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 + 426 0.7 0.253723
Target:  5'- -gGCGCAG--GCgGUGGcUGGCgCGGCg -3'
miRNA:   3'- agCGCGUUagCGgCACC-ACCGgGCCG- -5'
18940 3' -60.8 NC_004683.1 + 946 0.7 0.27307
Target:  5'- gCGCGUGAUcuucaaggcgCGCaccaacaGUGGUGGCCgUGGCu -3'
miRNA:   3'- aGCGCGUUA----------GCGg------CACCACCGG-GCCG- -5'
18940 3' -60.8 NC_004683.1 + 2116 0.69 0.307186
Target:  5'- gUCGUgGCcAUCGCCcugGUGGUGGCgggcguggccgugCUGGCg -3'
miRNA:   3'- -AGCG-CGuUAGCGG---CACCACCG-------------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 + 3491 0.67 0.404034
Target:  5'- gCGgGCuacgaGCCGgaaucggUGGUGGCCgCGGUg -3'
miRNA:   3'- aGCgCGuuag-CGGC-------ACCACCGG-GCCG- -5'
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 + 6364 0.69 0.315279
Target:  5'- aCGUGCcc-CG-CGUGGUGcGcCCCGGCg -3'
miRNA:   3'- aGCGCGuuaGCgGCACCAC-C-GGGCCG- -5'
18940 3' -60.8 NC_004683.1 + 6653 0.68 0.330403
Target:  5'- cUGC-CAucgaCGCCGUGcUGGCCgCGGCg -3'
miRNA:   3'- aGCGcGUua--GCGGCACcACCGG-GCCG- -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 + 8112 0.68 0.346056
Target:  5'- gUCGCGC--UCGaCCGcGGUGcGCaucaCCGGCu -3'
miRNA:   3'- -AGCGCGuuAGC-GGCaCCAC-CG----GGCCG- -5'
18940 3' -60.8 NC_004683.1 + 8153 0.68 0.330403
Target:  5'- aCGCGCucggCGCCGaGGccgcgaaGGCCgCGGCc -3'
miRNA:   3'- aGCGCGuua-GCGGCaCCa------CCGG-GCCG- -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 + 11524 0.66 0.441267
Target:  5'- -aGCGUucggCGCCGUGcUGGaugcCCUGGCa -3'
miRNA:   3'- agCGCGuua-GCGGCACcACC----GGGCCG- -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 + 12214 0.67 0.370516
Target:  5'- -gGUGCGAUucccacgccCGCCGgggcgGGaGcGCCCGGCg -3'
miRNA:   3'- agCGCGUUA---------GCGGCa----CCaC-CGGGCCG- -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 + 12616 0.69 0.293583
Target:  5'- cUCGUGCGauucGUCGCCagccUGGCCgCGGCg -3'
miRNA:   3'- -AGCGCGU----UAGCGGcaccACCGG-GCCG- -5'
18940 3' -60.8 NC_004683.1 + 12738 0.71 0.207618
Target:  5'- cCGCGCuGAUCGCCGacagcgGGCCCaGCa -3'
miRNA:   3'- aGCGCG-UUAGCGGCacca--CCGGGcCG- -5'
18940 3' -60.8 NC_004683.1 + 13000 0.72 0.182622
Target:  5'- -aGCGCGGcuuccUGCCGggcgccGGUGGcCCCGGCg -3'
miRNA:   3'- agCGCGUUa----GCGGCa-----CCACC-GGGCCG- -5'
18940 3' -60.8 NC_004683.1 + 13115 0.68 0.333492
Target:  5'- -gGCGUugaaucccacccggaAGUCGCCG-GGgccaccgGcGCCCGGCa -3'
miRNA:   3'- agCGCG---------------UUAGCGGCaCCa------C-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.