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
30891 3' -53.5 NC_006552.1 + 52400 0.66 0.85595
Target:  5'- gGGCGCaGGCaGUGGUCAcuacCGAgCACGGCa -3'
miRNA:   3'- -CUGUG-CCGcCAUUAGUc---GCU-GUGCUG- -5'
30891 3' -53.5 NC_006552.1 + 26410 0.66 0.847472
Target:  5'- cGGCAuCGGUcacuuccgcgaaGGcGAUCAGCGACGgcgcCGACu -3'
miRNA:   3'- -CUGU-GCCG------------CCaUUAGUCGCUGU----GCUG- -5'
30891 3' -53.5 NC_006552.1 + 5452 0.66 0.847472
Target:  5'- cGCGCuGGCgGGUGAUCGGCGGauCGGu -3'
miRNA:   3'- cUGUG-CCG-CCAUUAGUCGCUguGCUg -5'
30891 3' -53.5 NC_006552.1 + 31976 0.66 0.838767
Target:  5'- aGAUGcCGGUGGUGcUCGGCGugAaucucCGGCu -3'
miRNA:   3'- -CUGU-GCCGCCAUuAGUCGCugU-----GCUG- -5'
30891 3' -53.5 NC_006552.1 + 22209 0.66 0.829844
Target:  5'- gGACACGaaGGgugcCGGUGACGCGAUc -3'
miRNA:   3'- -CUGUGCcgCCauuaGUCGCUGUGCUG- -5'
30891 3' -53.5 NC_006552.1 + 28614 0.67 0.792168
Target:  5'- --gGCGGCGGUucGAUgccuucCAGCGGCagguaACGGCg -3'
miRNA:   3'- cugUGCCGCCA--UUA------GUCGCUG-----UGCUG- -5'
30891 3' -53.5 NC_006552.1 + 40732 0.67 0.782304
Target:  5'- cACGCGuagaagugcauGCGGUAGUCAcGCGGCgucagcuucuuGCGGCu -3'
miRNA:   3'- cUGUGC-----------CGCCAUUAGU-CGCUG-----------UGCUG- -5'
30891 3' -53.5 NC_006552.1 + 48847 0.68 0.762119
Target:  5'- cGGCAUGGCGGUGAUCuGGCuagaaggucaGGcCACGcCg -3'
miRNA:   3'- -CUGUGCCGCCAUUAG-UCG----------CU-GUGCuG- -5'
30891 3' -53.5 NC_006552.1 + 7100 0.68 0.762119
Target:  5'- cAUGCGGCGGuUGAUCugcucuGCGGCGcCGAa -3'
miRNA:   3'- cUGUGCCGCC-AUUAGu-----CGCUGU-GCUg -5'
30891 3' -53.5 NC_006552.1 + 28017 0.68 0.762119
Target:  5'- --uGCGGCGaGUA--CGGCGGCGCGcCg -3'
miRNA:   3'- cugUGCCGC-CAUuaGUCGCUGUGCuG- -5'
30891 3' -53.5 NC_006552.1 + 5704 0.68 0.741399
Target:  5'- -uCGCGGCGGUcg-CGGCGAacCugGAa -3'
miRNA:   3'- cuGUGCCGCCAuuaGUCGCU--GugCUg -5'
30891 3' -53.5 NC_006552.1 + 12226 0.68 0.720237
Target:  5'- aGCGCgGGCGGccAUCcGCG-CACGGCg -3'
miRNA:   3'- cUGUG-CCGCCauUAGuCGCuGUGCUG- -5'
30891 3' -53.5 NC_006552.1 + 55498 0.68 0.709518
Target:  5'- aGGgGCGGCGGUGAaCgAGUcACugGACg -3'
miRNA:   3'- -CUgUGCCGCCAUUaG-UCGcUGugCUG- -5'
30891 3' -53.5 NC_006552.1 + 59683 0.69 0.673668
Target:  5'- cGGCcaACGGCGGUGAUCGGCaauccgcccuaccaGGCG-GACc -3'
miRNA:   3'- -CUG--UGCCGCCAUUAGUCG--------------CUGUgCUG- -5'
30891 3' -53.5 NC_006552.1 + 21146 0.7 0.610948
Target:  5'- uGACG-GGCGG----CGGCGACGCGAUa -3'
miRNA:   3'- -CUGUgCCGCCauuaGUCGCUGUGCUG- -5'
30891 3' -53.5 NC_006552.1 + 25799 0.75 0.368692
Target:  5'- cGGCACGGcCGGUGAUgcCGGCGAgCACGcccGCa -3'
miRNA:   3'- -CUGUGCC-GCCAUUA--GUCGCU-GUGC---UG- -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.