miRNA display CGI


Results 1 - 20 of 25 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
31805 3' -60.1 NC_006938.1 + 10779 1.1 0.00035
Target:  5'- aCCACGGCGCGCUUGCUGACCAGGCCAc -3'
miRNA:   3'- -GGUGCCGCGCGAACGACUGGUCCGGU- -5'
31805 3' -60.1 NC_006938.1 + 19749 0.72 0.204117
Target:  5'- aCGCGGUGCGgaaggcGCUGgacaACCGGGCCAa -3'
miRNA:   3'- gGUGCCGCGCgaa---CGAC----UGGUCCGGU- -5'
31805 3' -60.1 NC_006938.1 + 9661 0.7 0.269054
Target:  5'- aCGCGGUcguccGCGCcauggacaacgUUGUcGACCGGGCCAu -3'
miRNA:   3'- gGUGCCG-----CGCG-----------AACGaCUGGUCCGGU- -5'
31805 3' -60.1 NC_006938.1 + 37026 0.7 0.282514
Target:  5'- gCCGgacCGGCGCGCggGacaUGACCcGGCCc -3'
miRNA:   3'- -GGU---GCCGCGCGaaCg--ACUGGuCCGGu -5'
31805 3' -60.1 NC_006938.1 + 1890 0.68 0.357786
Target:  5'- gCCACGGCGCGCUa--UGAgCcGGCa- -3'
miRNA:   3'- -GGUGCCGCGCGAacgACUgGuCCGgu -5'
31805 3' -60.1 NC_006938.1 + 2437 0.68 0.366043
Target:  5'- gCACGGgGaaCGCUgGCUgGACgAGGCCGa -3'
miRNA:   3'- gGUGCCgC--GCGAaCGA-CUGgUCCGGU- -5'
31805 3' -60.1 NC_006938.1 + 11103 0.68 0.374431
Target:  5'- gUACGGCGCGUauUUGaUGGCaccgucgcgaCAGGCCAu -3'
miRNA:   3'- gGUGCCGCGCG--AACgACUG----------GUCCGGU- -5'
31805 3' -60.1 NC_006938.1 + 20452 0.68 0.391594
Target:  5'- -aGCGGCGUGUccucGCgGACC-GGCCAg -3'
miRNA:   3'- ggUGCCGCGCGaa--CGaCUGGuCCGGU- -5'
31805 3' -60.1 NC_006938.1 + 58574 0.68 0.391594
Target:  5'- -gGCuGGUGCGUaUGgcaucagguccCUGGCCAGGCCGa -3'
miRNA:   3'- ggUG-CCGCGCGaAC-----------GACUGGUCCGGU- -5'
31805 3' -60.1 NC_006938.1 + 22246 0.67 0.412853
Target:  5'- gCCACaGGCGUacaaccuguggaaggGCUUcGCcuGCCAGGCCGu -3'
miRNA:   3'- -GGUG-CCGCG---------------CGAA-CGacUGGUCCGGU- -5'
31805 3' -60.1 NC_006938.1 + 23795 0.67 0.412853
Target:  5'- cUCAgGGCGCGCUcgagcaucucggccaUGCcGcCCuGGCCGa -3'
miRNA:   3'- -GGUgCCGCGCGA---------------ACGaCuGGuCCGGU- -5'
31805 3' -60.1 NC_006938.1 + 40216 0.67 0.427416
Target:  5'- aCCuCGGC-CGCgacacccgGCUGACCGGcGCUg -3'
miRNA:   3'- -GGuGCCGcGCGaa------CGACUGGUC-CGGu -5'
31805 3' -60.1 NC_006938.1 + 27084 0.67 0.427416
Target:  5'- aCGCGGUGUGUUccucgUGUcGGucCCAGGCCAc -3'
miRNA:   3'- gGUGCCGCGCGA-----ACGaCU--GGUCCGGU- -5'
31805 3' -60.1 NC_006938.1 + 40899 0.67 0.45552
Target:  5'- ---gGGCGUGCUUcUUGGCaCGGGCCu -3'
miRNA:   3'- ggugCCGCGCGAAcGACUG-GUCCGGu -5'
31805 3' -60.1 NC_006938.1 + 26018 0.66 0.465108
Target:  5'- aCGCGGCGaugaagacaGCa--CUGcCCAGGCCAg -3'
miRNA:   3'- gGUGCCGCg--------CGaacGACuGGUCCGGU- -5'
31805 3' -60.1 NC_006938.1 + 32800 0.66 0.4748
Target:  5'- aCGCGGCagaGCuGCUUGCgGAUCGGcucGCCGg -3'
miRNA:   3'- gGUGCCG---CG-CGAACGaCUGGUC---CGGU- -5'
31805 3' -60.1 NC_006938.1 + 45906 0.66 0.4748
Target:  5'- uCCAuCGGCGgGC-UGCgcggagaacgUGGCaCGGGCCu -3'
miRNA:   3'- -GGU-GCCGCgCGaACG----------ACUG-GUCCGGu -5'
31805 3' -60.1 NC_006938.1 + 37919 0.66 0.484591
Target:  5'- -gGCGGCGaGCggGCggUGGCCAGGgCGg -3'
miRNA:   3'- ggUGCCGCgCGaaCG--ACUGGUCCgGU- -5'
31805 3' -60.1 NC_006938.1 + 39904 0.66 0.484591
Target:  5'- aCCACGGaGaCGCUcGCUucggcucguggGGCgGGGCCAc -3'
miRNA:   3'- -GGUGCCgC-GCGAaCGA-----------CUGgUCCGGU- -5'
31805 3' -60.1 NC_006938.1 + 7271 0.66 0.494479
Target:  5'- aCGCGGaCGCGCUcucuUGUgaGCUcGGCCAu -3'
miRNA:   3'- gGUGCC-GCGCGA----ACGacUGGuCCGGU- -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.