miRNA display CGI


Results 1 - 12 of 12 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
26009 3' -49.1 NC_005340.1 + 26079 0.66 0.860399
Target:  5'- cGCAGCGCGgcGAgcuuccGGGAUUGgu--GCg -3'
miRNA:   3'- aUGUCGCGCauUU------CCCUAAUagguCG- -5'
26009 3' -49.1 NC_005340.1 + 26703 0.66 0.851184
Target:  5'- aGCGGCGUugGGGGGGAUcuucUUCAGUg -3'
miRNA:   3'- aUGUCGCGcaUUUCCCUAau--AGGUCG- -5'
26009 3' -49.1 NC_005340.1 + 1271 0.66 0.841689
Target:  5'- uUGCAGCGgGUGAGGug-----CCAGCa -3'
miRNA:   3'- -AUGUCGCgCAUUUCccuaauaGGUCG- -5'
26009 3' -49.1 NC_005340.1 + 29941 0.67 0.811646
Target:  5'- gGCGGUGCGUAAugugccGGuuugcugauAUUAUCCAGUu -3'
miRNA:   3'- aUGUCGCGCAUUuc----CC---------UAAUAGGUCG- -5'
26009 3' -49.1 NC_005340.1 + 15359 0.67 0.809566
Target:  5'- -uCAGCGCGU--GGGGAUguaagacuauuUCCgaAGCg -3'
miRNA:   3'- auGUCGCGCAuuUCCCUAau---------AGG--UCG- -5'
26009 3' -49.1 NC_005340.1 + 12795 0.67 0.801156
Target:  5'- cACAaCGCGUAAAGGcAUUGUgcaacUCAGCa -3'
miRNA:   3'- aUGUcGCGCAUUUCCcUAAUA-----GGUCG- -5'
26009 3' -49.1 NC_005340.1 + 27215 0.68 0.768451
Target:  5'- -uCGGCGCGUGAcauguccGGGAgucgguuaUAUCUGGCa -3'
miRNA:   3'- auGUCGCGCAUUu------CCCUa-------AUAGGUCG- -5'
26009 3' -49.1 NC_005340.1 + 15590 0.68 0.756053
Target:  5'- -uCAGCGCcucaGUGuucuGGGAUUugcaggcAUCCGGCa -3'
miRNA:   3'- auGUCGCG----CAUuu--CCCUAA-------UAGGUCG- -5'
26009 3' -49.1 NC_005340.1 + 26156 0.71 0.591254
Target:  5'- aGCGGCGCGUAuuuGGGAUaaagcccaucgaggcAUCgCGGCg -3'
miRNA:   3'- aUGUCGCGCAUuu-CCCUAa--------------UAG-GUCG- -5'
26009 3' -49.1 NC_005340.1 + 10362 0.76 0.328705
Target:  5'- gACAGCGCGUuaucuGGGGAUgaaccgcaauaCCGGCa -3'
miRNA:   3'- aUGUCGCGCAuu---UCCCUAaua--------GGUCG- -5'
26009 3' -49.1 NC_005340.1 + 6250 0.79 0.205807
Target:  5'- uUGCAGCGCGU--AGGGcgcaauuUCCAGCg -3'
miRNA:   3'- -AUGUCGCGCAuuUCCCuaau---AGGUCG- -5'
26009 3' -49.1 NC_005340.1 + 12926 1.11 0.001337
Target:  5'- cUACAGCGCGUAAAGGGAUUAUCCAGCu -3'
miRNA:   3'- -AUGUCGCGCAUUUCCCUAAUAGGUCG- -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.