miRNA display CGI


Results 1 - 20 of 40 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
16461 3' -54.3 NC_004084.1 + 30296 0.66 0.78988
Target:  5'- aGGACGUCauugacGCGCUCgucgAGGcGCACC-CCg -3'
miRNA:   3'- -CUUGUAG------UGCGAGg---UCCuCGUGGuGG- -5'
16461 3' -54.3 NC_004084.1 + 22377 0.66 0.78988
Target:  5'- cGACAUCA---UCCAGGAGgucgaaCGCUACCg -3'
miRNA:   3'- cUUGUAGUgcgAGGUCCUC------GUGGUGG- -5'
16461 3' -54.3 NC_004084.1 + 34710 0.66 0.78988
Target:  5'- -cGCGUCcauCGCcgUCUGGGAGaCGCuCACCg -3'
miRNA:   3'- cuUGUAGu--GCG--AGGUCCUC-GUG-GUGG- -5'
16461 3' -54.3 NC_004084.1 + 29034 0.66 0.779924
Target:  5'- cGGCAUCACcUUCCAGGAGgGaCGCg -3'
miRNA:   3'- cUUGUAGUGcGAGGUCCUCgUgGUGg -5'
16461 3' -54.3 NC_004084.1 + 56101 0.66 0.779924
Target:  5'- gGAGC-UCAacaagauCUCCGGcGAGCACgACCa -3'
miRNA:   3'- -CUUGuAGUgc-----GAGGUC-CUCGUGgUGG- -5'
16461 3' -54.3 NC_004084.1 + 1870 0.66 0.769813
Target:  5'- cGACGUCGC-CUCCuGGAcUGCCACg -3'
miRNA:   3'- cUUGUAGUGcGAGGuCCUcGUGGUGg -5'
16461 3' -54.3 NC_004084.1 + 10700 0.66 0.759558
Target:  5'- gGGACAaaUCugGaCUaCGcGGAGCACCACg -3'
miRNA:   3'- -CUUGU--AGugC-GAgGU-CCUCGUGGUGg -5'
16461 3' -54.3 NC_004084.1 + 22292 0.66 0.759558
Target:  5'- cGAACGUUGCacaccauaccaGC-CCGGGGGCcguGCCACUc -3'
miRNA:   3'- -CUUGUAGUG-----------CGaGGUCCUCG---UGGUGG- -5'
16461 3' -54.3 NC_004084.1 + 1022 0.66 0.749171
Target:  5'- cGACGUCgACGCgaUCGGGGGCGCgcucgaguuCGCCg -3'
miRNA:   3'- cUUGUAG-UGCGa-GGUCCUCGUG---------GUGG- -5'
16461 3' -54.3 NC_004084.1 + 27622 0.67 0.72163
Target:  5'- cGACAUCugGUucgacgcagaagugaUCgAGGGGaUGCCGCCg -3'
miRNA:   3'- cUUGUAGugCG---------------AGgUCCUC-GUGGUGG- -5'
16461 3' -54.3 NC_004084.1 + 9428 0.67 0.717334
Target:  5'- cGAGCA-CGCGCUCUcGGuGCugCgggacGCCg -3'
miRNA:   3'- -CUUGUaGUGCGAGGuCCuCGugG-----UGG- -5'
16461 3' -54.3 NC_004084.1 + 3310 0.67 0.706535
Target:  5'- aGAC-UCAacaGCUCCAGGAGgAgCGCg -3'
miRNA:   3'- cUUGuAGUg--CGAGGUCCUCgUgGUGg -5'
16461 3' -54.3 NC_004084.1 + 55206 0.67 0.695662
Target:  5'- ---aGUCAC-CUCCAGugguGAGCuucGCCACCg -3'
miRNA:   3'- cuugUAGUGcGAGGUC----CUCG---UGGUGG- -5'
16461 3' -54.3 NC_004084.1 + 29261 0.67 0.695662
Target:  5'- cGAACGgccCGCGCgaCCAcaccAGCACCGCCg -3'
miRNA:   3'- -CUUGUa--GUGCGa-GGUcc--UCGUGGUGG- -5'
16461 3' -54.3 NC_004084.1 + 4319 0.67 0.695662
Target:  5'- cGGGCGUCGuCGagUCC-GGAGCGuucuCCACCg -3'
miRNA:   3'- -CUUGUAGU-GCg-AGGuCCUCGU----GGUGG- -5'
16461 3' -54.3 NC_004084.1 + 15444 0.67 0.684727
Target:  5'- aGGCGUUGCGCUCUcGGGGaCACuCGCg -3'
miRNA:   3'- cUUGUAGUGCGAGGuCCUC-GUG-GUGg -5'
16461 3' -54.3 NC_004084.1 + 49117 0.67 0.684727
Target:  5'- aGAGCGUCACGaUCUgaAGGAGCcggACCAg- -3'
miRNA:   3'- -CUUGUAGUGCgAGG--UCCUCG---UGGUgg -5'
16461 3' -54.3 NC_004084.1 + 29099 0.67 0.684727
Target:  5'- gGGACGUCcuccGCGCcaUCCAGGuAGCGuacCCACa -3'
miRNA:   3'- -CUUGUAG----UGCG--AGGUCC-UCGU---GGUGg -5'
16461 3' -54.3 NC_004084.1 + 22850 0.68 0.673741
Target:  5'- cGAACGUCGuuguagagcUGCgUCCGGcGGCACuCGCCg -3'
miRNA:   3'- -CUUGUAGU---------GCG-AGGUCcUCGUG-GUGG- -5'
16461 3' -54.3 NC_004084.1 + 31363 0.68 0.662715
Target:  5'- cGAGCAUCGCGCgaucgacaCCAGaGAGUucaGCCcggcgaagGCCg -3'
miRNA:   3'- -CUUGUAGUGCGa-------GGUC-CUCG---UGG--------UGG- -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.