miRNA display CGI


Results 1 - 20 of 143 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
28944 3' -61.9 NC_006146.1 + 584 0.67 0.624772
Target:  5'- --aGGGGccgGGGGCGCggcccgGCGCCAGCccuGCc -3'
miRNA:   3'- ucaCCCC---UCCCGUG------UGCGGUCGac-CG- -5'
28944 3' -61.9 NC_006146.1 + 922 0.67 0.581611
Target:  5'- ---cGGGAccccGGGCGCGCGCCGGCcucccgucccgaaGGCc -3'
miRNA:   3'- ucacCCCU----CCCGUGUGCGGUCGa------------CCG- -5'
28944 3' -61.9 NC_006146.1 + 1515 0.67 0.624772
Target:  5'- --aGGGGccgGGGGCGCggcccgGCGCCAGCccuGCc -3'
miRNA:   3'- ucaCCCC---UCCCGUG------UGCGGUCGac-CG- -5'
28944 3' -61.9 NC_006146.1 + 1854 0.67 0.581611
Target:  5'- ---cGGGAccccGGGCGCGCGCCGGCcucccgucccgaaGGCc -3'
miRNA:   3'- ucacCCCU----CCCGUGUGCGGUCGa------------CCG- -5'
28944 3' -61.9 NC_006146.1 + 2447 0.67 0.624772
Target:  5'- --aGGGGccgGGGGCGCggcccgGCGCCAGCccuGCc -3'
miRNA:   3'- ucaCCCC---UCCCGUG------UGCGGUCGac-CG- -5'
28944 3' -61.9 NC_006146.1 + 2481 0.66 0.673899
Target:  5'- uGUGGccGGcGGGgGCAgG-CAGCUGGCc -3'
miRNA:   3'- uCACC--CCuCCCgUGUgCgGUCGACCG- -5'
28944 3' -61.9 NC_006146.1 + 2786 0.67 0.581611
Target:  5'- ---cGGGAccccGGGCGCGCGCCGGCcucccgucccgaaGGCc -3'
miRNA:   3'- ucacCCCU----CCCGUGUGCGGUCGa------------CCG- -5'
28944 3' -61.9 NC_006146.1 + 3264 0.66 0.664106
Target:  5'- -cUGGGGAcGGCGCAgGCCAcgaGCcGGg -3'
miRNA:   3'- ucACCCCUcCCGUGUgCGGU---CGaCCg -5'
28944 3' -61.9 NC_006146.1 + 3379 0.67 0.624772
Target:  5'- --aGGGGccgGGGGCGCggcccgGCGCCAGCccuGCc -3'
miRNA:   3'- ucaCCCC---UCCCGUG------UGCGGUCGac-CG- -5'
28944 3' -61.9 NC_006146.1 + 3718 0.67 0.581611
Target:  5'- ---cGGGAccccGGGCGCGCGCCGGCcucccgucccgaaGGCc -3'
miRNA:   3'- ucacCCCU----CCCGUGUGCGGUCGa------------CCG- -5'
28944 3' -61.9 NC_006146.1 + 3789 0.75 0.206327
Target:  5'- gGGgggGGGGGGGGgGCACGCgGGggaUGGCc -3'
miRNA:   3'- -UCa--CCCCUCCCgUGUGCGgUCg--ACCG- -5'
28944 3' -61.9 NC_006146.1 + 9461 0.73 0.279079
Target:  5'- cGGUGGGcGcGGGGUcCGCGCCcuCUGGCa -3'
miRNA:   3'- -UCACCC-C-UCCCGuGUGCGGucGACCG- -5'
28944 3' -61.9 NC_006146.1 + 10735 1.1 0.000794
Target:  5'- aAGUGGGGAGGGCACACGCCAGCUGGCc -3'
miRNA:   3'- -UCACCCCUCCCGUGUGCGGUCGACCG- -5'
28944 3' -61.9 NC_006146.1 + 13002 0.66 0.664106
Target:  5'- gAGUGGaGGGGGaucGCcCGgGUCucuGCUGGCa -3'
miRNA:   3'- -UCACC-CCUCC---CGuGUgCGGu--CGACCG- -5'
28944 3' -61.9 NC_006146.1 + 14041 0.8 0.093486
Target:  5'- cAGgcgGGGGcAGGcGCAaGCGCCGGCUGGCu -3'
miRNA:   3'- -UCa--CCCC-UCC-CGUgUGCGGUCGACCG- -5'
28944 3' -61.9 NC_006146.1 + 14207 0.66 0.653307
Target:  5'- --cGGGGAGGcgguggcGCGCaACGCgGGCcuucUGGCc -3'
miRNA:   3'- ucaCCCCUCC-------CGUG-UGCGgUCG----ACCG- -5'
28944 3' -61.9 NC_006146.1 + 14334 0.68 0.56605
Target:  5'- aAGUaGGGAcucaGGCcauGCGCGcCCAGUUGGCg -3'
miRNA:   3'- -UCAcCCCUc---CCG---UGUGC-GGUCGACCG- -5'
28944 3' -61.9 NC_006146.1 + 16080 0.66 0.664106
Target:  5'- gAGUGGaGGGGGaucGCcCGgGUCucuGCUGGCa -3'
miRNA:   3'- -UCACC-CCUCC---CGuGUgCGGu--CGACCG- -5'
28944 3' -61.9 NC_006146.1 + 17412 0.68 0.56605
Target:  5'- aAGUaGGGAcucaGGCcauGCGCGcCCAGUUGGCg -3'
miRNA:   3'- -UCAcCCCUc---CCG---UGUGC-GGUCGACCG- -5'
28944 3' -61.9 NC_006146.1 + 18946 0.71 0.363093
Target:  5'- --cGGGaAGGGCAUgugguGCGCCAGC-GGCc -3'
miRNA:   3'- ucaCCCcUCCCGUG-----UGCGGUCGaCCG- -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.