miRNA display CGI


Results 1 - 20 of 50 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
18209 3' -56.9 NC_004680.1 + 8825 0.66 0.677281
Target:  5'- gGGCC-GCCGUauuUCaaGGACGguaagcgugugUCGCCGCCg -3'
miRNA:   3'- -UCGGcCGGUA---AGg-CCUGU-----------AGUGGUGG- -5'
18209 3' -56.9 NC_004680.1 + 3455 0.67 0.569646
Target:  5'- cGGCCGGCgAgUCgUGGGCGUCuauCCGgCg -3'
miRNA:   3'- -UCGGCCGgUaAG-GCCUGUAGu--GGUgG- -5'
18209 3' -56.9 NC_004680.1 + 13322 0.67 0.580326
Target:  5'- cGGCCGGUCcccgaaaUGGAC-UCGCCGCg -3'
miRNA:   3'- -UCGGCCGGuaag---GCCUGuAGUGGUGg -5'
18209 3' -56.9 NC_004680.1 + 52727 0.67 0.580326
Target:  5'- cAGCCGuGaCCcuUUCCGuGAUucUCGCCGCCc -3'
miRNA:   3'- -UCGGC-C-GGu-AAGGC-CUGu-AGUGGUGG- -5'
18209 3' -56.9 NC_004680.1 + 5974 0.67 0.611503
Target:  5'- gGGCCGuGUCAgugaaccUUccagcgcgucaCCGGGCGgguguUCACCACCg -3'
miRNA:   3'- -UCGGC-CGGU-------AA-----------GGCCUGU-----AGUGGUGG- -5'
18209 3' -56.9 NC_004680.1 + 10746 0.66 0.634182
Target:  5'- uGGCUGGCCAcgucgCUGGgugGCAUCAacacgaugcUCGCCa -3'
miRNA:   3'- -UCGGCCGGUaa---GGCC---UGUAGU---------GGUGG- -5'
18209 3' -56.9 NC_004680.1 + 55006 0.66 0.634182
Target:  5'- cGGgCGGCCAggaucaUgCGGcGCAuggcUCGCCGCCu -3'
miRNA:   3'- -UCgGCCGGUa-----AgGCC-UGU----AGUGGUGG- -5'
18209 3' -56.9 NC_004680.1 + 38924 0.66 0.644983
Target:  5'- gAGuuGGgggaGUUCCuGGACAcCGCCACUg -3'
miRNA:   3'- -UCggCCgg--UAAGG-CCUGUaGUGGUGG- -5'
18209 3' -56.9 NC_004680.1 + 5612 0.66 0.655773
Target:  5'- uGCUGGUC--UgCGGGCGggCACCAUCg -3'
miRNA:   3'- uCGGCCGGuaAgGCCUGUa-GUGGUGG- -5'
18209 3' -56.9 NC_004680.1 + 56312 0.67 0.569646
Target:  5'- cGCaUGGCa--UCCGGGCGUuaCACCAUCu -3'
miRNA:   3'- uCG-GCCGguaAGGCCUGUA--GUGGUGG- -5'
18209 3' -56.9 NC_004680.1 + 24905 0.68 0.559015
Target:  5'- cGCCGGCgGUgguggcgguUCCGGuucagauCAgagCACCAUCu -3'
miRNA:   3'- uCGGCCGgUA---------AGGCCu------GUa--GUGGUGG- -5'
18209 3' -56.9 NC_004680.1 + 15384 0.68 0.548441
Target:  5'- cGGCCuGUCGUuaaauccggauaUCCGGGCAugguUCGgCACCg -3'
miRNA:   3'- -UCGGcCGGUA------------AGGCCUGU----AGUgGUGG- -5'
18209 3' -56.9 NC_004680.1 + 19410 0.77 0.158559
Target:  5'- aGGCCGGUCAgcCCGGuaaguuCAaCGCCACCa -3'
miRNA:   3'- -UCGGCCGGUaaGGCCu-----GUaGUGGUGG- -5'
18209 3' -56.9 NC_004680.1 + 12842 0.75 0.201381
Target:  5'- uGGCUGGCCAggcUUCCcagcagcgcaaGGACAUCgacccgcaaGCCGCCg -3'
miRNA:   3'- -UCGGCCGGU---AAGG-----------CCUGUAG---------UGGUGG- -5'
18209 3' -56.9 NC_004680.1 + 32204 0.74 0.235247
Target:  5'- gAGUaCGGCUAUUucCCGGACAgaACCACCa -3'
miRNA:   3'- -UCG-GCCGGUAA--GGCCUGUagUGGUGG- -5'
18209 3' -56.9 NC_004680.1 + 10005 0.74 0.247555
Target:  5'- gGGaCCGGUCGggCCGGcaucgACGUCGCUGCCg -3'
miRNA:   3'- -UC-GGCCGGUaaGGCC-----UGUAGUGGUGG- -5'
18209 3' -56.9 NC_004680.1 + 11028 0.7 0.399663
Target:  5'- cAGCCGGCCcc-CCGGcccCGUCGaugucucCCGCCg -3'
miRNA:   3'- -UCGGCCGGuaaGGCCu--GUAGU-------GGUGG- -5'
18209 3' -56.9 NC_004680.1 + 48329 0.69 0.456855
Target:  5'- cGGUgGGCga---CGGACAUCACCGCg -3'
miRNA:   3'- -UCGgCCGguaagGCCUGUAGUGGUGg -5'
18209 3' -56.9 NC_004680.1 + 30700 0.68 0.506842
Target:  5'- aGGCCGGCCGauccugUCCGGGCu--GCgAUCc -3'
miRNA:   3'- -UCGGCCGGUa-----AGGCCUGuagUGgUGG- -5'
18209 3' -56.9 NC_004680.1 + 21258 0.68 0.517125
Target:  5'- cGUCGGCCGgggCUGGuguCGguagCGCCACUg -3'
miRNA:   3'- uCGGCCGGUaa-GGCCu--GUa---GUGGUGG- -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.