miRNA display CGI


Results 1 - 20 of 35 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
7187 3' -56.3 NC_001900.1 + 5738 0.7 0.393049
Target:  5'- cCUCGAugaccGCCGacGCCGGuacaaccuGGCCCUCGc -3'
miRNA:   3'- -GAGCUu----CGGCaaCGGCU--------UCGGGAGCc -5'
7187 3' -56.3 NC_001900.1 + 8558 0.66 0.627961
Target:  5'- uUCGAgcuggcuccgcuGGaCCGggGCCaGAAGaucaCCCUCGGg -3'
miRNA:   3'- gAGCU------------UC-GGCaaCGG-CUUC----GGGAGCC- -5'
7187 3' -56.3 NC_001900.1 + 9274 0.66 0.627961
Target:  5'- -aCGAGGCUGagcGCCGAccagaGGCCaUCGGc -3'
miRNA:   3'- gaGCUUCGGCaa-CGGCU-----UCGGgAGCC- -5'
7187 3' -56.3 NC_001900.1 + 13821 0.66 0.627961
Target:  5'- gCUgGGugAGCgGgugGaCCGAgaAGCCCUCGGa -3'
miRNA:   3'- -GAgCU--UCGgCaa-C-GGCU--UCGGGAGCC- -5'
7187 3' -56.3 NC_001900.1 + 15276 0.66 0.638888
Target:  5'- gUCGAGGCCGUgGCCGcacGGU--UCGGc -3'
miRNA:   3'- gAGCUUCGGCAaCGGCu--UCGggAGCC- -5'
7187 3' -56.3 NC_001900.1 + 15819 0.76 0.185194
Target:  5'- -gCGAAGCCGUgGUCGAGGCCgUCa- -3'
miRNA:   3'- gaGCUUCGGCAaCGGCUUCGGgAGcc -5'
7187 3' -56.3 NC_001900.1 + 17715 0.66 0.617037
Target:  5'- gCUCuGggGCCugUGCUGAccguggucgcugAGaCCCUCGGc -3'
miRNA:   3'- -GAG-CuuCGGcaACGGCU------------UC-GGGAGCC- -5'
7187 3' -56.3 NC_001900.1 + 19474 0.69 0.469137
Target:  5'- -cCGAugGGCCGgcggcUGCCGGuggaccGCUCUCGGa -3'
miRNA:   3'- gaGCU--UCGGCa----ACGGCUu-----CGGGAGCC- -5'
7187 3' -56.3 NC_001900.1 + 20006 0.66 0.638888
Target:  5'- -cCGAGGCCGUggucgcgcUGCUGggG-UCUCGa -3'
miRNA:   3'- gaGCUUCGGCA--------ACGGCuuCgGGAGCc -5'
7187 3' -56.3 NC_001900.1 + 22980 0.66 0.660715
Target:  5'- aUCGuGGacaUGcUGCUGcAGGCCCUCGGc -3'
miRNA:   3'- gAGCuUCg--GCaACGGC-UUCGGGAGCC- -5'
7187 3' -56.3 NC_001900.1 + 24585 0.69 0.453301
Target:  5'- gUCGAacgcuggccacaccuGGUCGUUGCCGAGGCugaCCUUcaGGa -3'
miRNA:   3'- gAGCU---------------UCGGCAACGGCUUCG---GGAG--CC- -5'
7187 3' -56.3 NC_001900.1 + 25256 0.68 0.541419
Target:  5'- -cCGAuAGCCGa--CCGGAGCCCgucgUCGGa -3'
miRNA:   3'- gaGCU-UCGGCaacGGCUUCGGG----AGCC- -5'
7187 3' -56.3 NC_001900.1 + 25749 0.66 0.617037
Target:  5'- aCUCGGcccAGCCGggGCCGAccGCCg-UGGu -3'
miRNA:   3'- -GAGCU---UCGGCaaCGGCUu-CGGgaGCC- -5'
7187 3' -56.3 NC_001900.1 + 26066 0.66 0.638888
Target:  5'- cCUUGggGuuGaUGCCGAGGgCCUg-- -3'
miRNA:   3'- -GAGCuuCggCaACGGCUUCgGGAgcc -5'
7187 3' -56.3 NC_001900.1 + 27996 0.67 0.57356
Target:  5'- uUCGAAcaCGacgUG-CGGAGCCCUCGGg -3'
miRNA:   3'- gAGCUUcgGCa--ACgGCUUCGGGAGCC- -5'
7187 3' -56.3 NC_001900.1 + 28991 0.71 0.358129
Target:  5'- aCUCGAaguagaAGCCGggagGCCGA--CCUUCGGg -3'
miRNA:   3'- -GAGCU------UCGGCaa--CGGCUucGGGAGCC- -5'
7187 3' -56.3 NC_001900.1 + 29355 0.72 0.332598
Target:  5'- uUCGggGUCGgUGCCGAucAGCaccggacccaucuCCUCGGc -3'
miRNA:   3'- gAGCuuCGGCaACGGCU--UCG-------------GGAGCC- -5'
7187 3' -56.3 NC_001900.1 + 30619 1.1 0.000703
Target:  5'- cCUCGAAGCCGUUGCCGAAGCCCUCGGc -3'
miRNA:   3'- -GAGCUUCGGCAACGGCUUCGGGAGCC- -5'
7187 3' -56.3 NC_001900.1 + 31846 0.7 0.430106
Target:  5'- gUCGAGGauGUucuggagcUGCUGGAGCCC-CGGa -3'
miRNA:   3'- gAGCUUCggCA--------ACGGCUUCGGGaGCC- -5'
7187 3' -56.3 NC_001900.1 + 33915 0.7 0.393049
Target:  5'- cCUCGAAGCCGaacuCgGGAGCgugCCUCGGc -3'
miRNA:   3'- -GAGCUUCGGCaac-GgCUUCG---GGAGCC- -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.