miRNA display CGI


Results 1 - 20 of 24 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
30421 3' -56.6 NC_006548.1 + 16012 0.68 0.440686
Target:  5'- uCCGCUucacuGCGGAGCGCAcUGCUGAc -3'
miRNA:   3'- cGGUGGuac--UGCCUCGUGUcACGGCU- -5'
30421 3' -56.6 NC_006548.1 + 20359 0.67 0.45065
Target:  5'- cGCCugCGUGACuucuucgucGAGCGCgaaGGcGCCGAa -3'
miRNA:   3'- -CGGugGUACUGc--------CUCGUG---UCaCGGCU- -5'
30421 3' -56.6 NC_006548.1 + 33873 0.67 0.465825
Target:  5'- cGCgGCCGgugagcgacgaugGACGGcGCAugaccggccaggcCAGUGCCGAc -3'
miRNA:   3'- -CGgUGGUa------------CUGCCuCGU-------------GUCACGGCU- -5'
30421 3' -56.6 NC_006548.1 + 16974 0.67 0.470942
Target:  5'- cGCCGgCAUGcagGCGGAGCuGCuGgaaGCCGGg -3'
miRNA:   3'- -CGGUgGUAC---UGCCUCG-UGuCa--CGGCU- -5'
30421 3' -56.6 NC_006548.1 + 26525 0.66 0.522489
Target:  5'- cCCGCCGUacugggaGACGGAGgGCuauggcGUGCCa- -3'
miRNA:   3'- cGGUGGUA-------CUGCCUCgUGu-----CACGGcu -5'
30421 3' -56.6 NC_006548.1 + 17876 0.66 0.534369
Target:  5'- gGCCAuCCGUGACGGcaugacccuGGCGgAGUuCCGc -3'
miRNA:   3'- -CGGU-GGUACUGCC---------UCGUgUCAcGGCu -5'
30421 3' -56.6 NC_006548.1 + 24155 0.66 0.534369
Target:  5'- cGCCACacgcauuccggCAUGACGuaccaGGC-CGGUGCUGAa -3'
miRNA:   3'- -CGGUG-----------GUACUGCc----UCGuGUCACGGCU- -5'
30421 3' -56.6 NC_006548.1 + 16173 0.66 0.54525
Target:  5'- aUCAUCGUGccgcACGGcuucGGCGCGGUGCgCGGu -3'
miRNA:   3'- cGGUGGUAC----UGCC----UCGUGUCACG-GCU- -5'
30421 3' -56.6 NC_006548.1 + 22072 0.71 0.270876
Target:  5'- gGCUcCCucggcGACGaGGGCAUGGUGCCGAu -3'
miRNA:   3'- -CGGuGGua---CUGC-CUCGUGUCACGGCU- -5'
30421 3' -56.6 NC_006548.1 + 27779 0.66 0.556202
Target:  5'- cGCCACCA-GGCGGgaauaggcuuGGC-UGGUGuuGAg -3'
miRNA:   3'- -CGGUGGUaCUGCC----------UCGuGUCACggCU- -5'
30421 3' -56.6 NC_006548.1 + 36677 0.66 0.556202
Target:  5'- uGgCACCGUaucGACGcauccccgcgcGAGCACcgcGGUGCCGGc -3'
miRNA:   3'- -CgGUGGUA---CUGC-----------CUCGUG---UCACGGCU- -5'
30421 3' -56.6 NC_006548.1 + 27885 0.66 0.54525
Target:  5'- uGCCAUUGguuuccUGGCGGgugaggugcAGCGCAGUggugGCCGAg -3'
miRNA:   3'- -CGGUGGU------ACUGCC---------UCGUGUCA----CGGCU- -5'
30421 3' -56.6 NC_006548.1 + 23598 0.66 0.535453
Target:  5'- cCCACCGccUGGCGGGGUcaGCGGgucauccggcccgagGCUGAa -3'
miRNA:   3'- cGGUGGU--ACUGCCUCG--UGUCa--------------CGGCU- -5'
30421 3' -56.6 NC_006548.1 + 30506 0.66 0.534369
Target:  5'- cGCCACCG-GGCGGgaucgccccAGCAUugaacgccGUGCCGc -3'
miRNA:   3'- -CGGUGGUaCUGCC---------UCGUGu-------CACGGCu -5'
30421 3' -56.6 NC_006548.1 + 28954 0.66 0.502218
Target:  5'- gGCCGCCucGACGGuuuGGC-CGGUGgcCCGAa -3'
miRNA:   3'- -CGGUGGuaCUGCC---UCGuGUCAC--GGCU- -5'
30421 3' -56.6 NC_006548.1 + 38325 0.66 0.502218
Target:  5'- gGCCACCcgcucaGACaGAGCGguCAGcuUGCCGAu -3'
miRNA:   3'- -CGGUGGua----CUGcCUCGU--GUC--ACGGCU- -5'
30421 3' -56.6 NC_006548.1 + 17027 0.66 0.502218
Target:  5'- cGCCugCAUGcCGGcgGGCAUgaugauUGCCGAa -3'
miRNA:   3'- -CGGugGUACuGCC--UCGUGuc----ACGGCU- -5'
30421 3' -56.6 NC_006548.1 + 3890 0.67 0.48126
Target:  5'- gGCCACuucuccaagcugCAUG-CGGAGCuGCAGUGCaUGGc -3'
miRNA:   3'- -CGGUG------------GUACuGCCUCG-UGUCACG-GCU- -5'
30421 3' -56.6 NC_006548.1 + 20622 0.68 0.421139
Target:  5'- -gCACCGUcgGAUGGGGUgACGGUGCCc- -3'
miRNA:   3'- cgGUGGUA--CUGCCUCG-UGUCACGGcu -5'
30421 3' -56.6 NC_006548.1 + 23972 0.69 0.365778
Target:  5'- cGUCACCGaGuACGGGGCGCAG-GUCa- -3'
miRNA:   3'- -CGGUGGUaC-UGCCUCGUGUCaCGGcu -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.