miRNA display CGI


Results 1 - 20 of 39 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
1413 3' -60.8 NC_001335.1 + 24190 0.66 0.412922
Target:  5'- aGCACCGCCgcucugugcggaGACCUGggcaccagcCCCGcCGCCGc -3'
miRNA:   3'- cUGUGGUGG------------CUGGAC---------GGGCuGCGGUa -5'
1413 3' -60.8 NC_001335.1 + 8708 0.66 0.403853
Target:  5'- cGGCAUCGCCGAggcggaaacCCUcgacgGCCUGGCGCUc- -3'
miRNA:   3'- -CUGUGGUGGCU---------GGA-----CGGGCUGCGGua -5'
1413 3' -60.8 NC_001335.1 + 23001 0.66 0.403853
Target:  5'- uACGCCGCCGAUCUcuacgaacacGCCgucggUGAUGCCGa -3'
miRNA:   3'- cUGUGGUGGCUGGA----------CGG-----GCUGCGGUa -5'
1413 3' -60.8 NC_001335.1 + 16298 0.66 0.403853
Target:  5'- aGGCAgCCGCCucGACgCUGgcCCCGACGCUg- -3'
miRNA:   3'- -CUGU-GGUGG--CUG-GAC--GGGCUGCGGua -5'
1413 3' -60.8 NC_001335.1 + 5466 0.66 0.403853
Target:  5'- cGACagACCAUCuACCUGCUCGGCaccGCCGc -3'
miRNA:   3'- -CUG--UGGUGGcUGGACGGGCUG---CGGUa -5'
1413 3' -60.8 NC_001335.1 + 32012 0.66 0.398473
Target:  5'- -uCAgCACCGACCUGCUggccucgauguagaaCGuCGCCGa -3'
miRNA:   3'- cuGUgGUGGCUGGACGG---------------GCuGCGGUa -5'
1413 3' -60.8 NC_001335.1 + 17714 0.66 0.394911
Target:  5'- cACugCACCaGCCacGCUgGACGCCAg -3'
miRNA:   3'- cUGugGUGGcUGGa-CGGgCUGCGGUa -5'
1413 3' -60.8 NC_001335.1 + 12301 0.66 0.386097
Target:  5'- gGACGCCACCGAa--GCCUGAU-CCAg -3'
miRNA:   3'- -CUGUGGUGGCUggaCGGGCUGcGGUa -5'
1413 3' -60.8 NC_001335.1 + 16284 0.66 0.386097
Target:  5'- aGACcgGCCAgCaGACCgGCCaCGAUGCCGa -3'
miRNA:   3'- -CUG--UGGUgG-CUGGaCGG-GCUGCGGUa -5'
1413 3' -60.8 NC_001335.1 + 32979 0.66 0.377415
Target:  5'- aGCACCGCCccuGCCcaGCCCGA-GCCGg -3'
miRNA:   3'- cUGUGGUGGc--UGGa-CGGGCUgCGGUa -5'
1413 3' -60.8 NC_001335.1 + 17133 0.66 0.377415
Target:  5'- cGGCAgCAUCGGCUggagaGCCUGcaGCGCCGUg -3'
miRNA:   3'- -CUGUgGUGGCUGGa----CGGGC--UGCGGUA- -5'
1413 3' -60.8 NC_001335.1 + 1231 0.66 0.374836
Target:  5'- cGACGCCGCCuacGCC-GCCCGauccgggggcuccaGCGCCu- -3'
miRNA:   3'- -CUGUGGUGGc--UGGaCGGGC--------------UGCGGua -5'
1413 3' -60.8 NC_001335.1 + 44405 0.66 0.368865
Target:  5'- -uCACCGCCGAgggugaacuccUCUGgUCGugGCCAg -3'
miRNA:   3'- cuGUGGUGGCU-----------GGACgGGCugCGGUa -5'
1413 3' -60.8 NC_001335.1 + 2989 0.67 0.360449
Target:  5'- cGCGCUcuGCUGACCgaagGUgaCCGACGCCGc -3'
miRNA:   3'- cUGUGG--UGGCUGGa---CG--GGCUGCGGUa -5'
1413 3' -60.8 NC_001335.1 + 8512 0.67 0.360449
Target:  5'- cGACGCUgagcGCCGGCCagagGCCauCGGCGUCAc -3'
miRNA:   3'- -CUGUGG----UGGCUGGa---CGG--GCUGCGGUa -5'
1413 3' -60.8 NC_001335.1 + 6145 0.67 0.352167
Target:  5'- cGACugCACCGGuuCCUGCaCCGGC-UCAg -3'
miRNA:   3'- -CUGugGUGGCU--GGACG-GGCUGcGGUa -5'
1413 3' -60.8 NC_001335.1 + 18826 0.67 0.352167
Target:  5'- gGACGCCGCCGugGCCgugggaggaacUGCCCaaggaGACGCUg- -3'
miRNA:   3'- -CUGUGGUGGC--UGG-----------ACGGG-----CUGCGGua -5'
1413 3' -60.8 NC_001335.1 + 29882 0.67 0.352167
Target:  5'- uGACACCGuuGG--UGCCCGACGUgAg -3'
miRNA:   3'- -CUGUGGUggCUggACGGGCUGCGgUa -5'
1413 3' -60.8 NC_001335.1 + 50919 0.67 0.344021
Target:  5'- uGACGCCcgGCCugucGGCCUGgCUGAaCGCCAg -3'
miRNA:   3'- -CUGUGG--UGG----CUGGACgGGCU-GCGGUa -5'
1413 3' -60.8 NC_001335.1 + 12197 0.67 0.344021
Target:  5'- gGACagGCCGCCGACCUGgCCCcaGACGa--- -3'
miRNA:   3'- -CUG--UGGUGGCUGGAC-GGG--CUGCggua -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.