miRNA display CGI


Results 1 - 20 of 34 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
23652 3' -51 NC_005261.1 + 79925 0.66 0.993484
Target:  5'- aGGAcgUGGCCAGG-CG-GCU-GAACa -3'
miRNA:   3'- gCUUuaGCCGGUCCaGCaUGAgCUUG- -5'
23652 3' -51 NC_005261.1 + 20267 0.66 0.992484
Target:  5'- cCGAGAaCcGCCGGGUCGUgucGCggGGGCg -3'
miRNA:   3'- -GCUUUaGcCGGUCCAGCA---UGagCUUG- -5'
23652 3' -51 NC_005261.1 + 73199 0.66 0.992484
Target:  5'- aCGAGGUUGGCCccGGG-CGc-CUCGAGg -3'
miRNA:   3'- -GCUUUAGCCGG--UCCaGCauGAGCUUg -5'
23652 3' -51 NC_005261.1 + 62745 0.66 0.990122
Target:  5'- gGAGggCGGCCAGGUCGcug-UGGGa -3'
miRNA:   3'- gCUUuaGCCGGUCCAGCaugaGCUUg -5'
23652 3' -51 NC_005261.1 + 49056 0.66 0.990122
Target:  5'- cCGAGcaCGGCCAGGUUc-GCgaagCGGGCa -3'
miRNA:   3'- -GCUUuaGCCGGUCCAGcaUGa---GCUUG- -5'
23652 3' -51 NC_005261.1 + 2437 0.66 0.988741
Target:  5'- gCGAucUCGGCCagcgccucgGGGUCGaaggCGAGCg -3'
miRNA:   3'- -GCUuuAGCCGG---------UCCAGCaugaGCUUG- -5'
23652 3' -51 NC_005261.1 + 13868 0.67 0.987213
Target:  5'- uCGccggCGGCCcGGUCGUACagGAAg -3'
miRNA:   3'- -GCuuuaGCCGGuCCAGCAUGagCUUg -5'
23652 3' -51 NC_005261.1 + 17083 0.67 0.983686
Target:  5'- aCGGGAUgGGCCcGGUgGUgugccagcGCUCGAu- -3'
miRNA:   3'- -GCUUUAgCCGGuCCAgCA--------UGAGCUug -5'
23652 3' -51 NC_005261.1 + 15699 0.67 0.981667
Target:  5'- gCGAGcguugcGUCGGCUGGGUgG-ACggCGAACg -3'
miRNA:   3'- -GCUU------UAGCCGGUCCAgCaUGa-GCUUG- -5'
23652 3' -51 NC_005261.1 + 85959 0.67 0.981667
Target:  5'- gGAAGcUGGCguGGUCcGUgauugcgcGCUCGAGCu -3'
miRNA:   3'- gCUUUaGCCGguCCAG-CA--------UGAGCUUG- -5'
23652 3' -51 NC_005261.1 + 8143 0.68 0.977075
Target:  5'- uCGAucUCgGGCCgGGGUCGauUGCUgGGACg -3'
miRNA:   3'- -GCUuuAG-CCGG-UCCAGC--AUGAgCUUG- -5'
23652 3' -51 NC_005261.1 + 5212 0.68 0.977075
Target:  5'- cCGAGGUccgCGGaCUcgaugAGGUCGUACaggUCGAGCg -3'
miRNA:   3'- -GCUUUA---GCC-GG-----UCCAGCAUG---AGCUUG- -5'
23652 3' -51 NC_005261.1 + 75405 0.68 0.96991
Target:  5'- aCGAGGgcgCGGCCcGGcgCGUGCaguacgcguucgacuUCGAGCg -3'
miRNA:   3'- -GCUUUa--GCCGGuCCa-GCAUG---------------AGCUUG- -5'
23652 3' -51 NC_005261.1 + 109328 0.68 0.96991
Target:  5'- gCGAGcgCGGCCgcgGGGUCGgcggccgcgucgccgUccagccGCUCGAGCg -3'
miRNA:   3'- -GCUUuaGCCGG---UCCAGC---------------A------UGAGCUUG- -5'
23652 3' -51 NC_005261.1 + 44513 0.68 0.968052
Target:  5'- ------gGGCCAGGaggugucggucgUGUACUCGAACa -3'
miRNA:   3'- gcuuuagCCGGUCCa-----------GCAUGAGCUUG- -5'
23652 3' -51 NC_005261.1 + 2807 0.68 0.968052
Target:  5'- cCGGGAggGGCCGGG-CGgccccagcccgaGCUCGGGCg -3'
miRNA:   3'- -GCUUUagCCGGUCCaGCa-----------UGAGCUUG- -5'
23652 3' -51 NC_005261.1 + 128740 0.69 0.958299
Target:  5'- cCGAGcuGUCGGCaucGUCG-ACUCGGGCu -3'
miRNA:   3'- -GCUU--UAGCCGgucCAGCaUGAGCUUG- -5'
23652 3' -51 NC_005261.1 + 59663 0.69 0.950196
Target:  5'- gCGAcugCGGCCGGGUCG---UCGAAg -3'
miRNA:   3'- -GCUuuaGCCGGUCCAGCaugAGCUUg -5'
23652 3' -51 NC_005261.1 + 106103 0.69 0.950196
Target:  5'- gCGAcGUCGGCCGGcGUCGccgGCgcgCGcGCg -3'
miRNA:   3'- -GCUuUAGCCGGUC-CAGCa--UGa--GCuUG- -5'
23652 3' -51 NC_005261.1 + 2085 0.69 0.945776
Target:  5'- gCGGAa--GGCCAGGUCccGCgucgCGAGCa -3'
miRNA:   3'- -GCUUuagCCGGUCCAGcaUGa---GCUUG- -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.