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
27051 3' -59.9 NC_005832.1 + 38297 0.66 0.648836
Target:  5'- -aUGCuCACCaGCUUUgcgugCAGGGAGGCCa -3'
miRNA:   3'- gcACGuGUGG-CGAGG-----GUCCUUCCGGa -5'
27051 3' -59.9 NC_005832.1 + 77355 0.66 0.648836
Target:  5'- gGUGUACGCCGCcuugUCCuCGGGc--GCCUc -3'
miRNA:   3'- gCACGUGUGGCG----AGG-GUCCuucCGGA- -5'
27051 3' -59.9 NC_005832.1 + 35698 0.66 0.648836
Target:  5'- cCGUGgGCGCCucuGCgUCUAGGuGGGCCa -3'
miRNA:   3'- -GCACgUGUGG---CGaGGGUCCuUCCGGa -5'
27051 3' -59.9 NC_005832.1 + 40958 0.66 0.648836
Target:  5'- aCG-GCAgGgUgGCUCCCAGGuccGGCCUg -3'
miRNA:   3'- -GCaCGUgUgG-CGAGGGUCCuu-CCGGA- -5'
27051 3' -59.9 NC_005832.1 + 39466 0.66 0.648836
Target:  5'- -cUGguCGCCGUcgUCCCcgGGGggGGUCa -3'
miRNA:   3'- gcACguGUGGCG--AGGG--UCCuuCCGGa -5'
27051 3' -59.9 NC_005832.1 + 66542 0.66 0.64781
Target:  5'- ----gGCAgCGUcucccaagucccaUCCCAGGGAGGCCg -3'
miRNA:   3'- gcacgUGUgGCG-------------AGGGUCCUUCCGGa -5'
27051 3' -59.9 NC_005832.1 + 2643 0.66 0.638576
Target:  5'- -aUGCACGuuGUUgUCgcggAGGAGGGCCUg -3'
miRNA:   3'- gcACGUGUggCGAgGG----UCCUUCCGGA- -5'
27051 3' -59.9 NC_005832.1 + 39918 0.66 0.638576
Target:  5'- cCGguugGaCcCACCGCUCC--GGggGGCCUc -3'
miRNA:   3'- -GCa---C-GuGUGGCGAGGguCCuuCCGGA- -5'
27051 3' -59.9 NC_005832.1 + 32808 0.66 0.628311
Target:  5'- -cUGCAcCACCGCcucgUCCGGGGagAGGCUg -3'
miRNA:   3'- gcACGU-GUGGCGa---GGGUCCU--UCCGGa -5'
27051 3' -59.9 NC_005832.1 + 20820 0.67 0.597563
Target:  5'- --cGUACuCUGCUCCCGauccGGAAGGCa- -3'
miRNA:   3'- gcaCGUGuGGCGAGGGU----CCUUCCGga -5'
27051 3' -59.9 NC_005832.1 + 52897 0.67 0.576165
Target:  5'- aGUGCACGUCGCUCCuggcccuCAGGAuccuGCCg -3'
miRNA:   3'- gCACGUGUGGCGAGG-------GUCCUuc--CGGa -5'
27051 3' -59.9 NC_005832.1 + 1580 0.67 0.556955
Target:  5'- cCGUGCAUgacgGCUGUggCCAuGAGGGCCUg -3'
miRNA:   3'- -GCACGUG----UGGCGagGGUcCUUCCGGA- -5'
27051 3' -59.9 NC_005832.1 + 16916 0.67 0.543917
Target:  5'- gGUGCAgGCCGCcccaguccacauggUcaacCCCAGGAAcgcGGCCa -3'
miRNA:   3'- gCACGUgUGGCG--------------A----GGGUCCUU---CCGGa -5'
27051 3' -59.9 NC_005832.1 + 35102 0.68 0.535943
Target:  5'- aCGUGUACGCggcagugUGCUgccacgagugcCCCGGGAuGGCCg -3'
miRNA:   3'- -GCACGUGUG-------GCGA-----------GGGUCCUuCCGGa -5'
27051 3' -59.9 NC_005832.1 + 96153 0.68 0.527022
Target:  5'- gGUgGCACAUUGC-CaCCAGGguGGCCg -3'
miRNA:   3'- gCA-CGUGUGGCGaG-GGUCCuuCCGGa -5'
27051 3' -59.9 NC_005832.1 + 31527 0.68 0.518157
Target:  5'- aGUGCGcCACCGCUCaguguagagaggcggUGGGGAGGaCCUa -3'
miRNA:   3'- gCACGU-GUGGCGAGg--------------GUCCUUCC-GGA- -5'
27051 3' -59.9 NC_005832.1 + 30732 0.68 0.517176
Target:  5'- gGUGacgGCGCCGCUCCCAaGAagagAGGCa- -3'
miRNA:   3'- gCACg--UGUGGCGAGGGUcCU----UCCGga -5'
27051 3' -59.9 NC_005832.1 + 104220 0.68 0.507404
Target:  5'- -cUGCcccaguuuacaACGCCGuCUCCCAGGAAGGa-- -3'
miRNA:   3'- gcACG-----------UGUGGC-GAGGGUCCUUCCgga -5'
27051 3' -59.9 NC_005832.1 + 37311 0.68 0.507404
Target:  5'- aCGUaGCAC-CUGUUUCCAGuGGAGGUCa -3'
miRNA:   3'- -GCA-CGUGuGGCGAGGGUC-CUUCCGGa -5'
27051 3' -59.9 NC_005832.1 + 6224 0.68 0.507404
Target:  5'- --gGCAgGCCGCgagcUCCuCGGGAGGGCa- -3'
miRNA:   3'- gcaCGUgUGGCG----AGG-GUCCUUCCGga -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.