miRNA display CGI


Results 1 - 20 of 35 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
7288 5' -60 NC_001900.1 + 10179 1.12 0.000168
Target:  5'- cUGAGGCCAUCAGGGCCGCAGAGAGCCg -3'
miRNA:   3'- -ACUCCGGUAGUCCCGGCGUCUCUCGG- -5'
7288 5' -60 NC_001900.1 + 23390 0.77 0.072602
Target:  5'- gGAcGGCCAUCA-GGCCGaguggaccgacCAGGGAGCCa -3'
miRNA:   3'- aCU-CCGGUAGUcCCGGC-----------GUCUCUCGG- -5'
7288 5' -60 NC_001900.1 + 30784 0.76 0.081315
Target:  5'- --cGGCCuuUCGGGGCCGguGGGuucGGCCa -3'
miRNA:   3'- acuCCGGu-AGUCCCGGCguCUC---UCGG- -5'
7288 5' -60 NC_001900.1 + 5371 0.73 0.141867
Target:  5'- aUGAGGCCGUCAcgcacGGCCGgCAGcAGuGCUa -3'
miRNA:   3'- -ACUCCGGUAGUc----CCGGC-GUC-UCuCGG- -5'
7288 5' -60 NC_001900.1 + 15365 0.73 0.15393
Target:  5'- gGAGGCguUC-GGGCCGUAGuacaGGCCg -3'
miRNA:   3'- aCUCCGguAGuCCCGGCGUCuc--UCGG- -5'
7288 5' -60 NC_001900.1 + 27679 0.72 0.171457
Target:  5'- aUGAGGUCuUCGcGGUCGCAGuAGAGCa -3'
miRNA:   3'- -ACUCCGGuAGUcCCGGCGUC-UCUCGg -5'
7288 5' -60 NC_001900.1 + 37270 0.72 0.180874
Target:  5'- -aGGGCCGUCGuacacGGcCCGCAGcGGGGCCa -3'
miRNA:   3'- acUCCGGUAGUc----CC-GGCGUC-UCUCGG- -5'
7288 5' -60 NC_001900.1 + 23856 0.71 0.185752
Target:  5'- --cGGaCCA-CAGGGCCaGUcGAGAGCCg -3'
miRNA:   3'- acuCC-GGUaGUCCCGG-CGuCUCUCGG- -5'
7288 5' -60 NC_001900.1 + 33859 0.71 0.206439
Target:  5'- cGAGGCCGU---GGCCGCAcgguucggccGAGAcGCCg -3'
miRNA:   3'- aCUCCGGUAgucCCGGCGU----------CUCU-CGG- -5'
7288 5' -60 NC_001900.1 + 5037 0.7 0.217513
Target:  5'- cGGGGUgAauccCAGGGCCGCaacgccucccggAGGGAGUCg -3'
miRNA:   3'- aCUCCGgUa---GUCCCGGCG------------UCUCUCGG- -5'
7288 5' -60 NC_001900.1 + 34165 0.7 0.235072
Target:  5'- --cGGCCuGUCAGGGCCaaauaGGAG-GCCa -3'
miRNA:   3'- acuCCGG-UAGUCCCGGcg---UCUCuCGG- -5'
7288 5' -60 NC_001900.1 + 9902 0.7 0.246798
Target:  5'- cGGGGUgAUCucagAGGuGCCGUAcagguccGAGAGCCg -3'
miRNA:   3'- aCUCCGgUAG----UCC-CGGCGU-------CUCUCGG- -5'
7288 5' -60 NC_001900.1 + 42060 0.69 0.25966
Target:  5'- uUGucGCCGUCGuuguacGGGCCGguGAcguggugGAGCCc -3'
miRNA:   3'- -ACucCGGUAGU------CCCGGCguCU-------CUCGG- -5'
7288 5' -60 NC_001900.1 + 6803 0.69 0.266965
Target:  5'- cGAcGGCCAcaUCGGgaaGGCCGCAGcGGGGUa -3'
miRNA:   3'- aCU-CCGGU--AGUC---CCGGCGUC-UCUCGg -5'
7288 5' -60 NC_001900.1 + 36440 0.68 0.302266
Target:  5'- --cGGCC-UCAccGGGCCGCAGcucGCCg -3'
miRNA:   3'- acuCCGGuAGU--CCCGGCGUCucuCGG- -5'
7288 5' -60 NC_001900.1 + 27330 0.68 0.309744
Target:  5'- gGAGGCaCAaaaaaAGGGCUcCAGAaGGGCCa -3'
miRNA:   3'- aCUCCG-GUag---UCCCGGcGUCU-CUCGG- -5'
7288 5' -60 NC_001900.1 + 39192 0.68 0.317362
Target:  5'- -cAGGUCAUCGGGGagCGCAuAGcGCCg -3'
miRNA:   3'- acUCCGGUAGUCCCg-GCGUcUCuCGG- -5'
7288 5' -60 NC_001900.1 + 9125 0.68 0.333019
Target:  5'- aGaAGGCCcgCAcGGGCCgGguGGuGGCCg -3'
miRNA:   3'- aC-UCCGGuaGU-CCCGG-CguCUcUCGG- -5'
7288 5' -60 NC_001900.1 + 25393 0.68 0.333019
Target:  5'- cUGAGGCCAUCuGGuacuucaucGCCaugcGCGGAGucguguGCCc -3'
miRNA:   3'- -ACUCCGGUAGuCC---------CGG----CGUCUCu-----CGG- -5'
7288 5' -60 NC_001900.1 + 2207 0.67 0.341057
Target:  5'- --cGGCCAccaagUGGGGUgGCugGGAGGGCCu -3'
miRNA:   3'- acuCCGGUa----GUCCCGgCG--UCUCUCGG- -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.