miRNA display CGI


Results 1 - 20 of 33 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
11941 3' -55.6 NC_003278.1 + 29791 0.66 0.587745
Target:  5'- gGCCcGCCUUGGUCAucuuCGACGGGuccUGGc -3'
miRNA:   3'- -CGGuCGGAGUCGGUu---GUUGUCCc--ACC- -5'
11941 3' -55.6 NC_003278.1 + 33275 0.66 0.576477
Target:  5'- cGCCggcgauGGCCUCGGCCG-CAGCc-GGcGGa -3'
miRNA:   3'- -CGG------UCGGAGUCGGUuGUUGucCCaCC- -5'
11941 3' -55.6 NC_003278.1 + 8104 0.66 0.565259
Target:  5'- gGCCAGCCagGcGCCGA--GCAGGGc-- -3'
miRNA:   3'- -CGGUCGGagU-CGGUUguUGUCCCacc -5'
11941 3' -55.6 NC_003278.1 + 12771 0.66 0.565259
Target:  5'- aUCAGCCUCuGGCCGGaggauCAGCAGGc-GGa -3'
miRNA:   3'- cGGUCGGAG-UCGGUU-----GUUGUCCcaCC- -5'
11941 3' -55.6 NC_003278.1 + 20323 0.66 0.554099
Target:  5'- cGCCAGCgUU-GCCGA--GCAGGGccgUGGc -3'
miRNA:   3'- -CGGUCGgAGuCGGUUguUGUCCC---ACC- -5'
11941 3' -55.6 NC_003278.1 + 12683 0.66 0.543005
Target:  5'- cGCCAucGaCCUCAGCCAguugccgccACcACAcGcGGUGGa -3'
miRNA:   3'- -CGGU--C-GGAGUCGGU---------UGuUGU-C-CCACC- -5'
11941 3' -55.6 NC_003278.1 + 21528 0.66 0.543005
Target:  5'- gGCCGGCCU-GGCCGGCGcCgAGGcccUGGg -3'
miRNA:   3'- -CGGUCGGAgUCGGUUGUuG-UCCc--ACC- -5'
11941 3' -55.6 NC_003278.1 + 7030 0.66 0.531984
Target:  5'- aUCGGCCcCgAGCCGGCGgggcGCGGGGUa- -3'
miRNA:   3'- cGGUCGGaG-UCGGUUGU----UGUCCCAcc -5'
11941 3' -55.6 NC_003278.1 + 24415 0.67 0.521045
Target:  5'- aUUAGUg-CGGCC-GCAGCAGGGUGa -3'
miRNA:   3'- cGGUCGgaGUCGGuUGUUGUCCCACc -5'
11941 3' -55.6 NC_003278.1 + 22996 0.67 0.500513
Target:  5'- aCCGGCCggcaggcagagcaggCAGCCGGCuuuCAcGGUGGc -3'
miRNA:   3'- cGGUCGGa--------------GUCGGUUGuu-GUcCCACC- -5'
11941 3' -55.6 NC_003278.1 + 31533 0.67 0.48985
Target:  5'- gGCCAGCUacauggccaaccuggCGGCCAGgAaaacGCAGGGaGGg -3'
miRNA:   3'- -CGGUCGGa--------------GUCGGUUgU----UGUCCCaCC- -5'
11941 3' -55.6 NC_003278.1 + 28407 0.67 0.475103
Target:  5'- gGCCcGCUUCaAGCCGgGCGACAGcccgcgcggcgucuGGUGGu -3'
miRNA:   3'- -CGGuCGGAG-UCGGU-UGUUGUC--------------CCACC- -5'
11941 3' -55.6 NC_003278.1 + 33171 0.67 0.467813
Target:  5'- aCCaAGCUcugCAGCgCGGCGAguucCAGGGUGGu -3'
miRNA:   3'- cGG-UCGGa--GUCG-GUUGUU----GUCCCACC- -5'
11941 3' -55.6 NC_003278.1 + 32915 0.68 0.437247
Target:  5'- aCUGGCCUguGCCAugGGCAcuGGUGa -3'
miRNA:   3'- cGGUCGGAguCGGUugUUGUc-CCACc -5'
11941 3' -55.6 NC_003278.1 + 8573 0.68 0.427315
Target:  5'- -aCGGaagaUCAGCaggcACAGCAGGGUGGc -3'
miRNA:   3'- cgGUCgg--AGUCGgu--UGUUGUCCCACC- -5'
11941 3' -55.6 NC_003278.1 + 5131 0.69 0.411707
Target:  5'- cCCGGgaCCaCAGCCAACAGCAGcggcccccggucaccGGUGGc -3'
miRNA:   3'- cGGUC--GGaGUCGGUUGUUGUC---------------CCACC- -5'
11941 3' -55.6 NC_003278.1 + 23344 0.69 0.392701
Target:  5'- aGCaCAGCCUCAgcGCCGACGGCGGuuacaucaccagccuGGagcUGGa -3'
miRNA:   3'- -CG-GUCGGAGU--CGGUUGUUGUC---------------CC---ACC- -5'
11941 3' -55.6 NC_003278.1 + 29574 0.69 0.388969
Target:  5'- aGCCAGUC-CAGCCAcu--CGGGGcGGu -3'
miRNA:   3'- -CGGUCGGaGUCGGUuguuGUCCCaCC- -5'
11941 3' -55.6 NC_003278.1 + 18752 0.69 0.379741
Target:  5'- cGCCGGCCg-GGCCGGCGGgaAGGGa-- -3'
miRNA:   3'- -CGGUCGGagUCGGUUGUUg-UCCCacc -5'
11941 3' -55.6 NC_003278.1 + 21672 0.69 0.378826
Target:  5'- cCCAGCau-GGCCAGCAGCGGcuggucgaacgucGGUGGc -3'
miRNA:   3'- cGGUCGgagUCGGUUGUUGUC-------------CCACC- -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.