miRNA display CGI


Results 1 - 20 of 21 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
23071 5' -55.9 NC_005178.1 + 32732 0.66 0.564336
Target:  5'- cGCUUuUGGCCUGGacguaguagGCGCggcgGcGAUUGGCg -3'
miRNA:   3'- uCGAG-ACCGGGCU---------UGCGa---C-CUAACUG- -5'
23071 5' -55.9 NC_005178.1 + 32265 0.66 0.564336
Target:  5'- cAGCUCgcgccGGCCCuGAACGgUGGc--GGCc -3'
miRNA:   3'- -UCGAGa----CCGGG-CUUGCgACCuaaCUG- -5'
23071 5' -55.9 NC_005178.1 + 16291 0.66 0.564336
Target:  5'- cGUUCaUGGCCaUGAuGCGCUGGugcgaUGACu -3'
miRNA:   3'- uCGAG-ACCGG-GCU-UGCGACCua---ACUG- -5'
23071 5' -55.9 NC_005178.1 + 22342 0.66 0.553154
Target:  5'- cGgUCUGGCuuGGAUGCagacGGAUUaGGCc -3'
miRNA:   3'- uCgAGACCGggCUUGCGa---CCUAA-CUG- -5'
23071 5' -55.9 NC_005178.1 + 23662 0.66 0.530999
Target:  5'- cGCgCUGGCCCGuucACGCcGGGc-GGCg -3'
miRNA:   3'- uCGaGACCGGGCu--UGCGaCCUaaCUG- -5'
23071 5' -55.9 NC_005178.1 + 20443 0.66 0.520042
Target:  5'- cGGC-CUGGCCCaGGACGC-GGAc---- -3'
miRNA:   3'- -UCGaGACCGGG-CUUGCGaCCUaacug -5'
23071 5' -55.9 NC_005178.1 + 1380 0.66 0.513511
Target:  5'- gGGCUUgaacaUGGCCCgccgcaaagacgaucGAACGCUGGAc---- -3'
miRNA:   3'- -UCGAG-----ACCGGG---------------CUUGCGACCUaacug -5'
23071 5' -55.9 NC_005178.1 + 6686 0.66 0.509175
Target:  5'- cGCUCUGGU--GGACGgCUGGGUacGACg -3'
miRNA:   3'- uCGAGACCGggCUUGC-GACCUAa-CUG- -5'
23071 5' -55.9 NC_005178.1 + 35609 0.67 0.487737
Target:  5'- cGGCUCacGGgCCGGACGguuCUGGAggaGACg -3'
miRNA:   3'- -UCGAGa-CCgGGCUUGC---GACCUaa-CUG- -5'
23071 5' -55.9 NC_005178.1 + 12909 0.67 0.477178
Target:  5'- cAGUUgCUGGCCgGugguGgGCUGGAggacgUGGCg -3'
miRNA:   3'- -UCGA-GACCGGgCu---UgCGACCUa----ACUG- -5'
23071 5' -55.9 NC_005178.1 + 26312 0.67 0.477178
Target:  5'- cAGgaUUGGgCCGAagACGCUGGAcgcGACg -3'
miRNA:   3'- -UCgaGACCgGGCU--UGCGACCUaa-CUG- -5'
23071 5' -55.9 NC_005178.1 + 28115 0.67 0.466733
Target:  5'- cGGgUUUGGCCUGGGCGgUGGcaccgaUGGCg -3'
miRNA:   3'- -UCgAGACCGGGCUUGCgACCua----ACUG- -5'
23071 5' -55.9 NC_005178.1 + 35211 0.68 0.41639
Target:  5'- aAGCUgUGcuuGCCCGAGCGCgaUGGAUUc-- -3'
miRNA:   3'- -UCGAgAC---CGGGCUUGCG--ACCUAAcug -5'
23071 5' -55.9 NC_005178.1 + 35402 0.68 0.397202
Target:  5'- gGGCcaaCUGGCCCcGGCGCUGGccgccaccGACa -3'
miRNA:   3'- -UCGa--GACCGGGcUUGCGACCuaa-----CUG- -5'
23071 5' -55.9 NC_005178.1 + 34157 0.68 0.397202
Target:  5'- gGGgaCUGGCCCGcACGCgaaUGGAcgaGGCg -3'
miRNA:   3'- -UCgaGACCGGGCuUGCG---ACCUaa-CUG- -5'
23071 5' -55.9 NC_005178.1 + 35594 0.69 0.378591
Target:  5'- cGGCaacaUC-GGCCCGGAaGCUGGGgcGACg -3'
miRNA:   3'- -UCG----AGaCCGGGCUUgCGACCUaaCUG- -5'
23071 5' -55.9 NC_005178.1 + 16997 0.7 0.326369
Target:  5'- cGCgacCUGGCCCuGGA-GCUGGG-UGACa -3'
miRNA:   3'- uCGa--GACCGGG-CUUgCGACCUaACUG- -5'
23071 5' -55.9 NC_005178.1 + 19872 0.71 0.294631
Target:  5'- gAGUUCUGGCCCauggauGGGCGCccuaUGGAUgugccgggcUGGCg -3'
miRNA:   3'- -UCGAGACCGGG------CUUGCG----ACCUA---------ACUG- -5'
23071 5' -55.9 NC_005178.1 + 12652 0.71 0.258406
Target:  5'- cGGCUCggcGGCCgGcGCGCUGGcgggUGGCc -3'
miRNA:   3'- -UCGAGa--CCGGgCuUGCGACCua--ACUG- -5'
23071 5' -55.9 NC_005178.1 + 21884 0.73 0.191545
Target:  5'- uGCUCcuggucGGCCCG-GCGCUGGAagacgUGGCg -3'
miRNA:   3'- uCGAGa-----CCGGGCuUGCGACCUa----ACUG- -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.