miRNA display CGI


Results 1 - 20 of 21 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
27476 3' -59 NC_005869.1 + 7163 0.66 0.395777
Target:  5'- aUCGCUGUCCCagUACUUggcGUGUGGGAa -3'
miRNA:   3'- cGGUGGCGGGGa-GUGGA---UACACCCUg -5'
27476 3' -59 NC_005869.1 + 23712 0.66 0.384806
Target:  5'- gGCCACCGCCgggCUcggggUCACCgggcgcggGGGGCg -3'
miRNA:   3'- -CGGUGGCGG---GG-----AGUGGauaca---CCCUG- -5'
27476 3' -59 NC_005869.1 + 24587 0.66 0.369613
Target:  5'- gGCgGCCGCgCCgUCACCgagaccaugcgccgcAUGcGGGGCg -3'
miRNA:   3'- -CGgUGGCG-GGgAGUGGa--------------UACaCCCUG- -5'
27476 3' -59 NC_005869.1 + 16692 0.66 0.368732
Target:  5'- gGCCGCCguGCCCCUgcCACCggacacgGaGGACg -3'
miRNA:   3'- -CGGUGG--CGGGGA--GUGGauaca--C-CCUG- -5'
27476 3' -59 NC_005869.1 + 13240 0.67 0.342982
Target:  5'- gGCCAgCgGCgCCgacaGCCUGgaGUGGGACg -3'
miRNA:   3'- -CGGU-GgCGgGGag--UGGAUa-CACCCUG- -5'
27476 3' -59 NC_005869.1 + 15981 0.67 0.342982
Target:  5'- gGgCACgCGCCCCaggCGCCgcUGgacGGGGCg -3'
miRNA:   3'- -CgGUG-GCGGGGa--GUGGauACa--CCCUG- -5'
27476 3' -59 NC_005869.1 + 15191 0.67 0.334692
Target:  5'- uGCCACCcgcgcgcgcgGaCCCC-CACCUGg--GGGGCc -3'
miRNA:   3'- -CGGUGG----------C-GGGGaGUGGAUacaCCCUG- -5'
27476 3' -59 NC_005869.1 + 18044 0.67 0.334692
Target:  5'- -gCGCCGCCCCguccagcggCGCC----UGGGGCg -3'
miRNA:   3'- cgGUGGCGGGGa--------GUGGauacACCCUG- -5'
27476 3' -59 NC_005869.1 + 9227 0.67 0.327357
Target:  5'- gGCCACCGCCugCCgCACCUccuccucuaaggagGgcgGGGGCg -3'
miRNA:   3'- -CGGUGGCGG--GGaGUGGAua------------Ca--CCCUG- -5'
27476 3' -59 NC_005869.1 + 25870 0.67 0.326549
Target:  5'- uGCCACCGCCCUUCAagcugacccCCg--GUcucuGGACc -3'
miRNA:   3'- -CGGUGGCGGGGAGU---------GGauaCAc---CCUG- -5'
27476 3' -59 NC_005869.1 + 20276 0.67 0.326549
Target:  5'- uGCUguuCCGCCCCUCg-----GUGGGGCc -3'
miRNA:   3'- -CGGu--GGCGGGGAGuggauaCACCCUG- -5'
27476 3' -59 NC_005869.1 + 401 0.67 0.310707
Target:  5'- gGCgGCCGCCCgagaUgACgUGUGUGGGu- -3'
miRNA:   3'- -CGgUGGCGGGg---AgUGgAUACACCCug -5'
27476 3' -59 NC_005869.1 + 22323 0.67 0.306069
Target:  5'- cGCCGCCGCCCCagcuucagagcUCGCCgccaugcugcuguUGUuguuaaaaaggGGGAUg -3'
miRNA:   3'- -CGGUGGCGGGG-----------AGUGGau-----------ACA-----------CCCUG- -5'
27476 3' -59 NC_005869.1 + 17932 0.68 0.288052
Target:  5'- gGCCAUC-CCCggcaUCGCCUcgGUGGcGAUg -3'
miRNA:   3'- -CGGUGGcGGGg---AGUGGAuaCACC-CUG- -5'
27476 3' -59 NC_005869.1 + 16983 0.68 0.266716
Target:  5'- cGCCGCgUGCCCCgcaggGCC-GUGcGGGACa -3'
miRNA:   3'- -CGGUG-GCGGGGag---UGGaUACaCCCUG- -5'
27476 3' -59 NC_005869.1 + 13336 0.68 0.259894
Target:  5'- cGCCucCCGCUCCUC-CCUGgagGaGGACa -3'
miRNA:   3'- -CGGu-GGCGGGGAGuGGAUacaC-CCUG- -5'
27476 3' -59 NC_005869.1 + 26441 0.69 0.251238
Target:  5'- cGCCugcgcggGCCGCCCCUCuuCCUGgaggucuacaucGUGGGcCa -3'
miRNA:   3'- -CGG-------UGGCGGGGAGu-GGAUa-----------CACCCuG- -5'
27476 3' -59 NC_005869.1 + 17272 0.69 0.234021
Target:  5'- aCCAacaCGCCCCggcugaggagCGCCUcgGUGGG-Cg -3'
miRNA:   3'- cGGUg--GCGGGGa---------GUGGAuaCACCCuG- -5'
27476 3' -59 NC_005869.1 + 28351 0.7 0.216066
Target:  5'- gGCCACCGCCCUcaucgugcagCGCCagAUGUGGucCu -3'
miRNA:   3'- -CGGUGGCGGGGa---------GUGGa-UACACCcuG- -5'
27476 3' -59 NC_005869.1 + 26055 0.77 0.062141
Target:  5'- cCCGCCGCCucuuCCUCACCUAUGaccUGGaGACc -3'
miRNA:   3'- cGGUGGCGG----GGAGUGGAUAC---ACC-CUG- -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.