miRNA display CGI


Results 1 - 20 of 49 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
8688 3' -42.8 NC_002229.2 + 29581 0.67 1
Target:  5'- aGGCAGuuuGGGCGUCAAucAAGUaacaucGCGCa -3'
miRNA:   3'- -UUGUUuu-UCCGCGGUUu-UUUAa-----CGCG- -5'
8688 3' -42.8 NC_002229.2 + 134759 0.66 1
Target:  5'- aAGCAGucuGGgGCCGAGAGAUguUGCc- -3'
miRNA:   3'- -UUGUUuuuCCgCGGUUUUUUA--ACGcg -5'
8688 3' -42.8 NC_002229.2 + 169557 0.67 1
Target:  5'- -cCAGAGAGGaugauugguccauaGCCGAGGGAUgggcgGUGCu -3'
miRNA:   3'- uuGUUUUUCCg-------------CGGUUUUUUAa----CGCG- -5'
8688 3' -42.8 NC_002229.2 + 130380 0.67 1
Target:  5'- -uCGGAAu-GCGCCAGAccuucuUUGCGCg -3'
miRNA:   3'- uuGUUUUucCGCGGUUUuuu---AACGCG- -5'
8688 3' -42.8 NC_002229.2 + 173693 0.67 1
Target:  5'- cGCGAGAGGGUuagagGCCG------UGCGCa -3'
miRNA:   3'- uUGUUUUUCCG-----CGGUuuuuuaACGCG- -5'
8688 3' -42.8 NC_002229.2 + 139690 0.67 1
Target:  5'- cGCAAuuuuuuGGCGCCuuuuuGUUGgCGCg -3'
miRNA:   3'- uUGUUuuu---CCGCGGuuuuuUAAC-GCG- -5'
8688 3' -42.8 NC_002229.2 + 162414 0.66 1
Target:  5'- aGACAAAcc-GCGaCCAAAAAA--GCGCg -3'
miRNA:   3'- -UUGUUUuucCGC-GGUUUUUUaaCGCG- -5'
8688 3' -42.8 NC_002229.2 + 147510 0.67 1
Target:  5'- --gGAGAGGGUGCCcucaag--GCGCu -3'
miRNA:   3'- uugUUUUUCCGCGGuuuuuuaaCGCG- -5'
8688 3' -42.8 NC_002229.2 + 172924 0.67 1
Target:  5'- cGCAAuuuuuuGGCGCCuuuuuGUUGgCGCg -3'
miRNA:   3'- uUGUUuuu---CCGCGGuuuuuUAAC-GCG- -5'
8688 3' -42.8 NC_002229.2 + 138921 0.67 1
Target:  5'- cGCGAGAGGGUuagagGCCG------UGCGCa -3'
miRNA:   3'- uUGUUUUUCCG-----CGGUuuuuuaACGCG- -5'
8688 3' -42.8 NC_002229.2 + 95549 0.66 1
Target:  5'- aGGCGAu--GGCGgCGAAAGAU-GCGg -3'
miRNA:   3'- -UUGUUuuuCCGCgGUUUUUUAaCGCg -5'
8688 3' -42.8 NC_002229.2 + 8331 0.67 1
Target:  5'- -uCGGAAu-GCGCCAGAccuucuUUGCGCg -3'
miRNA:   3'- uuGUUUUucCGCGGUUUuuu---AACGCG- -5'
8688 3' -42.8 NC_002229.2 + 143057 0.67 1
Target:  5'- -cCAGAGAGGaugauugguccauaGCCGAGGGAUgggcgGUGCu -3'
miRNA:   3'- uuGUUUUUCCg-------------CGGUUUUUUAa----CGCG- -5'
8688 3' -42.8 NC_002229.2 + 171591 0.66 1
Target:  5'- -------cGGCagaGCCAAAAGAacaUUGCGCu -3'
miRNA:   3'- uuguuuuuCCG---CGGUUUUUU---AACGCG- -5'
8688 3' -42.8 NC_002229.2 + 52736 0.66 1
Target:  5'- cGAC-GGGAGGUGCCGAuuucauaGAAAUUGUa- -3'
miRNA:   3'- -UUGuUUUUCCGCGGUU-------UUUUAACGcg -5'
8688 3' -42.8 NC_002229.2 + 148071 0.66 1
Target:  5'- cAGCGGGGAcGGgGCCGcuGGAAAgcgaGCGCu -3'
miRNA:   3'- -UUGUUUUU-CCgCGGU--UUUUUaa--CGCG- -5'
8688 3' -42.8 NC_002229.2 + 19307 0.66 1
Target:  5'- uGCGAGAAGG-GCCcucagcacAAGGUUGCGa -3'
miRNA:   3'- uUGUUUUUCCgCGGuu------UUUUAACGCg -5'
8688 3' -42.8 NC_002229.2 + 167585 0.66 1
Target:  5'- cGCAAAcAGGCGUgGAGGAGga-CGCc -3'
miRNA:   3'- uUGUUUuUCCGCGgUUUUUUaacGCG- -5'
8688 3' -42.8 NC_002229.2 + 3953 0.66 1
Target:  5'- aAGCAGucuGGgGCCGAGAGAUguUGCc- -3'
miRNA:   3'- -UUGUUuuuCCgCGGUUUUUUA--ACGcg -5'
8688 3' -42.8 NC_002229.2 + 150200 0.66 1
Target:  5'- aGACAAAcc-GCGaCCAAAAAA--GCGCg -3'
miRNA:   3'- -UUGUUUuucCGC-GGUUUUUUaaCGCG- -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.