miRNA display CGI


Results 1 - 20 of 24 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
18288 3' -54.3 NC_004681.1 + 3135 0.66 0.848328
Target:  5'- gGCCCuugGCGCCGCggGUGCGGG-Ca--- -3'
miRNA:   3'- -CGGG---UGUGGUGaaUACGUCCaGccag -5'
18288 3' -54.3 NC_004681.1 + 18171 0.66 0.839751
Target:  5'- uGCCCAUAcCCGCgg--GCGGGacaaUCGGa- -3'
miRNA:   3'- -CGGGUGU-GGUGaauaCGUCC----AGCCag -5'
18288 3' -54.3 NC_004681.1 + 25152 0.66 0.83096
Target:  5'- cGCCCGCGCCGCccucUGC-GGUCa--- -3'
miRNA:   3'- -CGGGUGUGGUGaau-ACGuCCAGccag -5'
18288 3' -54.3 NC_004681.1 + 13130 0.66 0.83096
Target:  5'- uGCCCGcCACCGCccuucgUGgcacgGCGGGUaCGGg- -3'
miRNA:   3'- -CGGGU-GUGGUGa-----AUa----CGUCCA-GCCag -5'
18288 3' -54.3 NC_004681.1 + 25242 0.66 0.812773
Target:  5'- gGUCCGCGCCAgcUAcGUAGGUCucGUCg -3'
miRNA:   3'- -CGGGUGUGGUgaAUaCGUCCAGc-CAG- -5'
18288 3' -54.3 NC_004681.1 + 39193 0.66 0.811843
Target:  5'- uGCCCGCgcaggugGCCACcagggcuUGCAcGGcgCGGUCg -3'
miRNA:   3'- -CGGGUG-------UGGUGaau----ACGU-CCa-GCCAG- -5'
18288 3' -54.3 NC_004681.1 + 37393 0.67 0.803396
Target:  5'- uGCCCGCgGCCuuCUUG-GCGGcGaCGGUCa -3'
miRNA:   3'- -CGGGUG-UGGu-GAAUaCGUC-CaGCCAG- -5'
18288 3' -54.3 NC_004681.1 + 20659 0.67 0.793844
Target:  5'- cGCCagcgcCGCCAUUUGUGC-GG-CGGUUg -3'
miRNA:   3'- -CGGgu---GUGGUGAAUACGuCCaGCCAG- -5'
18288 3' -54.3 NC_004681.1 + 75585 0.67 0.793844
Target:  5'- aGCUCGCGuCUGCUga-GCGGGUagUGGUCa -3'
miRNA:   3'- -CGGGUGU-GGUGAauaCGUCCA--GCCAG- -5'
18288 3' -54.3 NC_004681.1 + 7004 0.67 0.783145
Target:  5'- aGCCCACgguggugGCCACggacAUGCcguGGUCGacGUCg -3'
miRNA:   3'- -CGGGUG-------UGGUGaa--UACGu--CCAGC--CAG- -5'
18288 3' -54.3 NC_004681.1 + 60024 0.68 0.743819
Target:  5'- uGCCCAUgaaucCCAgUUcguaggGCGGGUCGGUg -3'
miRNA:   3'- -CGGGUGu----GGUgAAua----CGUCCAGCCAg -5'
18288 3' -54.3 NC_004681.1 + 24934 0.68 0.743819
Target:  5'- cGCCCGCGCCGCcgacgccgAUG-AGGUCGa-- -3'
miRNA:   3'- -CGGGUGUGGUGaa------UACgUCCAGCcag -5'
18288 3' -54.3 NC_004681.1 + 423 0.68 0.742785
Target:  5'- aGCCCucgcagaaauccgGCAgCCcguGCUUccGCGGGUCGGUg -3'
miRNA:   3'- -CGGG-------------UGU-GG---UGAAuaCGUCCAGCCAg -5'
18288 3' -54.3 NC_004681.1 + 60860 0.68 0.733438
Target:  5'- aGCCacuCGCC-CUUAUGCGuGGcUGGUCa -3'
miRNA:   3'- -CGGgu-GUGGuGAAUACGU-CCaGCCAG- -5'
18288 3' -54.3 NC_004681.1 + 53499 0.68 0.733438
Target:  5'- uGCCCuu-CUGCUUGcUGC-GGUUGGUCa -3'
miRNA:   3'- -CGGGuguGGUGAAU-ACGuCCAGCCAG- -5'
18288 3' -54.3 NC_004681.1 + 52375 0.69 0.691029
Target:  5'- gGCCCGCGgCGCg-AUGUcgaGGGUCGGa- -3'
miRNA:   3'- -CGGGUGUgGUGaaUACG---UCCAGCCag -5'
18288 3' -54.3 NC_004681.1 + 29182 0.69 0.691029
Target:  5'- cGCCguUAauCCugUUAUGCGcguGGUUGGUCa -3'
miRNA:   3'- -CGGguGU--GGugAAUACGU---CCAGCCAG- -5'
18288 3' -54.3 NC_004681.1 + 47259 0.7 0.593355
Target:  5'- cGCCUACAUCGCaacgAUGaAGGcCGGUCu -3'
miRNA:   3'- -CGGGUGUGGUGaa--UACgUCCaGCCAG- -5'
18288 3' -54.3 NC_004681.1 + 56417 0.71 0.539766
Target:  5'- aGCgCACACCugUUGgagGCGGGccgcgaGGUCa -3'
miRNA:   3'- -CGgGUGUGGugAAUa--CGUCCag----CCAG- -5'
18288 3' -54.3 NC_004681.1 + 29451 0.72 0.518771
Target:  5'- cGgCUACACCACgg--GCGGugaGUCGGUCa -3'
miRNA:   3'- -CgGGUGUGGUGaauaCGUC---CAGCCAG- -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.