miRNA display CGI


Results 1 - 20 of 65 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
18940 3' -60.8 NC_004683.1 + 4892 0.66 0.473571
Target:  5'- -gGCGCGAaacuccucguucuccUCGuCCGUGGgcuuguccaGCUCGGCg -3'
miRNA:   3'- agCGCGUU---------------AGC-GGCACCac-------CGGGCCG- -5'
18940 3' -60.8 NC_004683.1 + 21871 0.66 0.473571
Target:  5'- aCGcCGCccGUgGCCGUacccgaccaaccaucGGUGGCCgCGGUc -3'
miRNA:   3'- aGC-GCGu-UAgCGGCA---------------CCACCGG-GCCG- -5'
18940 3' -60.8 NC_004683.1 + 18189 0.66 0.469708
Target:  5'- cUCGuCGCcggacAUCGCCGUagacaucGUcGCCCGGCu -3'
miRNA:   3'- -AGC-GCGu----UAGCGGCAc------CAcCGGGCCG- -5'
18940 3' -60.8 NC_004683.1 + 10139 0.66 0.469708
Target:  5'- aUCGaC-CAGUCGCCGccgcGGccgaacGGCUCGGCg -3'
miRNA:   3'- -AGC-GcGUUAGCGGCa---CCa-----CCGGGCCG- -5'
18940 3' -60.8 NC_004683.1 + 12485 0.66 0.468745
Target:  5'- gCGCGCGGUgGCCagcugcugaGcGGUGGCguugcccUCGGCu -3'
miRNA:   3'- aGCGCGUUAgCGG---------CaCCACCG-------GGCCG- -5'
18940 3' -60.8 NC_004683.1 + 53627 0.66 0.460122
Target:  5'- -gGCGCGAUcaggccCGCCGcGaccUGGCCgCGGCu -3'
miRNA:   3'- agCGCGUUA------GCGGCaCc--ACCGG-GCCG- -5'
18940 3' -60.8 NC_004683.1 + 43167 0.66 0.45064
Target:  5'- -aGCGCGAccucggccUCGCCGUcaGGauUGGCgaagaucgggCCGGCu -3'
miRNA:   3'- agCGCGUU--------AGCGGCA--CC--ACCG----------GGCCG- -5'
18940 3' -60.8 NC_004683.1 + 2748 0.66 0.45064
Target:  5'- gUGCGCGGcgGCCGcGGcGaGCUCGGCg -3'
miRNA:   3'- aGCGCGUUagCGGCaCCaC-CGGGCCG- -5'
18940 3' -60.8 NC_004683.1 + 33666 0.66 0.45064
Target:  5'- -gGCuCAAUCGCC-UGGUGGagaCCgaGGCa -3'
miRNA:   3'- agCGcGUUAGCGGcACCACCg--GG--CCG- -5'
18940 3' -60.8 NC_004683.1 + 12036 0.66 0.441267
Target:  5'- cCGCGCGGggcuacCGCCGgaGGcUGGCCCcccGCc -3'
miRNA:   3'- aGCGCGUUa-----GCGGCa-CC-ACCGGGc--CG- -5'
18940 3' -60.8 NC_004683.1 + 40479 0.66 0.441267
Target:  5'- gCGUGCAcacCGCCGagggGGUGaGCgCCGGa -3'
miRNA:   3'- aGCGCGUua-GCGGCa---CCAC-CG-GGCCg -5'
18940 3' -60.8 NC_004683.1 + 11524 0.66 0.441267
Target:  5'- -aGCGUucggCGCCGUGcUGGaugcCCUGGCa -3'
miRNA:   3'- agCGCGuua-GCGGCACcACC----GGGCCG- -5'
18940 3' -60.8 NC_004683.1 + 21921 0.67 0.413828
Target:  5'- gUCGgGCAAUC-CCGgcaauccGCCCGGCg -3'
miRNA:   3'- -AGCgCGUUAGcGGCaccac--CGGGCCG- -5'
18940 3' -60.8 NC_004683.1 + 7160 0.67 0.413828
Target:  5'- gUGgGC-GUCGCUGagacgGGUGcGCCCGGg -3'
miRNA:   3'- aGCgCGuUAGCGGCa----CCAC-CGGGCCg -5'
18940 3' -60.8 NC_004683.1 + 26972 0.67 0.404918
Target:  5'- aCGCGUGAgCGCCGggcaGGccGGCCaccuCGGCa -3'
miRNA:   3'- aGCGCGUUaGCGGCa---CCa-CCGG----GCCG- -5'
18940 3' -60.8 NC_004683.1 + 54065 0.67 0.404918
Target:  5'- -aGCGCGAcggCGCCuccgcGGUGaGCuuGGCg -3'
miRNA:   3'- agCGCGUUa--GCGGca---CCAC-CGggCCG- -5'
18940 3' -60.8 NC_004683.1 + 3491 0.67 0.404034
Target:  5'- gCGgGCuacgaGCCGgaaucggUGGUGGCCgCGGUg -3'
miRNA:   3'- aGCgCGuuag-CGGC-------ACCACCGG-GCCG- -5'
18940 3' -60.8 NC_004683.1 + 44101 0.67 0.39613
Target:  5'- --aCGCGAUCGUCGaGGUGa-CCGGCg -3'
miRNA:   3'- agcGCGUUAGCGGCaCCACcgGGCCG- -5'
18940 3' -60.8 NC_004683.1 + 41400 0.67 0.387466
Target:  5'- gUCGaCGCcGUCaGCCuGggcgGGUGGCgCGGUg -3'
miRNA:   3'- -AGC-GCGuUAG-CGG-Ca---CCACCGgGCCG- -5'
18940 3' -60.8 NC_004683.1 + 12214 0.67 0.370516
Target:  5'- -gGUGCGAUucccacgccCGCCGgggcgGGaGcGCCCGGCg -3'
miRNA:   3'- agCGCGUUA---------GCGGCa----CCaC-CGGGCCG- -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.