miRNA display CGI


Results 1 - 17 of 17 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
31624 3' -57.8 NC_006879.1 + 23261 0.66 0.502628
Target:  5'- gCCGUGCuGGUCaccgugGAGCUGgAAUgCCUGCa -3'
miRNA:   3'- -GGUACGcUCAG------CUCGGC-UUGgGGGCG- -5'
31624 3' -57.8 NC_006879.1 + 24862 0.66 0.501587
Target:  5'- aCCGUGaUGGaagaggagguagcGUCGGGCaaaggaGAuguuuCCCCCGCa -3'
miRNA:   3'- -GGUAC-GCU-------------CAGCUCGg-----CUu----GGGGGCG- -5'
31624 3' -57.8 NC_006879.1 + 3255 0.66 0.492258
Target:  5'- aCCGUGgacGGaCG-GCCGGucGCCCCUGCa -3'
miRNA:   3'- -GGUACgc-UCaGCuCGGCU--UGGGGGCG- -5'
31624 3' -57.8 NC_006879.1 + 9819 0.66 0.451824
Target:  5'- cCCcgGCGcccccgccacAGUCG-GCUG-GCCCCUGUa -3'
miRNA:   3'- -GGuaCGC----------UCAGCuCGGCuUGGGGGCG- -5'
31624 3' -57.8 NC_006879.1 + 10051 0.66 0.451824
Target:  5'- cCCGguuCGAGaCcGGCCGGAUCCgCCGCu -3'
miRNA:   3'- -GGUac-GCUCaGcUCGGCUUGGG-GGCG- -5'
31624 3' -57.8 NC_006879.1 + 21157 0.67 0.422722
Target:  5'- ---cGC-AGUUaGGGCCgGAGCUCCCGCg -3'
miRNA:   3'- gguaCGcUCAG-CUCGG-CUUGGGGGCG- -5'
31624 3' -57.8 NC_006879.1 + 6116 0.67 0.40211
Target:  5'- aCCcgGCauauuuaccaUCGAcGCCGAcCCCCCGCc -3'
miRNA:   3'- -GGuaCGcuc-------AGCU-CGGCUuGGGGGCG- -5'
31624 3' -57.8 NC_006879.1 + 26017 0.67 0.394775
Target:  5'- -gAUGCaGAuGUCGcAGCCGAGCUCucacggCCGCa -3'
miRNA:   3'- ggUACG-CU-CAGC-UCGGCUUGGG------GGCG- -5'
31624 3' -57.8 NC_006879.1 + 4789 0.68 0.359423
Target:  5'- aCA-GCGAaaGUCG-GCCcAACCCCCGa -3'
miRNA:   3'- gGUaCGCU--CAGCuCGGcUUGGGGGCg -5'
31624 3' -57.8 NC_006879.1 + 10569 0.68 0.359423
Target:  5'- cCCAgaacGCucGUCGGGCuCGAAauCCUCCGCc -3'
miRNA:   3'- -GGUa---CGcuCAGCUCG-GCUU--GGGGGCG- -5'
31624 3' -57.8 NC_006879.1 + 4036 0.68 0.350938
Target:  5'- aCCGUGCuGGU--GGUCcuucauaacauGAACCCCCGCa -3'
miRNA:   3'- -GGUACGcUCAgcUCGG-----------CUUGGGGGCG- -5'
31624 3' -57.8 NC_006879.1 + 9545 0.68 0.34842
Target:  5'- gCCGUGCuggccgagaGGGUCGuGGCCGAccuagcguugcugcAgCCCUGCg -3'
miRNA:   3'- -GGUACG---------CUCAGC-UCGGCU--------------UgGGGGCG- -5'
31624 3' -57.8 NC_006879.1 + 12932 0.69 0.326344
Target:  5'- aCCA-GCG-GUCGcGGCUGAcuguccucccACUCCCGCu -3'
miRNA:   3'- -GGUaCGCuCAGC-UCGGCU----------UGGGGGCG- -5'
31624 3' -57.8 NC_006879.1 + 19933 0.69 0.310671
Target:  5'- aCCAUGCGAGagGGGCa-GGCCuaCCCGg -3'
miRNA:   3'- -GGUACGCUCagCUCGgcUUGG--GGGCg -5'
31624 3' -57.8 NC_006879.1 + 20510 0.7 0.274016
Target:  5'- uCCAgGCGAaggCGAGCCaguGGACCCCCcCg -3'
miRNA:   3'- -GGUaCGCUca-GCUCGG---CUUGGGGGcG- -5'
31624 3' -57.8 NC_006879.1 + 8431 0.74 0.140407
Target:  5'- aCCGUggaGCGAG-CGGGCCacggcGACCUCCGCg -3'
miRNA:   3'- -GGUA---CGCUCaGCUCGGc----UUGGGGGCG- -5'
31624 3' -57.8 NC_006879.1 + 9436 1.14 0.000172
Target:  5'- gCCAUGCGAGUCGAGCCGAACCCCCGCa -3'
miRNA:   3'- -GGUACGCUCAGCUCGGCUUGGGGGCG- -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.