miRNA display CGI


Results 1 - 19 of 19 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
7329 3' -59 NC_001900.1 + 33143 0.66 0.462136
Target:  5'- cCGGUccAUCAGGGCgaaccacuucuGGC-CCUGGCCc -3'
miRNA:   3'- -GCUAcaUGGUCCCG-----------UCGaGGACCGGc -5'
7329 3' -59 NC_001900.1 + 46147 0.67 0.436886
Target:  5'- uCGAUG-ACCAGgccguugcgcgaagcGGCAGCUUCgaggUGGUCGa -3'
miRNA:   3'- -GCUACaUGGUC---------------CCGUCGAGG----ACCGGC- -5'
7329 3' -59 NC_001900.1 + 13666 0.67 0.414297
Target:  5'- cCGAUcaaGUacccGCCGGGGUuuCUCCUGGCgGu -3'
miRNA:   3'- -GCUA---CA----UGGUCCCGucGAGGACCGgC- -5'
7329 3' -59 NC_001900.1 + 40112 0.67 0.396032
Target:  5'- uGAUGUugUcGuGguGUUCCUGGCCa -3'
miRNA:   3'- gCUACAugGuCcCguCGAGGACCGGc -5'
7329 3' -59 NC_001900.1 + 44413 0.67 0.387095
Target:  5'- uGgcGUACCguccGGGGUcacccAGauCUCCUGGCCGg -3'
miRNA:   3'- gCuaCAUGG----UCCCG-----UC--GAGGACCGGC- -5'
7329 3' -59 NC_001900.1 + 10244 0.67 0.387095
Target:  5'- gGcgGUGCguGGGaagaGGCgaugcgCCUGGCCu -3'
miRNA:   3'- gCuaCAUGguCCCg---UCGa-----GGACCGGc -5'
7329 3' -59 NC_001900.1 + 36490 0.68 0.361096
Target:  5'- uCGAgGUACCAGacccaCAGCUCCUGGaCGa -3'
miRNA:   3'- -GCUaCAUGGUCcc---GUCGAGGACCgGC- -5'
7329 3' -59 NC_001900.1 + 6673 0.68 0.361096
Target:  5'- aCGGUGaacaGCCAGGGCuugcucaucGGUUCCagGGCUGc -3'
miRNA:   3'- -GCUACa---UGGUCCCG---------UCGAGGa-CCGGC- -5'
7329 3' -59 NC_001900.1 + 30005 0.69 0.320533
Target:  5'- uCGAUcgacUACCAGGcGCAggagcuucGCgUCCUGGCCGc -3'
miRNA:   3'- -GCUAc---AUGGUCC-CGU--------CG-AGGACCGGC- -5'
7329 3' -59 NC_001900.1 + 20915 0.7 0.276489
Target:  5'- cCGAgaccGCCuucGGCGGCUCCUGGCUc -3'
miRNA:   3'- -GCUaca-UGGuc-CCGUCGAGGACCGGc -5'
7329 3' -59 NC_001900.1 + 19259 0.71 0.247993
Target:  5'- uCGGUGUcccagguagcgagcACCGGGGUAGUUCCccGGCUc -3'
miRNA:   3'- -GCUACA--------------UGGUCCCGUCGAGGa-CCGGc -5'
7329 3' -59 NC_001900.1 + 16727 0.71 0.229583
Target:  5'- uCGAUGUcaacgucgacaaggACaccaAGGGCGGCuUCCUGaGCCGc -3'
miRNA:   3'- -GCUACA--------------UGg---UCCCGUCG-AGGAC-CGGC- -5'
7329 3' -59 NC_001900.1 + 44495 0.71 0.219671
Target:  5'- aCGGUGUACCGGcGCucgauGuCUCgCUGGCCGu -3'
miRNA:   3'- -GCUACAUGGUCcCGu----C-GAG-GACCGGC- -5'
7329 3' -59 NC_001900.1 + 43114 0.72 0.203071
Target:  5'- cCGAUGUACCGGGaC-GCUCCccGGCUGu -3'
miRNA:   3'- -GCUACAUGGUCCcGuCGAGGa-CCGGC- -5'
7329 3' -59 NC_001900.1 + 23961 0.72 0.197785
Target:  5'- gGGUG-ACCGaacucGGGguGC-CCUGGCCGa -3'
miRNA:   3'- gCUACaUGGU-----CCCguCGaGGACCGGC- -5'
7329 3' -59 NC_001900.1 + 25030 0.72 0.192619
Target:  5'- cCGGUGcccgugGCCAGGcGUGGUUCCUGGCg- -3'
miRNA:   3'- -GCUACa-----UGGUCC-CGUCGAGGACCGgc -5'
7329 3' -59 NC_001900.1 + 44783 0.72 0.187571
Target:  5'- aGGUGUGgCAGcGGcCAGCggCCUGGCUGc -3'
miRNA:   3'- gCUACAUgGUC-CC-GUCGa-GGACCGGC- -5'
7329 3' -59 NC_001900.1 + 19093 0.85 0.021103
Target:  5'- cCGGUG-ACCAGGGCGuGUUCCUGGCCa -3'
miRNA:   3'- -GCUACaUGGUCCCGU-CGAGGACCGGc -5'
7329 3' -59 NC_001900.1 + 28694 1.08 0.000418
Target:  5'- gCGAUGUACCAGGGCAGCUCCUGGCCGu -3'
miRNA:   3'- -GCUACAUGGUCCCGUCGAGGACCGGC- -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.