miRNA display CGI


Results 1 - 16 of 16 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
20898 5' -57.2 NC_004689.1 + 10069 0.66 0.67563
Target:  5'- -cCCACCGGgcGUGCcgGGUCGuaUAUg -3'
miRNA:   3'- uuGGUGGCCuuCGCG--UCAGCcgAUGg -5'
20898 5' -57.2 NC_004689.1 + 44886 0.66 0.643486
Target:  5'- --gCugCGGAGcuuGCGCGGaUCGGgcCUGCCg -3'
miRNA:   3'- uugGugGCCUU---CGCGUC-AGCC--GAUGG- -5'
20898 5' -57.2 NC_004689.1 + 16609 0.66 0.632738
Target:  5'- cGCCACCGGuGAGgauCGCccacacuUCGGUUGCCa -3'
miRNA:   3'- uUGGUGGCC-UUC---GCGuc-----AGCCGAUGG- -5'
20898 5' -57.2 NC_004689.1 + 48927 0.66 0.631663
Target:  5'- cACCACCGGAcugcgacuGCGCgAGcagggcuUCGGCcucgGCCu -3'
miRNA:   3'- uUGGUGGCCUu-------CGCG-UC-------AGCCGa---UGG- -5'
20898 5' -57.2 NC_004689.1 + 10602 0.67 0.62199
Target:  5'- cGCCuGCCGGAgacguugcgGGCGguGUUgcagcgggauugGGCUGCUg -3'
miRNA:   3'- uUGG-UGGCCU---------UCGCguCAG------------CCGAUGG- -5'
20898 5' -57.2 NC_004689.1 + 16379 0.67 0.62199
Target:  5'- cAGCCguaCGGAAGUGCAGUcgaaaCGGgUGCg -3'
miRNA:   3'- -UUGGug-GCCUUCGCGUCA-----GCCgAUGg -5'
20898 5' -57.2 NC_004689.1 + 28845 0.67 0.611251
Target:  5'- cAGCCACCGuuGGCG-GGUCGcCUGCUg -3'
miRNA:   3'- -UUGGUGGCcuUCGCgUCAGCcGAUGG- -5'
20898 5' -57.2 NC_004689.1 + 50509 0.67 0.600529
Target:  5'- --aCGCCaGAacAGCGgGGagGGCUGCCg -3'
miRNA:   3'- uugGUGGcCU--UCGCgUCagCCGAUGG- -5'
20898 5' -57.2 NC_004689.1 + 11661 0.67 0.589832
Target:  5'- cGCCGuuGGGaugGGCGUAGUaguucguucCGGCaGCCg -3'
miRNA:   3'- uUGGUggCCU---UCGCGUCA---------GCCGaUGG- -5'
20898 5' -57.2 NC_004689.1 + 64644 0.67 0.579169
Target:  5'- --aCGCC-----CGCAGUCGGCUACCu -3'
miRNA:   3'- uugGUGGccuucGCGUCAGCCGAUGG- -5'
20898 5' -57.2 NC_004689.1 + 22960 0.67 0.579169
Target:  5'- -uCCACCGGuucccGGCGUGGUUgcaccgggacgGGCUGCg -3'
miRNA:   3'- uuGGUGGCCu----UCGCGUCAG-----------CCGAUGg -5'
20898 5' -57.2 NC_004689.1 + 54688 0.68 0.557978
Target:  5'- gAGCCACCGGGcauaGGgGCAGgcgaCGGUUGa- -3'
miRNA:   3'- -UUGGUGGCCU----UCgCGUCa---GCCGAUgg -5'
20898 5' -57.2 NC_004689.1 + 29657 0.69 0.475978
Target:  5'- cACCAgCGGGAGC-CAGcaauUCGGCcuUACCu -3'
miRNA:   3'- uUGGUgGCCUUCGcGUC----AGCCG--AUGG- -5'
20898 5' -57.2 NC_004689.1 + 11095 0.7 0.400416
Target:  5'- gGGCCgACCGGGAGcCGCuggcggGGUCuGCUGCUg -3'
miRNA:   3'- -UUGG-UGGCCUUC-GCG------UCAGcCGAUGG- -5'
20898 5' -57.2 NC_004689.1 + 39223 0.71 0.374116
Target:  5'- -uUCACCGGAcuugaguugcAGCGCAa-CGGUUGCCg -3'
miRNA:   3'- uuGGUGGCCU----------UCGCGUcaGCCGAUGG- -5'
20898 5' -57.2 NC_004689.1 + 6931 0.72 0.352288
Target:  5'- cAAUCACCGGggGUGUccacaccagAGUgcaacuacgcacgaaUGGCUGCCa -3'
miRNA:   3'- -UUGGUGGCCuuCGCG---------UCA---------------GCCGAUGG- -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.