miRNA display CGI


Results 1 - 20 of 33 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
23741 3' -56.2 NC_005261.1 + 84 0.66 0.864681
Target:  5'- gGCGg-GGUGcGggGCGCgCC-CCCGGg -3'
miRNA:   3'- aCGCagUCAC-CuuCGUGaGGuGGGUC- -5'
23741 3' -56.2 NC_005261.1 + 1056 0.66 0.886555
Target:  5'- gGCGUUAGcggcgcgGGggGCugGCcCCGCuCCAGg -3'
miRNA:   3'- aCGCAGUCa------CCuuCG--UGaGGUG-GGUC- -5'
23741 3' -56.2 NC_005261.1 + 9629 0.66 0.856952
Target:  5'- gGCGggGGUGGggGCugggugggcgggGC-CCACUCGGg -3'
miRNA:   3'- aCGCagUCACCuuCG------------UGaGGUGGGUC- -5'
23741 3' -56.2 NC_005261.1 + 11869 0.7 0.62814
Target:  5'- aGCGUCAGcUGcGggGCGagcCCGCCCGc -3'
miRNA:   3'- aCGCAGUC-AC-CuuCGUga-GGUGGGUc -5'
23741 3' -56.2 NC_005261.1 + 23290 0.67 0.806459
Target:  5'- cGCGUCcGUGG--GCACagCACCCGu -3'
miRNA:   3'- aCGCAGuCACCuuCGUGagGUGGGUc -5'
23741 3' -56.2 NC_005261.1 + 24048 0.7 0.638499
Target:  5'- gGCGUCcuUGGGugGGCGC-CCGCCCGa -3'
miRNA:   3'- aCGCAGucACCU--UCGUGaGGUGGGUc -5'
23741 3' -56.2 NC_005261.1 + 30788 0.68 0.75406
Target:  5'- cGCGgCGGUGGAGGUGCUggggCCggaggagcuggggggGCCCGGg -3'
miRNA:   3'- aCGCaGUCACCUUCGUGA----GG---------------UGGGUC- -5'
23741 3' -56.2 NC_005261.1 + 31424 0.66 0.871453
Target:  5'- cUGCc-CGG-GGAGGCGCUggcggcgCCGCCCGGc -3'
miRNA:   3'- -ACGcaGUCaCCUUCGUGA-------GGUGGGUC- -5'
23741 3' -56.2 NC_005261.1 + 44205 0.67 0.840878
Target:  5'- cGCGagcugCAGgcggcccGGGAGCGCgcgcugcuggCCGCCCAGc -3'
miRNA:   3'- aCGCa----GUCa------CCUUCGUGa---------GGUGGGUC- -5'
23741 3' -56.2 NC_005261.1 + 51008 0.67 0.797429
Target:  5'- gGCG-CGGcGGGAGCucgGCgagcgCCACCCGGc -3'
miRNA:   3'- aCGCaGUCaCCUUCG---UGa----GGUGGGUC- -5'
23741 3' -56.2 NC_005261.1 + 53049 0.72 0.556141
Target:  5'- aGcCGUCGGgagGGcAGUGCUCCACcCCGGg -3'
miRNA:   3'- aC-GCAGUCa--CCuUCGUGAGGUG-GGUC- -5'
23741 3' -56.2 NC_005261.1 + 56472 0.68 0.778919
Target:  5'- aGCGUCA-UGGAGGCGCUggagucuaugCgCGCCuCAGg -3'
miRNA:   3'- aCGCAGUcACCUUCGUGA----------G-GUGG-GUC- -5'
23741 3' -56.2 NC_005261.1 + 58517 0.66 0.856952
Target:  5'- cGCGUCca-GGAGGCggaucgagcccaGCcgCCGCCCGGg -3'
miRNA:   3'- aCGCAGucaCCUUCG------------UGa-GGUGGGUC- -5'
23741 3' -56.2 NC_005261.1 + 59467 0.68 0.777978
Target:  5'- gGCGUCGGgGGGcagcgccGGCGCggccgCCGCgCCAGc -3'
miRNA:   3'- aCGCAGUCaCCU-------UCGUGa----GGUG-GGUC- -5'
23741 3' -56.2 NC_005261.1 + 61591 0.66 0.886555
Target:  5'- cGUGUUcGUGGGcAGC-CUCCcGCCCAc -3'
miRNA:   3'- aCGCAGuCACCU-UCGuGAGG-UGGGUc -5'
23741 3' -56.2 NC_005261.1 + 64338 0.66 0.872194
Target:  5'- cGCGUCAG-GGcccGC-CUCCACCa-- -3'
miRNA:   3'- aCGCAGUCaCCuu-CGuGAGGUGGguc -5'
23741 3' -56.2 NC_005261.1 + 65508 0.71 0.576545
Target:  5'- gGCGUCA-UGGc-GCACUCCaucACCCAGc -3'
miRNA:   3'- aCGCAGUcACCuuCGUGAGG---UGGGUC- -5'
23741 3' -56.2 NC_005261.1 + 66298 0.7 0.648854
Target:  5'- gUGCGUCAGgcgcGGCACggCCACCgAGg -3'
miRNA:   3'- -ACGCAGUCaccuUCGUGa-GGUGGgUC- -5'
23741 3' -56.2 NC_005261.1 + 68616 0.66 0.879488
Target:  5'- gGCGUgGGggaGGAuGCGCgcCCGCCCGc -3'
miRNA:   3'- aCGCAgUCa--CCUuCGUGa-GGUGGGUc -5'
23741 3' -56.2 NC_005261.1 + 68736 0.66 0.886555
Target:  5'- gGCGcCGGcgGGAagaAGCGC-CCGCCgGGg -3'
miRNA:   3'- aCGCaGUCa-CCU---UCGUGaGGUGGgUC- -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.