miRNA display CGI


Results 1 - 13 of 13 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
7692 3' -51 NC_001973.1 + 100604 0.66 0.995513
Target:  5'- aGGUGUCgcuCGCGcucaaAAAUAc--GGGCAGCg -3'
miRNA:   3'- gCCACAG---GUGC-----UUUAUcuuCCCGUCG- -5'
7692 3' -51 NC_001973.1 + 95851 0.66 0.994775
Target:  5'- cCGGUG-CCGgGcacGUGGGAGGaCGGCg -3'
miRNA:   3'- -GCCACaGGUgCuu-UAUCUUCCcGUCG- -5'
7692 3' -51 NC_001973.1 + 81734 0.66 0.994775
Target:  5'- ---cGUCgGCGuug-AGcAGGGGCAGCa -3'
miRNA:   3'- gccaCAGgUGCuuuaUC-UUCCCGUCG- -5'
7692 3' -51 NC_001973.1 + 54149 0.66 0.994775
Target:  5'- uCGGgcaCCACu---UGGAAGGGCAGa -3'
miRNA:   3'- -GCCacaGGUGcuuuAUCUUCCCGUCg -5'
7692 3' -51 NC_001973.1 + 96738 0.67 0.991264
Target:  5'- -cGUGUaCGCGAAAUaccggagcgccggcgAGucGGGCGGCg -3'
miRNA:   3'- gcCACAgGUGCUUUA---------------UCuuCCCGUCG- -5'
7692 3' -51 NC_001973.1 + 99093 0.67 0.9871
Target:  5'- aGGUGUCCGCGAAcaaauacaaauguucGUuu-AGGcCGGCg -3'
miRNA:   3'- gCCACAGGUGCUU---------------UAucuUCCcGUCG- -5'
7692 3' -51 NC_001973.1 + 57327 0.68 0.980258
Target:  5'- ---cGUCCGCGGccucguccGAGGGCAGCu -3'
miRNA:   3'- gccaCAGGUGCUuuauc---UUCCCGUCG- -5'
7692 3' -51 NC_001973.1 + 112055 0.68 0.978425
Target:  5'- aCGGg--CCACGAAAaaaucGAGGGCAcGCg -3'
miRNA:   3'- -GCCacaGGUGCUUUauc--UUCCCGU-CG- -5'
7692 3' -51 NC_001973.1 + 74952 0.69 0.970426
Target:  5'- ---cGUCCACGugcgacacGUAGGccagaacggGGGGCAGCg -3'
miRNA:   3'- gccaCAGGUGCuu------UAUCU---------UCCCGUCG- -5'
7692 3' -51 NC_001973.1 + 146507 0.69 0.956731
Target:  5'- uGGc--CCGCGGGAUcGucGGGCAGCa -3'
miRNA:   3'- gCCacaGGUGCUUUAuCuuCCCGUCG- -5'
7692 3' -51 NC_001973.1 + 100757 0.72 0.892275
Target:  5'- -aGUGUUCGgGAAAgagaaacucGGAGGGCAGCg -3'
miRNA:   3'- gcCACAGGUgCUUUau-------CUUCCCGUCG- -5'
7692 3' -51 NC_001973.1 + 8677 0.73 0.830102
Target:  5'- aCGGc-UCCACGGAggAGAccguccauuugcAGGGCGGCg -3'
miRNA:   3'- -GCCacAGGUGCUUuaUCU------------UCCCGUCG- -5'
7692 3' -51 NC_001973.1 + 117154 1.13 0.005177
Target:  5'- aCGGUGUCCACGAAAUAGAAGGGCAGCu -3'
miRNA:   3'- -GCCACAGGUGCUUUAUCUUCCCGUCG- -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.