miRNA display CGI


Results 1 - 20 of 22 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
23031 3' -54.9 NC_005178.1 + 29643 0.66 0.60368
Target:  5'- --uUCuaCGUCCCaacGCUCAAcuCGGGCGc -3'
miRNA:   3'- auuAGcgGCAGGG---CGAGUUu-GUCCGC- -5'
23031 3' -54.9 NC_005178.1 + 36527 0.66 0.592309
Target:  5'- ---cCGCCGUCCCGC-CGuuuguGGUGu -3'
miRNA:   3'- auuaGCGGCAGGGCGaGUuugu-CCGC- -5'
23031 3' -54.9 NC_005178.1 + 1535 0.66 0.580973
Target:  5'- aGGUCGCCG-CCCGCaugUCGcGCcuguccGGCGa -3'
miRNA:   3'- aUUAGCGGCaGGGCG---AGUuUGu-----CCGC- -5'
23031 3' -54.9 NC_005178.1 + 13611 0.67 0.569683
Target:  5'- ---aCGCUGaCCCGC-CGcAUAGGCGa -3'
miRNA:   3'- auuaGCGGCaGGGCGaGUuUGUCCGC- -5'
23031 3' -54.9 NC_005178.1 + 20174 0.67 0.547276
Target:  5'- --cUCGCCGUCuUCGaUCAGcuucgcggcGCGGGCGg -3'
miRNA:   3'- auuAGCGGCAG-GGCgAGUU---------UGUCCGC- -5'
23031 3' -54.9 NC_005178.1 + 24479 0.67 0.547276
Target:  5'- aGGUCGCgacCGaCCCGCUCcagGAGCuGGCa -3'
miRNA:   3'- aUUAGCG---GCaGGGCGAG---UUUGuCCGc -5'
23031 3' -54.9 NC_005178.1 + 31083 0.68 0.482011
Target:  5'- ---aUGCCGucugcaucuUCCCGCUCGAu--GGCGg -3'
miRNA:   3'- auuaGCGGC---------AGGGCGAGUUuguCCGC- -5'
23031 3' -54.9 NC_005178.1 + 36477 0.68 0.482011
Target:  5'- gUAAUCGUCGcCCCGUUCc-AC-GGCGa -3'
miRNA:   3'- -AUUAGCGGCaGGGCGAGuuUGuCCGC- -5'
23031 3' -54.9 NC_005178.1 + 2810 0.68 0.471491
Target:  5'- cUGGUCGCCGaugCCCGC-CAGGgGGuGCu -3'
miRNA:   3'- -AUUAGCGGCa--GGGCGaGUUUgUC-CGc -5'
23031 3' -54.9 NC_005178.1 + 5614 0.68 0.461089
Target:  5'- gGAUCGCCucgacGUagCCGCccaggcgCAGGCAGGCGa -3'
miRNA:   3'- aUUAGCGG-----CAg-GGCGa------GUUUGUCCGC- -5'
23031 3' -54.9 NC_005178.1 + 2587 0.69 0.450808
Target:  5'- aUGGUCGCC-UCCaguaGuCUCAuGGCGGGCGa -3'
miRNA:   3'- -AUUAGCGGcAGGg---C-GAGU-UUGUCCGC- -5'
23031 3' -54.9 NC_005178.1 + 13949 0.69 0.450808
Target:  5'- ---gCGCUGgCCCGUUCAcgcCGGGCGg -3'
miRNA:   3'- auuaGCGGCaGGGCGAGUuu-GUCCGC- -5'
23031 3' -54.9 NC_005178.1 + 36921 0.69 0.430634
Target:  5'- -uAUgGCUGUCCCGCUUucuuCGGGgGg -3'
miRNA:   3'- auUAgCGGCAGGGCGAGuuu-GUCCgC- -5'
23031 3' -54.9 NC_005178.1 + 37610 0.69 0.420747
Target:  5'- ----gGCUa-CCCGCUCAGACAGaGCGg -3'
miRNA:   3'- auuagCGGcaGGGCGAGUUUGUC-CGC- -5'
23031 3' -54.9 NC_005178.1 + 7595 0.69 0.410999
Target:  5'- -cGUCuaCGUCCCGCagacccgCGAGCAGGUc -3'
miRNA:   3'- auUAGcgGCAGGGCGa------GUUUGUCCGc -5'
23031 3' -54.9 NC_005178.1 + 4128 0.71 0.338288
Target:  5'- cUGGUCGCCGUggaauuccUCCaGCUC--GCGGGCGa -3'
miRNA:   3'- -AUUAGCGGCA--------GGG-CGAGuuUGUCCGC- -5'
23031 3' -54.9 NC_005178.1 + 4595 0.71 0.321634
Target:  5'- ---gCGgCGUCCgGCUCGAuggGCAGGCc -3'
miRNA:   3'- auuaGCgGCAGGgCGAGUU---UGUCCGc -5'
23031 3' -54.9 NC_005178.1 + 22850 0.71 0.3056
Target:  5'- --cUCGCCGUaCUGCUCGAcCAGGuCGg -3'
miRNA:   3'- auuAGCGGCAgGGCGAGUUuGUCC-GC- -5'
23031 3' -54.9 NC_005178.1 + 29124 0.71 0.3056
Target:  5'- ---aCGCCGUgCCGCcCAu-CAGGCGa -3'
miRNA:   3'- auuaGCGGCAgGGCGaGUuuGUCCGC- -5'
23031 3' -54.9 NC_005178.1 + 25127 0.73 0.261201
Target:  5'- cUGGUCGCgcuggUGUCCUGCUgCGAcgagGCAGGCGa -3'
miRNA:   3'- -AUUAGCG-----GCAGGGCGA-GUU----UGUCCGC- -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.