -3'
miRNA:   3'- -GUGGGCCu-UCG-----UUAUUG-GCuGGGUCC- -5'
23055 3' -53.5 NC_005178.1 + 33987 0.67 0.670286
Target:  5'- -cCCCGGAA-----AGCCGGCaCCAGGc -3'
miRNA:   3'- guGGGCCUUcguuaUUGGCUG-GGUCC- -5'
23055 3' -53.5 NC_005178.1 + 33907 0.72 0.390376
Target:  5'- gCGCCUGGcGGCGAUGcucggcggccgguGCCGGCuuuCCGGGg -3'
miRNA:   3'- -GUGGGCCuUCGUUAU-------------UGGCUG---GGUCC- -5'
23055 3' -53.5 NC_005178.1 + 33794 0.67 0.674809
Target:  5'- uCGCCCGGAuuGCAcaAACUucaucgacuuucuuGCCCAGGg -3'
miRNA:   3'- -GUGGGCCUu-CGUuaUUGGc-------------UGGGUCC- -5'
23055 3' -53.5 NC_005178.1 + 33557 0.71 0.449916
Target:  5'- cCugCCGGuGGCAGUAGCCcugucgaguGGUCCAGGu -3'
miRNA:   3'- -GugGGCCuUCGUUAUUGG---------CUGGGUCC- -5'
23055 3' -53.5 NC_005178.1 + 33104 0.71 0.449916
Target:  5'- cCugCCGGAAuGCccucgguGCCG-CCCAGGa -3'
miRNA:   3'- -GugGGCCUU-CGuuau---UGGCuGGGUCC- -5'
23055 3' -53.5 NC_005178.1 + 32628 0.66 0.715113
Target:  5'- gACCCGGucgccGAGCGGUGccgUCGACCUGGu -3'
miRNA:   3'- gUGGGCC-----UUCGUUAUu--GGCUGGGUCc -5'
23055 3' -53.5 NC_005178.1 + 31998 0.66 0.737051
Target:  5'- cCGCUCGGcucGGCccauGCCGAUCCAGc -3'
miRNA:   3'- -GUGGGCCu--UCGuuauUGGCUGGGUCc -5'
23055 3' -53.5 NC_005178.1 + 31859 0.66 0.689457
Target:  5'- cCACCuUGGAcaacGGCAgcgcgauuccccgcGUGACCGACgucgCCGGGa -3'
miRNA:   3'- -GUGG-GCCU----UCGU--------------UAUUGGCUG----GGUCC- -5'
23055 3' -53.5 NC_005178.1 + 30956 0.66 0.715113
Target:  5'- aCAgCCGGuuGUAAUAGuuGucuUCCAGGg -3'
miRNA:   3'- -GUgGGCCuuCGUUAUUggCu--GGGUCC- -5'
23055 3' -53.5 NC_005178.1 + 30888 0.67 0.681581
Target:  5'- gCGCCCuGGAAGaCAAcuauuacAACCGGCUguGGc -3'
miRNA:   3'- -GUGGG-CCUUC-GUUa------UUGGCUGGguCC- -5'
23055 3' -53.5 NC_005178.1 + 30885 0.67 0.670286
Target:  5'- --aCCGGcugauGCGccgcGUAgacGCCGGCCCAGGu -3'
miRNA:   3'- gugGGCCuu---CGU----UAU---UGGCUGGGUCC- -5'
23055 3' -53.5 NC_005178.1 + 30790 0.7 0.470502
Target:  5'- cCGCCUGGcAGCGGUcgcGGCCucGACCUGGGc -3'
miRNA:   3'- -GUGGGCCuUCGUUA---UUGG--CUGGGUCC- -5'
23055 3' -53.5 NC_005178.1 + 30720 1.09 0.00096
Target:  5'- uCACCCGGAAGCAAUAACCGACCCAGGc -3'
miRNA:   3'- -GUGGGCCUUCGUUAUUGGCUGGGUCC- -5'
23055 3' -53.5 NC_005178.1 + 29013 0.78 0.150436
Target:  5'- uCACCUGGcgcacGGCGAUGGCCGugCCGGa -3'
miRNA:   3'- -GUGGGCCu----UCGUUAUUGGCugGGUCc -5'
23055 3' -53.5 NC_005178.1 + 28287 0.68 0.602115
Target:  5'- gGCCUGGAuAGCGGcggcGCCG-CUCAGGa -3'
miRNA:   3'- gUGGGCCU-UCGUUau--UGGCuGGGUCC- -5'
23055 3' -53.5 NC_005178.1 + 28157 0.68 0.629392
Target:  5'- aACCCGGaAAGCAGagacgccccUAGCUGGCgggucgccauccuggCCAGGu -3'
miRNA:   3'- gUGGGCC-UUCGUU---------AUUGGCUG---------------GGUCC- -5'
23055 3' -53.5 NC_005178.1 + 28122 0.71 0.410292
Target:  5'- gGCCUGGGcgguGGCAccgAUGGCgGcGCCCAGGg -3'
miRNA:   3'- gUGGGCCU----UCGU---UAUUGgC-UGGGUCC- -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.