miRNA display CGI


Results 1 - 20 of 30 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
24876 3' -55.8 NC_005284.1 + 16956 0.99 0.00456
Target:  5'- uCACCCCAUAG-CACGCACAUUCCGGCg -3'
miRNA:   3'- -GUGGGGUAUCgGUGCGUGUAAGGCCG- -5'
24876 3' -55.8 NC_005284.1 + 553 0.75 0.205545
Target:  5'- aGCCCuCAaggcaauGCCGCGCaACAUUUCGGCg -3'
miRNA:   3'- gUGGG-GUau-----CGGUGCG-UGUAAGGCCG- -5'
24876 3' -55.8 NC_005284.1 + 49081 0.74 0.253466
Target:  5'- uCGCCgCCGgagcuGCCACGUGCGaaUCCGGCg -3'
miRNA:   3'- -GUGG-GGUau---CGGUGCGUGUa-AGGCCG- -5'
24876 3' -55.8 NC_005284.1 + 960 0.73 0.280695
Target:  5'- uCACCCCGUucgAGCUugGCGCAaucaUCUGcGCa -3'
miRNA:   3'- -GUGGGGUA---UCGGugCGUGUa---AGGC-CG- -5'
24876 3' -55.8 NC_005284.1 + 33632 0.73 0.310197
Target:  5'- -uCCCCAUGGUCACGCguGCAUUCa-GCc -3'
miRNA:   3'- guGGGGUAUCGGUGCG--UGUAAGgcCG- -5'
24876 3' -55.8 NC_005284.1 + 45637 0.72 0.331412
Target:  5'- cUugCCCAU-GCCGCGCGCGaUagcauccgcgacacCCGGCa -3'
miRNA:   3'- -GugGGGUAuCGGUGCGUGUaA--------------GGCCG- -5'
24876 3' -55.8 NC_005284.1 + 3965 0.71 0.393979
Target:  5'- gGCCCCAcccaacGGCCAuCGCAC--UCCGGa -3'
miRNA:   3'- gUGGGGUa-----UCGGU-GCGUGuaAGGCCg -5'
24876 3' -55.8 NC_005284.1 + 21487 0.71 0.403126
Target:  5'- gUAUCUguUGGCCGCGCugcuugGCAUggcggCCGGCg -3'
miRNA:   3'- -GUGGGguAUCGGUGCG------UGUAa----GGCCG- -5'
24876 3' -55.8 NC_005284.1 + 39189 0.7 0.412407
Target:  5'- gGCCgCCGUAGuCCACGCuGCAcgaUUCCGcGUa -3'
miRNA:   3'- gUGG-GGUAUC-GGUGCG-UGU---AAGGC-CG- -5'
24876 3' -55.8 NC_005284.1 + 44048 0.7 0.421818
Target:  5'- gGCCCCccuuGCCGCaGCAucCAUUgCGGCg -3'
miRNA:   3'- gUGGGGuau-CGGUG-CGU--GUAAgGCCG- -5'
24876 3' -55.8 NC_005284.1 + 33573 0.69 0.480859
Target:  5'- gCGCCCCcucaAGCCGggcgUGCACGUcaggaCCGGCu -3'
miRNA:   3'- -GUGGGGua--UCGGU----GCGUGUAa----GGCCG- -5'
24876 3' -55.8 NC_005284.1 + 27883 0.69 0.491091
Target:  5'- gAUCCCAUcauGUCGCGCauGCAUaagcCCGGCg -3'
miRNA:   3'- gUGGGGUAu--CGGUGCG--UGUAa---GGCCG- -5'
24876 3' -55.8 NC_005284.1 + 34820 0.68 0.532964
Target:  5'- aACCCCGUAGaCAaGC-CAgcCCGGCa -3'
miRNA:   3'- gUGGGGUAUCgGUgCGuGUaaGGCCG- -5'
24876 3' -55.8 NC_005284.1 + 20808 0.68 0.543637
Target:  5'- gCACCCCcugucgagcAGCC-CGCAgCAgcgCCGGCc -3'
miRNA:   3'- -GUGGGGua-------UCGGuGCGU-GUaa-GGCCG- -5'
24876 3' -55.8 NC_005284.1 + 14191 0.68 0.55438
Target:  5'- gGCCCCccaaaggggcGGCCGuCGCugAccUUCCGGUa -3'
miRNA:   3'- gUGGGGua--------UCGGU-GCGugU--AAGGCCG- -5'
24876 3' -55.8 NC_005284.1 + 5810 0.68 0.55438
Target:  5'- aGCCCCGUccAGCCGCGCAgCA--CC-GCu -3'
miRNA:   3'- gUGGGGUA--UCGGUGCGU-GUaaGGcCG- -5'
24876 3' -55.8 NC_005284.1 + 23288 0.68 0.576043
Target:  5'- gACCaCUGUuauGCCgagGCGCGCAaugcgcgcuuUUCCGGCg -3'
miRNA:   3'- gUGG-GGUAu--CGG---UGCGUGU----------AAGGCCG- -5'
24876 3' -55.8 NC_005284.1 + 21955 0.67 0.586948
Target:  5'- gGCCUacagGGCUACGUgugcGCAgUCCGGCc -3'
miRNA:   3'- gUGGGgua-UCGGUGCG----UGUaAGGCCG- -5'
24876 3' -55.8 NC_005284.1 + 54598 0.67 0.597891
Target:  5'- uGCCCCGc-GCCuCGCcgACAauccagUCCGGCg -3'
miRNA:   3'- gUGGGGUauCGGuGCG--UGUa-----AGGCCG- -5'
24876 3' -55.8 NC_005284.1 + 30843 0.67 0.608863
Target:  5'- uCACCCCAUuGCUugaacaggaACgGCACAUcUgCGGCa -3'
miRNA:   3'- -GUGGGGUAuCGG---------UG-CGUGUA-AgGCCG- -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.