miRNA display CGI


Results 1 - 18 of 18 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
29109 3' -54.4 NC_006146.1 + 132988 0.66 0.950688
Target:  5'- gGUGGAGaCCgcgGGUG-CGGUGAU-UGCUu -3'
miRNA:   3'- -CACCUU-GGa--UCACgGCCACUAcACGA- -5'
29109 3' -54.4 NC_006146.1 + 153831 0.66 0.941835
Target:  5'- aGUGGAcggGCCUGGgagGCUGGUucUGggGCUg -3'
miRNA:   3'- -CACCU---UGGAUCa--CGGCCAcuACa-CGA- -5'
29109 3' -54.4 NC_006146.1 + 141520 0.66 0.941835
Target:  5'- aGUGGAcggGCCUGGgagGCUGGUucUGggGCUg -3'
miRNA:   3'- -CACCU---UGGAUCa--CGGCCAcuACa-CGA- -5'
29109 3' -54.4 NC_006146.1 + 144598 0.66 0.941835
Target:  5'- aGUGGAcggGCCUGGgagGCUGGUucUGggGCUg -3'
miRNA:   3'- -CACCU---UGGAUCa--CGGCCAcuACa-CGA- -5'
29109 3' -54.4 NC_006146.1 + 147676 0.66 0.941835
Target:  5'- aGUGGAcggGCCUGGgagGCUGGUucUGgGCUg -3'
miRNA:   3'- -CACCU---UGGAUCa--CGGCCAcuACaCGA- -5'
29109 3' -54.4 NC_006146.1 + 150753 0.66 0.941835
Target:  5'- aGUGGAcggGCCUGGgagGCUGGUucUGggGCUg -3'
miRNA:   3'- -CACCU---UGGAUCa--CGGCCAcuACa-CGA- -5'
29109 3' -54.4 NC_006146.1 + 156909 0.66 0.941835
Target:  5'- aGUGGAcggGCCUGGgagGCUGGUucUGggGCUg -3'
miRNA:   3'- -CACCU---UGGAUCa--CGGCCAcuACa-CGA- -5'
29109 3' -54.4 NC_006146.1 + 47053 0.66 0.937045
Target:  5'- -aGGGGCCggucgccGGUGUCGGUGAggggGCg -3'
miRNA:   3'- caCCUUGGa------UCACGGCCACUaca-CGa -5'
29109 3' -54.4 NC_006146.1 + 44783 0.67 0.932011
Target:  5'- -gGGAACCcAG-GCCGGggaucuggaUGGUGUGUUu -3'
miRNA:   3'- caCCUUGGaUCaCGGCC---------ACUACACGA- -5'
29109 3' -54.4 NC_006146.1 + 105203 0.68 0.896662
Target:  5'- -gGGAGCCgggGGUGCCcGGUGccugagacgaGUGCUc -3'
miRNA:   3'- caCCUUGGa--UCACGG-CCACua--------CACGA- -5'
29109 3' -54.4 NC_006146.1 + 68368 0.68 0.889926
Target:  5'- uGUGGAGauccCCguggcGGUGCUGGUGAcucccgugGUGCUg -3'
miRNA:   3'- -CACCUU----GGa----UCACGGCCACUa-------CACGA- -5'
29109 3' -54.4 NC_006146.1 + 60139 0.69 0.852847
Target:  5'- -aGGGACCUGGUGgggGGUG-UGUGCc -3'
miRNA:   3'- caCCUUGGAUCACgg-CCACuACACGa -5'
29109 3' -54.4 NC_006146.1 + 112115 0.69 0.852847
Target:  5'- gGUGGAGg-UGGUGCUGGUGGUG-GCc -3'
miRNA:   3'- -CACCUUggAUCACGGCCACUACaCGa -5'
29109 3' -54.4 NC_006146.1 + 140632 0.69 0.84479
Target:  5'- -gGGGACCacggcgcuccuUGGUGCCuGUGGUGaUGCUc -3'
miRNA:   3'- caCCUUGG-----------AUCACGGcCACUAC-ACGA- -5'
29109 3' -54.4 NC_006146.1 + 2848 0.7 0.801678
Target:  5'- -aGGAGCggGGUGCCGGUuGUGgccgGCUu -3'
miRNA:   3'- caCCUUGgaUCACGGCCAcUACa---CGA- -5'
29109 3' -54.4 NC_006146.1 + 89958 0.7 0.773851
Target:  5'- -aGGAAgC-AGUGCCGGUG--GUGCUg -3'
miRNA:   3'- caCCUUgGaUCACGGCCACuaCACGA- -5'
29109 3' -54.4 NC_006146.1 + 57345 0.71 0.734971
Target:  5'- -cGGGGCCccgGGUGUCGGUGAgGgagGCUg -3'
miRNA:   3'- caCCUUGGa--UCACGGCCACUaCa--CGA- -5'
29109 3' -54.4 NC_006146.1 + 133422 1.08 0.004694
Target:  5'- gGUGGAACCUAGUGCCGGUGAUGUGCUg -3'
miRNA:   3'- -CACCUUGGAUCACGGCCACUACACGA- -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.