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 + 137037 0.66 0.886555
Target:  5'- gGCGUCGGUGGAGgGCGgaCCGUCggCAGg -3'
miRNA:   3'- aCGCAGUCACCUU-CGUgaGGUGG--GUC- -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 + 1056 0.66 0.886555
Target:  5'- gGCGUUAGcggcgcgGGggGCugGCcCCGCuCCAGg -3'
miRNA:   3'- aCGCAGUCa------CCuuCG--UGaGGUG-GGUC- -5'
23741 3' -56.2 NC_005261.1 + 68736 0.66 0.886555
Target:  5'- gGCGcCGGcgGGAagaAGCGC-CCGCCgGGg -3'
miRNA:   3'- aCGCaGUCa-CCU---UCGUGaGGUGGgUC- -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 + 81860 0.66 0.879488
Target:  5'- aGCGU---UGGAAGuCGCUcaCCACCCAc -3'
miRNA:   3'- aCGCAgucACCUUC-GUGA--GGUGGGUc -5'
23741 3' -56.2 NC_005261.1 + 93468 0.66 0.872194
Target:  5'- aGCG-CGGUGccGggGCGCgcgUCGCCCGc -3'
miRNA:   3'- aCGCaGUCAC--CuuCGUGa--GGUGGGUc -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 + 31424 0.66 0.871453
Target:  5'- cUGCc-CGG-GGAGGCGCUggcggcgCCGCCCGGc -3'
miRNA:   3'- -ACGcaGUCaCCUUCGUGA-------GGUGGGUC- -5'
23741 3' -56.2 NC_005261.1 + 137767 0.66 0.864681
Target:  5'- gGCGg-GGUGcGggGCGCgCC-CCCGGg -3'
miRNA:   3'- aCGCagUCAC-CuuCGUGaGGuGGGUC- -5'
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 + 58517 0.66 0.856952
Target:  5'- cGCGUCca-GGAGGCggaucgagcccaGCcgCCGCCCGGg -3'
miRNA:   3'- aCGCAGucaCCUUCG------------UGa-GGUGGGUC- -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 + 44205 0.67 0.840878
Target:  5'- cGCGagcugCAGgcggcccGGGAGCGCgcgcugcuggCCGCCCAGc -3'
miRNA:   3'- aCGCa----GUCa------CCUUCGUGa---------GGUGGGUC- -5'
23741 3' -56.2 NC_005261.1 + 105309 0.67 0.815328
Target:  5'- aGCG-CGG-GGuccucGCACUCCGCCCc- -3'
miRNA:   3'- aCGCaGUCaCCuu---CGUGAGGUGGGuc -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 + 51008 0.67 0.797429
Target:  5'- gGCG-CGGcGGGAGCucgGCgagcgCCACCCGGc -3'
miRNA:   3'- aCGCaGUCaCCUUCG---UGa----GGUGGGUC- -5'
23741 3' -56.2 NC_005261.1 + 106946 0.68 0.788246
Target:  5'- cGCGcaccUCGGcccGGgcGCGCUCCGCCuCGGc -3'
miRNA:   3'- aCGC----AGUCa--CCuuCGUGAGGUGG-GUC- -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 + 59467 0.68 0.777978
Target:  5'- gGCGUCGGgGGGcagcgccGGCGCggccgCCGCgCCAGc -3'
miRNA:   3'- aCGCAGUCaCCU-------UCGUGa----GGUG-GGUC- -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.