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
8679 5' -54.4 NC_002229.2 + 173496 0.66 0.962022
Target:  5'- aACUCGAuUCCGAuuacCGCaggUCAUCUCGGa -3'
miRNA:   3'- -UGGGCU-AGGUUuc--GCG---AGUAGAGCCg -5'
8679 5' -54.4 NC_002229.2 + 139118 0.66 0.962022
Target:  5'- aACUCGAuUCCGAuuacCGCaggUCAUCUCGGa -3'
miRNA:   3'- -UGGGCU-AGGUUuc--GCG---AGUAGAGCCg -5'
8679 5' -54.4 NC_002229.2 + 79675 0.67 0.941892
Target:  5'- aAUCCGAUCgAAAaCGCUUGcCUUGGCc -3'
miRNA:   3'- -UGGGCUAGgUUUcGCGAGUaGAGCCG- -5'
8679 5' -54.4 NC_002229.2 + 43595 0.67 0.937167
Target:  5'- uGCCUGG-CCGaauGAGCGCUguaGUCUUGGg -3'
miRNA:   3'- -UGGGCUaGGU---UUCGCGAg--UAGAGCCg -5'
8679 5' -54.4 NC_002229.2 + 11815 0.67 0.927001
Target:  5'- cGCCauAUCCGAuugGCUCAcCUCGGCg -3'
miRNA:   3'- -UGGgcUAGGUUucgCGAGUaGAGCCG- -5'
8679 5' -54.4 NC_002229.2 + 126898 0.67 0.927001
Target:  5'- cGCCauAUCCGAuugGCUCAcCUCGGCg -3'
miRNA:   3'- -UGGgcUAGGUUucgCGAGUaGAGCCG- -5'
8679 5' -54.4 NC_002229.2 + 18656 0.68 0.915877
Target:  5'- aACCCGggUC-AAGCGCaCggCUUGGCg -3'
miRNA:   3'- -UGGGCuaGGuUUCGCGaGuaGAGCCG- -5'
8679 5' -54.4 NC_002229.2 + 785 0.68 0.909956
Target:  5'- aGCCCGGUCCcugcgcagguGGUGC-CcgCUgGGCg -3'
miRNA:   3'- -UGGGCUAGGuu--------UCGCGaGuaGAgCCG- -5'
8679 5' -54.4 NC_002229.2 + 137927 0.68 0.909956
Target:  5'- aGCCCGGUCCcugcgcagguGGUGC-CcgCUgGGCg -3'
miRNA:   3'- -UGGGCUAGGuu--------UCGCGaGuaGAgCCG- -5'
8679 5' -54.4 NC_002229.2 + 140213 0.68 0.890785
Target:  5'- cCCCGAgauaacaguucUCCuugGAGCGUUCGcggcucUCUUGGCu -3'
miRNA:   3'- uGGGCU-----------AGGu--UUCGCGAGU------AGAGCCG- -5'
8679 5' -54.4 NC_002229.2 + 172401 0.68 0.890785
Target:  5'- cCCCGAgauaacaguucUCCuugGAGCGUUCGcggcucUCUUGGCu -3'
miRNA:   3'- uGGGCU-----------AGGu--UUCGCGAGU------AGAGCCG- -5'
8679 5' -54.4 NC_002229.2 + 130608 0.75 0.546136
Target:  5'- cCCCGcuacacGUCC---GCGUUCGUCUCGGCg -3'
miRNA:   3'- uGGGC------UAGGuuuCGCGAGUAGAGCCG- -5'
8679 5' -54.4 NC_002229.2 + 8103 0.75 0.546136
Target:  5'- cCCCGcuacacGUCC---GCGUUCGUCUCGGCg -3'
miRNA:   3'- uGGGC------UAGGuuuCGCGAGUAGAGCCG- -5'
8679 5' -54.4 NC_002229.2 + 166736 0.79 0.340468
Target:  5'- -aCCGGUCCAGggauuGGUGCUucCAUCUCGGCc -3'
miRNA:   3'- ugGGCUAGGUU-----UCGCGA--GUAGAGCCG- -5'
8679 5' -54.4 NC_002229.2 + 145878 0.79 0.340468
Target:  5'- -aCCGGUCCAGggauuGGUGCUucCAUCUCGGCc -3'
miRNA:   3'- ugGGCUAGGUU-----UCGCGA--GUAGAGCCG- -5'
8679 5' -54.4 NC_002229.2 + 125977 1.12 0.002838
Target:  5'- gACCCGAUCCAAAGCGCUCAUCUCGGCg -3'
miRNA:   3'- -UGGGCUAGGUUUCGCGAGUAGAGCCG- -5'
8679 5' -54.4 NC_002229.2 + 12735 1.12 0.002838
Target:  5'- gACCCGAUCCAAAGCGCUCAUCUCGGCg -3'
miRNA:   3'- -UGGGCUAGGUUUCGCGAGUAGAGCCG- -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.