miRNA display CGI


Results 1 - 20 of 225 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
23622 3' -62.5 NC_005261.1 + 138205 0.73 0.230919
Target:  5'- gGCGGGGgGCaGG-GCGGACGgCgGCUCg -3'
miRNA:   3'- -CGCUCCgCGaCCgCGCCUGC-GaCGAG- -5'
23622 3' -62.5 NC_005261.1 + 138031 0.69 0.402519
Target:  5'- cGCGGcccggcGGCGgUGGCgGCGGugGCgGCg- -3'
miRNA:   3'- -CGCU------CCGCgACCG-CGCCugCGaCGag -5'
23622 3' -62.5 NC_005261.1 + 137827 0.66 0.604182
Target:  5'- cGCGGGGCuggcaggGCUGGCggaguugGCGGggcugGCGCcccuggUGCUCc -3'
miRNA:   3'- -CGCUCCG-------CGACCG-------CGCC-----UGCG------ACGAG- -5'
23622 3' -62.5 NC_005261.1 + 137774 0.66 0.586424
Target:  5'- uGCGGGGCGCgcccccgGGCcccgccgcccGCGccGGCGCcgccccuggUGCUCg -3'
miRNA:   3'- -CGCUCCGCGa------CCG----------CGC--CUGCG---------ACGAG- -5'
23622 3' -62.5 NC_005261.1 + 137061 0.66 0.585441
Target:  5'- gGC-AGGCGCggaGGCGCGGGCacccaugGCgGCg- -3'
miRNA:   3'- -CGcUCCGCGa--CCGCGCCUG-------CGaCGag -5'
23622 3' -62.5 NC_005261.1 + 136788 0.66 0.60616
Target:  5'- gGCGAGGCGgUgcaGGC-CaGugGCggGCUCg -3'
miRNA:   3'- -CGCUCCGCgA---CCGcGcCugCGa-CGAG- -5'
23622 3' -62.5 NC_005261.1 + 136493 0.7 0.362438
Target:  5'- aGCGA-GCaGCUcGGCGCcGACGCcUGCUCc -3'
miRNA:   3'- -CGCUcCG-CGA-CCGCGcCUGCG-ACGAG- -5'
23622 3' -62.5 NC_005261.1 + 136386 0.66 0.59628
Target:  5'- aCGAGGUGCcgggacugGGgGCGGACGUgGUg- -3'
miRNA:   3'- cGCUCCGCGa-------CCgCGCCUGCGaCGag -5'
23622 3' -62.5 NC_005261.1 + 135642 0.66 0.557069
Target:  5'- uGCGcugcuaccuGCGCgGGCGCGGGCGgccCUcGCUCg -3'
miRNA:   3'- -CGCuc-------CGCGaCCGCGCCUGC---GA-CGAG- -5'
23622 3' -62.5 NC_005261.1 + 135426 0.72 0.27422
Target:  5'- uCGAGGUGCgcucGcacgccgcccaggcgGCGCGGGCGCUGCg- -3'
miRNA:   3'- cGCUCCGCGa---C---------------CGCGCCUGCGACGag -5'
23622 3' -62.5 NC_005261.1 + 134997 0.7 0.347201
Target:  5'- cCGGGGCGCcccUGGCGCGGcgggcccgcACGCgGC-Cg -3'
miRNA:   3'- cGCUCCGCG---ACCGCGCC---------UGCGaCGaG- -5'
23622 3' -62.5 NC_005261.1 + 134442 0.7 0.339756
Target:  5'- cGCGGGGCuGCUGGUGaaGGCGCU-CUa -3'
miRNA:   3'- -CGCUCCG-CGACCGCgcCUGCGAcGAg -5'
23622 3' -62.5 NC_005261.1 + 134187 0.69 0.410865
Target:  5'- uGCGgaGGGC-CUGGCGCGGcucgGCGCgcgGgUCg -3'
miRNA:   3'- -CGC--UCCGcGACCGCGCC----UGCGa--CgAG- -5'
23622 3' -62.5 NC_005261.1 + 134143 0.68 0.472154
Target:  5'- cUGGGcuGCGcCUGGCGCcacccgGGGCuGCUGCUCc -3'
miRNA:   3'- cGCUC--CGC-GACCGCG------CCUG-CGACGAG- -5'
23622 3' -62.5 NC_005261.1 + 133823 0.75 0.17733
Target:  5'- aCGAGGCGCU-GCGCGGcCGCgUGCg- -3'
miRNA:   3'- cGCUCCGCGAcCGCGCCuGCG-ACGag -5'
23622 3' -62.5 NC_005261.1 + 133618 0.66 0.60616
Target:  5'- ----cGCGCUGGCGCuguGGGcCGC-GCUCg -3'
miRNA:   3'- cgcucCGCGACCGCG---CCU-GCGaCGAG- -5'
23622 3' -62.5 NC_005261.1 + 133567 0.68 0.46311
Target:  5'- cGgGGGGCGgacggcuaaccUUGccGCGCuGGCGCUGCUCa -3'
miRNA:   3'- -CgCUCCGC-----------GAC--CGCGcCUGCGACGAG- -5'
23622 3' -62.5 NC_005261.1 + 133540 0.73 0.22025
Target:  5'- uCGGGGCGCgcaGCGCaGcAUGCUGCUCg -3'
miRNA:   3'- cGCUCCGCGac-CGCGcC-UGCGACGAG- -5'
23622 3' -62.5 NC_005261.1 + 133349 0.68 0.436538
Target:  5'- cGCGcGGCGCUGccGCGCaGGGCuucgGCUGCc- -3'
miRNA:   3'- -CGCuCCGCGAC--CGCG-CCUG----CGACGag -5'
23622 3' -62.5 NC_005261.1 + 132623 0.79 0.087697
Target:  5'- -gGGGGCGCUGGCGCcgaGGACGCggGCg- -3'
miRNA:   3'- cgCUCCGCGACCGCG---CCUGCGa-CGag -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.