miRNA display CGI


Results 1 - 11 of 11 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
8863 3' -54.2 NC_002484.1 + 17849 0.66 0.763813
Target:  5'- cCGCaUAuCCGGCCGCAAGCa--CGUCAu -3'
miRNA:   3'- -GUG-AUcGGUUGGCGUUCGgagGUAGU- -5'
8863 3' -54.2 NC_002484.1 + 41690 0.66 0.753331
Target:  5'- uCGCUGGCCgAGCUGCucGCCgCCGc-- -3'
miRNA:   3'- -GUGAUCGG-UUGGCGuuCGGaGGUagu -5'
8863 3' -54.2 NC_002484.1 + 37448 0.66 0.710239
Target:  5'- cCGCaagGGCagagaGGCCGUc-GCCUCCAUCGc -3'
miRNA:   3'- -GUGa--UCGg----UUGGCGuuCGGAGGUAGU- -5'
8863 3' -54.2 NC_002484.1 + 9929 0.67 0.699235
Target:  5'- --aUGGCCuuuGCUGCAucucuGGCCUCCG-CAg -3'
miRNA:   3'- gugAUCGGu--UGGCGU-----UCGGAGGUaGU- -5'
8863 3' -54.2 NC_002484.1 + 4355 0.67 0.685942
Target:  5'- gCGCUGGCUucgcggcauuccGCUGCGAGCCagggcggcaUCCAUCc -3'
miRNA:   3'- -GUGAUCGGu-----------UGGCGUUCGG---------AGGUAGu -5'
8863 3' -54.2 NC_002484.1 + 27437 0.68 0.598525
Target:  5'- uCGCUuucGGCCGGCUucaaGCAGGCCUgCCAggCAg -3'
miRNA:   3'- -GUGA---UCGGUUGG----CGUUCGGA-GGUa-GU- -5'
8863 3' -54.2 NC_002484.1 + 30725 0.68 0.598525
Target:  5'- aACUAGCCGauuuugGCCaGCGAGCCcgCCAc-- -3'
miRNA:   3'- gUGAUCGGU------UGG-CGUUCGGa-GGUagu -5'
8863 3' -54.2 NC_002484.1 + 40108 0.68 0.598525
Target:  5'- aACUAGCCGauuuugGCCaGCGAGCCcgCCAc-- -3'
miRNA:   3'- gUGAUCGGU------UGG-CGUUCGGa-GGUagu -5'
8863 3' -54.2 NC_002484.1 + 49349 0.69 0.575099
Target:  5'- ---aGGCCAaaugcucuucacgACCGCGAGCgggucgcagucCUCCAUCAg -3'
miRNA:   3'- gugaUCGGU-------------UGGCGUUCG-----------GAGGUAGU- -5'
8863 3' -54.2 NC_002484.1 + 26532 0.69 0.543118
Target:  5'- cCGC-AGcCCAGCCGCGGGCCaggCCggCAc -3'
miRNA:   3'- -GUGaUC-GGUUGGCGUUCGGa--GGuaGU- -5'
8863 3' -54.2 NC_002484.1 + 43385 1.09 0.001168
Target:  5'- gCACUAGCCAACCGCAAGCCUCCAUCAg -3'
miRNA:   3'- -GUGAUCGGUUGGCGUUCGGAGGUAGU- -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.