miRNA display CGI


Results 1 - 20 of 66 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
6880 3' -61.3 NC_001875.2 + 50228 0.67 0.580735
Target:  5'- -aCAGCCGuuuGGCG-CGgCGCGGCAUc -3'
miRNA:   3'- ugGUCGGUcu-CCGCaGCaGCGCCGUG- -5'
6880 3' -61.3 NC_001875.2 + 2537 0.68 0.493458
Target:  5'- cGCCgGGCCGGugaacaacGGCG-CGUCG-GGCGCa -3'
miRNA:   3'- -UGG-UCGGUCu-------CCGCaGCAGCgCCGUG- -5'
6880 3' -61.3 NC_001875.2 + 33461 0.68 0.512398
Target:  5'- gGCCGGCCAGuGGU--CGaaaGUGGCGCg -3'
miRNA:   3'- -UGGUCGGUCuCCGcaGCag-CGCCGUG- -5'
6880 3' -61.3 NC_001875.2 + 105550 0.68 0.52198
Target:  5'- -gCAGUCGucGGUGUCGUCGUcGCACu -3'
miRNA:   3'- ugGUCGGUcuCCGCAGCAGCGcCGUG- -5'
6880 3' -61.3 NC_001875.2 + 90886 0.68 0.531631
Target:  5'- uGCUGGCCGGGGcCG-CGUCG-GGCAUg -3'
miRNA:   3'- -UGGUCGGUCUCcGCaGCAGCgCCGUG- -5'
6880 3' -61.3 NC_001875.2 + 39316 0.67 0.551119
Target:  5'- cACCGuGCCGGcGGCGUgCGcgCGCugcaGGCGCa -3'
miRNA:   3'- -UGGU-CGGUCuCCGCA-GCa-GCG----CCGUG- -5'
6880 3' -61.3 NC_001875.2 + 6363 0.67 0.560946
Target:  5'- cUCGGCCAcGAuGuCGUCGUCG-GGCACc -3'
miRNA:   3'- uGGUCGGU-CUcC-GCAGCAGCgCCGUG- -5'
6880 3' -61.3 NC_001875.2 + 103035 0.67 0.56983
Target:  5'- cACCGGCUcgcucacGGAGaagcCGUCGUCGUcGCACa -3'
miRNA:   3'- -UGGUCGG-------UCUCc---GCAGCAGCGcCGUG- -5'
6880 3' -61.3 NC_001875.2 + 95406 0.67 0.56983
Target:  5'- -gCAGCgCGccGGCGUCGcaaagguaaggccUCGCGGCGCc -3'
miRNA:   3'- ugGUCG-GUcuCCGCAGC-------------AGCGCCGUG- -5'
6880 3' -61.3 NC_001875.2 + 81308 0.68 0.48132
Target:  5'- cGCC-GCCGGcGGCGccuccuccucgucaUCGUgccgCGCGGCGCg -3'
miRNA:   3'- -UGGuCGGUCuCCGC--------------AGCA----GCGCCGUG- -5'
6880 3' -61.3 NC_001875.2 + 21240 0.69 0.429933
Target:  5'- cACCAGUUGGcgaagcugguccAGGCGcgCG-CGCGGCGCg -3'
miRNA:   3'- -UGGUCGGUC------------UCCGCa-GCaGCGCCGUG- -5'
6880 3' -61.3 NC_001875.2 + 37885 0.69 0.421253
Target:  5'- gGCCGcGCCAGcGGC-UUGcuggCGCGGCACu -3'
miRNA:   3'- -UGGU-CGGUCuCCGcAGCa---GCGCCGUG- -5'
6880 3' -61.3 NC_001875.2 + 58523 0.76 0.159755
Target:  5'- cGCCGGaCCuguGucGCGUCGUCGCGGCGu -3'
miRNA:   3'- -UGGUC-GGu--CucCGCAGCAGCGCCGUg -5'
6880 3' -61.3 NC_001875.2 + 90442 0.75 0.204356
Target:  5'- gACgCGcGCgCAGAGGCGUCGguggGCGGCGCg -3'
miRNA:   3'- -UG-GU-CG-GUCUCCGCAGCag--CGCCGUG- -5'
6880 3' -61.3 NC_001875.2 + 41699 0.72 0.297832
Target:  5'- uCCugGGCCAG-GGCGUaugCGCGGCGCu -3'
miRNA:   3'- uGG--UCGGUCuCCGCAgcaGCGCCGUG- -5'
6880 3' -61.3 NC_001875.2 + 99263 0.72 0.304659
Target:  5'- gGCUAGUC-GAGGUG-CG-CGCGGCACu -3'
miRNA:   3'- -UGGUCGGuCUCCGCaGCaGCGCCGUG- -5'
6880 3' -61.3 NC_001875.2 + 109995 0.72 0.311606
Target:  5'- cGCgCGGUCGGuGGCGUUGaCGCGcGCGCa -3'
miRNA:   3'- -UG-GUCGGUCuCCGCAGCaGCGC-CGUG- -5'
6880 3' -61.3 NC_001875.2 + 35380 0.71 0.333164
Target:  5'- -gCAGCUGGAGGCGcugcUGUcCGUGGCGCg -3'
miRNA:   3'- ugGUCGGUCUCCGCa---GCA-GCGCCGUG- -5'
6880 3' -61.3 NC_001875.2 + 84378 0.71 0.339841
Target:  5'- gGCCuGCCGGGgcGGCGUCGguagCcggagcuucggcgGCGGCGCg -3'
miRNA:   3'- -UGGuCGGUCU--CCGCAGCa---G-------------CGCCGUG- -5'
6880 3' -61.3 NC_001875.2 + 36598 0.7 0.382725
Target:  5'- gGCgCAGCCGcuGcGCGUCGcccuugcaccaccgaUCGCGGCACa -3'
miRNA:   3'- -UG-GUCGGUcuC-CGCAGC---------------AGCGCCGUG- -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.