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 + 15819 0.76 0.185194
Target:  5'- -gCGAAGCCGUgGUCGAGGCCgUCa- -3'
miRNA:   3'- gaGCUUCGGCAaCGGCUUCGGgAGcc -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 + 34478 0.66 0.617037
Target:  5'- -cCGGcucGCCGUUGCguaCGGcuCCCUCGGa -3'
miRNA:   3'- gaGCUu--CGGCAACG---GCUucGGGAGCC- -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 + 35562 0.68 0.530834
Target:  5'- cCUUGAaauAGgCGUcaGCCGAAucGCCCUUGGa -3'
miRNA:   3'- -GAGCU---UCgGCAa-CGGCUU--CGGGAGCC- -5'
7187 3' -56.3 NC_001900.1 + 46146 0.69 0.459206
Target:  5'- gUCGAugaccaGGCCGUUGCgCGAAGCggcagCUUCGa -3'
miRNA:   3'- gAGCU------UCGGCAACG-GCUUCG-----GGAGCc -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 + 8558 0.66 0.627961
Target:  5'- uUCGAgcuggcuccgcuGGaCCGggGCCaGAAGaucaCCCUCGGg -3'
miRNA:   3'- gAGCU------------UC-GGCaaCGG-CUUC----GGGAGCC- -5'
7187 3' -56.3 NC_001900.1 + 34875 0.67 0.562789
Target:  5'- --aGAGGCCGUgccGCCGAAcGUCUUCa- -3'
miRNA:   3'- gagCUUCGGCAa--CGGCUU-CGGGAGcc -5'
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 + 29355 0.72 0.332598
Target:  5'- uUCGggGUCGgUGCCGAucAGCaccggacccaucuCCUCGGc -3'
miRNA:   3'- gAGCuuCGGCaACGGCU--UCG-------------GGAGCC- -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 + 9274 0.66 0.627961
Target:  5'- -aCGAGGCUGagcGCCGAccagaGGCCaUCGGc -3'
miRNA:   3'- gaGCUUCGGCaa-CGGCU-----UCGGgAGCC- -5'
7187 3' -56.3 NC_001900.1 + 39015 0.66 0.64981
Target:  5'- gCUCGGcuGCCGagaacUGCUGGAucuuGCCUUCGGc -3'
miRNA:   3'- -GAGCUu-CGGCa----ACGGCUU----CGGGAGCC- -5'
7187 3' -56.3 NC_001900.1 + 44068 0.66 0.636703
Target:  5'- -cCGccGCCG-UGCUGGAGCCCgacgagcaugacCGGg -3'
miRNA:   3'- gaGCuuCGGCaACGGCUUCGGGa-----------GCC- -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 + 19474 0.69 0.469137
Target:  5'- -cCGAugGGCCGgcggcUGCCGGuggaccGCUCUCGGa -3'
miRNA:   3'- gaGCU--UCGGCa----ACGGCUu-----CGGGAGCC- -5'
7187 3' -56.3 NC_001900.1 + 46040 0.68 0.499563
Target:  5'- -gCGGAcCCGUcGCCGGucGCCUUCGGu -3'
miRNA:   3'- gaGCUUcGGCAaCGGCUu-CGGGAGCC- -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 + 47328 0.66 0.627961
Target:  5'- gCUUGGugcuGCCGUacaUGCUcauGCCCUUGGg -3'
miRNA:   3'- -GAGCUu---CGGCA---ACGGcuuCGGGAGCC- -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.