miRNA display CGI


Results 1 - 20 of 176 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
16408 5' -55.5 NC_004084.1 + 295 0.67 0.697999
Target:  5'- uCGACGAcgaCCGCCGACGAgaaccCGAag-CAg -3'
miRNA:   3'- -GCUGCUag-GGCGGCUGCU-----GCUguaGU- -5'
16408 5' -55.5 NC_004084.1 + 389 0.71 0.486848
Target:  5'- gGACG-UCgCCGCCGAUGucgcaGACGUCGu -3'
miRNA:   3'- gCUGCuAG-GGCGGCUGCug---CUGUAGU- -5'
16408 5' -55.5 NC_004084.1 + 566 0.67 0.681012
Target:  5'- aGGCGGggaucuUCCCgGCCGAgGAacucgagaugacggcCGACGUCAa -3'
miRNA:   3'- gCUGCU------AGGG-CGGCUgCU---------------GCUGUAGU- -5'
16408 5' -55.5 NC_004084.1 + 631 0.77 0.20774
Target:  5'- uGGCGAUCUCGUCGuggagcuccuCGACGGCGUCGu -3'
miRNA:   3'- gCUGCUAGGGCGGCu---------GCUGCUGUAGU- -5'
16408 5' -55.5 NC_004084.1 + 1000 0.66 0.759955
Target:  5'- aCGACGAUCaCGCUGGCGuaccUGAUcgCGg -3'
miRNA:   3'- -GCUGCUAGgGCGGCUGCu---GCUGuaGU- -5'
16408 5' -55.5 NC_004084.1 + 1242 0.71 0.476887
Target:  5'- gGGCGAUCgCGCCcAUcuccucauccugGACGACAUCAu -3'
miRNA:   3'- gCUGCUAGgGCGGcUG------------CUGCUGUAGU- -5'
16408 5' -55.5 NC_004084.1 + 1450 0.66 0.753924
Target:  5'- cCGGCGAUccuggacuacugggaCCagcaguucagCGCCGACGACGACu--- -3'
miRNA:   3'- -GCUGCUA---------------GG----------GCGGCUGCUGCUGuagu -5'
16408 5' -55.5 NC_004084.1 + 1807 0.76 0.261374
Target:  5'- cCGGCGAaCUCGCCGAcCGGCGACGa-- -3'
miRNA:   3'- -GCUGCUaGGGCGGCU-GCUGCUGUagu -5'
16408 5' -55.5 NC_004084.1 + 1842 0.66 0.759955
Target:  5'- gGACGGUgaacucUUCGUCGACGAgGAUGUCu -3'
miRNA:   3'- gCUGCUA------GGGCGGCUGCUgCUGUAGu -5'
16408 5' -55.5 NC_004084.1 + 1847 0.69 0.559003
Target:  5'- uGugGcUCCUGCagcgCGACgGACGACGUCGc -3'
miRNA:   3'- gCugCuAGGGCG----GCUG-CUGCUGUAGU- -5'
16408 5' -55.5 NC_004084.1 + 2283 0.7 0.53801
Target:  5'- gGGCuGGUCgaCGCCGACGAcacugcggcgcaCGACGUCGa -3'
miRNA:   3'- gCUG-CUAGg-GCGGCUGCU------------GCUGUAGU- -5'
16408 5' -55.5 NC_004084.1 + 2572 0.71 0.476887
Target:  5'- aGACG-UCCgCGUCGuuGACGGCAUCc -3'
miRNA:   3'- gCUGCuAGG-GCGGCugCUGCUGUAGu -5'
16408 5' -55.5 NC_004084.1 + 2899 0.74 0.339164
Target:  5'- gGAgGAUCCCaucaucaacgcgguGCCGACGAgGaACAUCAg -3'
miRNA:   3'- gCUgCUAGGG--------------CGGCUGCUgC-UGUAGU- -5'
16408 5' -55.5 NC_004084.1 + 3013 0.67 0.708539
Target:  5'- cCGGCGAUCauGCCGAguauguCGGCGAUAcCGg -3'
miRNA:   3'- -GCUGCUAGggCGGCU------GCUGCUGUaGU- -5'
16408 5' -55.5 NC_004084.1 + 3149 0.73 0.37484
Target:  5'- uGACGAUCuacacgCCGCCGACcguaGACGuCGUCGa -3'
miRNA:   3'- gCUGCUAG------GGCGGCUG----CUGCuGUAGU- -5'
16408 5' -55.5 NC_004084.1 + 3490 0.66 0.769906
Target:  5'- gGAgGAUCCCGaUCGA-GACGGCGagCAg -3'
miRNA:   3'- gCUgCUAGGGC-GGCUgCUGCUGUa-GU- -5'
16408 5' -55.5 NC_004084.1 + 3642 0.66 0.749879
Target:  5'- gGGCGAUCaguagCGCUGGCGGggguugggcuUGGCGUCGa -3'
miRNA:   3'- gCUGCUAGg----GCGGCUGCU----------GCUGUAGU- -5'
16408 5' -55.5 NC_004084.1 + 3796 0.72 0.410234
Target:  5'- aCGACGAUUcgauacgugacgCCGCCGAUGACuGAC-UCGa -3'
miRNA:   3'- -GCUGCUAG------------GGCGGCUGCUG-CUGuAGU- -5'
16408 5' -55.5 NC_004084.1 + 3816 0.7 0.507057
Target:  5'- gCGAccuCGAUCCagucuucgucgaCGCCGACGACGGC-UCc -3'
miRNA:   3'- -GCU---GCUAGG------------GCGGCUGCUGCUGuAGu -5'
16408 5' -55.5 NC_004084.1 + 3960 0.67 0.687397
Target:  5'- aGACGAUCCgCGgCGACaguGCGGCG-CAg -3'
miRNA:   3'- gCUGCUAGG-GCgGCUGc--UGCUGUaGU- -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.