miRNA display CGI


Results 1 - 16 of 16 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
28350 3' -53.2 NC_005946.1 + 44797 0.66 0.945967
Target:  5'- gAGGGCgcugUUGGCGUUgGGGGccacggccaagAGGUGAGc -3'
miRNA:   3'- -UCCCG----GACUGCAAaUUCC-----------UCCACUCc -5'
28350 3' -53.2 NC_005946.1 + 9721 0.66 0.940791
Target:  5'- uGGGCCcuggacaUGACGgccauccugUUGucGGGGGUGAGu -3'
miRNA:   3'- uCCCGG-------ACUGCa--------AAUu-CCUCCACUCc -5'
28350 3' -53.2 NC_005946.1 + 31453 0.66 0.936325
Target:  5'- uGGccaGCUUGGCGU---AGGcuAGGUGAGGc -3'
miRNA:   3'- uCC---CGGACUGCAaauUCC--UCCACUCC- -5'
28350 3' -53.2 NC_005946.1 + 9070 0.66 0.936325
Target:  5'- -uGGCCUGGgGacccugcGGGAGGUaGAGGu -3'
miRNA:   3'- ucCCGGACUgCaaau---UCCUCCA-CUCC- -5'
28350 3' -53.2 NC_005946.1 + 13693 0.66 0.93165
Target:  5'- uAGGcagugcucCCUGGCGgucaugccagacAGGAGGUGGGGa -3'
miRNA:   3'- -UCCc-------GGACUGCaaau--------UCCUCCACUCC- -5'
28350 3' -53.2 NC_005946.1 + 79495 0.67 0.913942
Target:  5'- gAGGGCCUGACGgccGAGcuGGUGc-- -3'
miRNA:   3'- -UCCCGGACUGCaaaUUCcuCCACucc -5'
28350 3' -53.2 NC_005946.1 + 3073 0.68 0.887462
Target:  5'- gGGGGCCUGugGcu---GGAGa-GGGGa -3'
miRNA:   3'- -UCCCGGACugCaaauuCCUCcaCUCC- -5'
28350 3' -53.2 NC_005946.1 + 22254 0.69 0.823201
Target:  5'- uGGGCCUGcCGguccUAGGGuuccuGGUGGGa -3'
miRNA:   3'- uCCCGGACuGCaa--AUUCCu----CCACUCc -5'
28350 3' -53.2 NC_005946.1 + 12808 0.69 0.805094
Target:  5'- uGGGCCgaggUGACGgcuggcagGAGGuacgucaacAGGUGGGGg -3'
miRNA:   3'- uCCCGG----ACUGCaaa-----UUCC---------UCCACUCC- -5'
28350 3' -53.2 NC_005946.1 + 34780 0.7 0.786308
Target:  5'- uGGGCUUGGCGgc--GGcGGGGUaGGGGg -3'
miRNA:   3'- uCCCGGACUGCaaauUC-CUCCA-CUCC- -5'
28350 3' -53.2 NC_005946.1 + 71834 0.71 0.726673
Target:  5'- cGGGCCagagGACGg--GAGGAGGUcccgcGGGa -3'
miRNA:   3'- uCCCGGa---CUGCaaaUUCCUCCAc----UCC- -5'
28350 3' -53.2 NC_005946.1 + 55658 0.72 0.68501
Target:  5'- uGGGCaacggGACGguggggUUGAGGAGcccGUGAGGg -3'
miRNA:   3'- uCCCGga---CUGCa-----AAUUCCUC---CACUCC- -5'
28350 3' -53.2 NC_005946.1 + 94699 0.72 0.673392
Target:  5'- gGGGGCCcucagaggaggauUGGCGUc-GAGGAGGUGGu- -3'
miRNA:   3'- -UCCCGG-------------ACUGCAaaUUCCUCCACUcc -5'
28350 3' -53.2 NC_005946.1 + 76339 0.74 0.557849
Target:  5'- cAGGGCCcgGACGgagacguGGGAGGUauGGGGc -3'
miRNA:   3'- -UCCCGGa-CUGCaaau---UCCUCCA--CUCC- -5'
28350 3' -53.2 NC_005946.1 + 102375 0.76 0.438159
Target:  5'- gAGGGCCuccuuggacuuUGACGUUgacauGGcGGUGAGGg -3'
miRNA:   3'- -UCCCGG-----------ACUGCAAauu--CCuCCACUCC- -5'
28350 3' -53.2 NC_005946.1 + 13305 1.1 0.003047
Target:  5'- gAGGGCCUGACGUUUAAGGAGGUGAGGc -3'
miRNA:   3'- -UCCCGGACUGCAAAUUCCUCCACUCC- -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.