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
23683 3' -53.9 NC_005261.1 + 103964 0.66 0.942629
Target:  5'- cCGCGgcGGCCGccacACggAAGCgCUCGCCGc -3'
miRNA:   3'- -GCGC--UCGGCa---UGaaUUCG-GAGUGGUa -5'
23683 3' -53.9 NC_005261.1 + 28188 0.66 0.942629
Target:  5'- gCGCGccgaAGCCG-GC---GGCCUCGCCGc -3'
miRNA:   3'- -GCGC----UCGGCaUGaauUCGGAGUGGUa -5'
23683 3' -53.9 NC_005261.1 + 69220 0.66 0.937794
Target:  5'- cCGgGAGCUGUGCgcgcugGGGCggUUCGCCGa -3'
miRNA:   3'- -GCgCUCGGCAUGaa----UUCG--GAGUGGUa -5'
23683 3' -53.9 NC_005261.1 + 91281 0.66 0.937794
Target:  5'- aGCuGAGCCGcccGCccgAGGCCUaCGCCAa -3'
miRNA:   3'- gCG-CUCGGCa--UGaa-UUCGGA-GUGGUa -5'
23683 3' -53.9 NC_005261.1 + 115581 0.66 0.932706
Target:  5'- aCGCGgcgaggaacuGGCCGUACgUGAGCCcCAgCGa -3'
miRNA:   3'- -GCGC----------UCGGCAUGaAUUCGGaGUgGUa -5'
23683 3' -53.9 NC_005261.1 + 51254 0.66 0.927365
Target:  5'- gGCG-GCCGUGCUgcuGCUgucccacaagaUCGCCGUc -3'
miRNA:   3'- gCGCuCGGCAUGAauuCGG-----------AGUGGUA- -5'
23683 3' -53.9 NC_005261.1 + 103856 0.66 0.921768
Target:  5'- gCGCGAGCCGcgGCggcggcgGGGCggCGCCGc -3'
miRNA:   3'- -GCGCUCGGCa-UGaa-----UUCGgaGUGGUa -5'
23683 3' -53.9 NC_005261.1 + 81805 0.66 0.921768
Target:  5'- aGCGAGCCGcUGCgcggcggUGAcGCCccgCGCCGc -3'
miRNA:   3'- gCGCUCGGC-AUGa------AUU-CGGa--GUGGUa -5'
23683 3' -53.9 NC_005261.1 + 16737 0.67 0.915917
Target:  5'- gGCGAGCCGcGCg--GGCgC-CGCCAUg -3'
miRNA:   3'- gCGCUCGGCaUGaauUCG-GaGUGGUA- -5'
23683 3' -53.9 NC_005261.1 + 84130 0.67 0.915917
Target:  5'- aGCGGGCgGggucGCUggcGGGCCUCgGCCAc -3'
miRNA:   3'- gCGCUCGgCa---UGAa--UUCGGAG-UGGUa -5'
23683 3' -53.9 NC_005261.1 + 135693 0.67 0.909813
Target:  5'- cCGCGcGgCG-GC-UAAGCCUCGCCAc -3'
miRNA:   3'- -GCGCuCgGCaUGaAUUCGGAGUGGUa -5'
23683 3' -53.9 NC_005261.1 + 121211 0.67 0.909813
Target:  5'- cCGCGGGCCGgagACUgcAGCaccgcauggCGCCGg -3'
miRNA:   3'- -GCGCUCGGCa--UGAauUCGga-------GUGGUa -5'
23683 3' -53.9 NC_005261.1 + 2507 0.67 0.904104
Target:  5'- cCGCGAGCCGcgccgcgaccucgggGCggcagUAGGCCgccagCGCCGc -3'
miRNA:   3'- -GCGCUCGGCa--------------UGa----AUUCGGa----GUGGUa -5'
23683 3' -53.9 NC_005261.1 + 91196 0.67 0.903457
Target:  5'- gCGCGcuucggcGCCGUGCUggccgAGGCCcaCGCCAa -3'
miRNA:   3'- -GCGCu------CGGCAUGAa----UUCGGa-GUGGUa -5'
23683 3' -53.9 NC_005261.1 + 133654 0.67 0.896852
Target:  5'- gCGCGAGCgcugCGUGCUc--GCCUCcggcGCCAa -3'
miRNA:   3'- -GCGCUCG----GCAUGAauuCGGAG----UGGUa -5'
23683 3' -53.9 NC_005261.1 + 88434 0.67 0.896852
Target:  5'- uCGCGGGCCaccGCUgcuGGCCgCGCCGc -3'
miRNA:   3'- -GCGCUCGGca-UGAau-UCGGaGUGGUa -5'
23683 3' -53.9 NC_005261.1 + 130675 0.67 0.896178
Target:  5'- gGCGAGCCccugcccgcgcgcGUGCUgcucGAGCacCUCGCCGa -3'
miRNA:   3'- gCGCUCGG-------------CAUGAa---UUCG--GAGUGGUa -5'
23683 3' -53.9 NC_005261.1 + 132252 0.67 0.890002
Target:  5'- -aCGAGCUGUucaACgcccGCCUCGCCGUg -3'
miRNA:   3'- gcGCUCGGCA---UGaauuCGGAGUGGUA- -5'
23683 3' -53.9 NC_005261.1 + 66230 0.67 0.890002
Target:  5'- aGC-AGCCGcUGCUUGAuGCC-CGCCGUc -3'
miRNA:   3'- gCGcUCGGC-AUGAAUU-CGGaGUGGUA- -5'
23683 3' -53.9 NC_005261.1 + 78870 0.67 0.890002
Target:  5'- gCGCGAGCCGcguc--AGCCgguUCGCCAg -3'
miRNA:   3'- -GCGCUCGGCaugaauUCGG---AGUGGUa -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.