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
25533 3' -55.4 NC_005337.1 + 114909 0.66 0.918072
Target:  5'- ----uUCGAGCAGGGGCagugcaugaUCGgGGAGa -3'
miRNA:   3'- caagcAGCUCGUCCUCG---------AGCaCCUCg -5'
25533 3' -55.4 NC_005337.1 + 77625 0.66 0.918072
Target:  5'- -cUCGUaGAGCAGcGAGUgCGUGacguaGAGCg -3'
miRNA:   3'- caAGCAgCUCGUC-CUCGaGCAC-----CUCG- -5'
25533 3' -55.4 NC_005337.1 + 13398 0.66 0.918072
Target:  5'- --cCGUgCGGGC-GGAGCga-UGGAGCu -3'
miRNA:   3'- caaGCA-GCUCGuCCUCGagcACCUCG- -5'
25533 3' -55.4 NC_005337.1 + 124317 0.66 0.918072
Target:  5'- --cCGUCGcggcGCAGGcGCUCaUGGAcGCg -3'
miRNA:   3'- caaGCAGCu---CGUCCuCGAGcACCU-CG- -5'
25533 3' -55.4 NC_005337.1 + 42773 0.66 0.917494
Target:  5'- cGUUCGugugcUCGGGCGGcAGCgugaccuUCGUGGcGGCg -3'
miRNA:   3'- -CAAGC-----AGCUCGUCcUCG-------AGCACC-UCG- -5'
25533 3' -55.4 NC_005337.1 + 88091 0.66 0.906052
Target:  5'- --cCGUgGAcauGguGGAcGC-CGUGGAGCg -3'
miRNA:   3'- caaGCAgCU---CguCCU-CGaGCACCUCG- -5'
25533 3' -55.4 NC_005337.1 + 6875 0.66 0.906052
Target:  5'- -cUCGUagaGGGC-GGcGCUCGcccUGGAGCc -3'
miRNA:   3'- caAGCAg--CUCGuCCuCGAGC---ACCUCG- -5'
25533 3' -55.4 NC_005337.1 + 36698 0.66 0.893073
Target:  5'- --gCGUCcacgGAGUucAGGGGCUUGUGGAa- -3'
miRNA:   3'- caaGCAG----CUCG--UCCUCGAGCACCUcg -5'
25533 3' -55.4 NC_005337.1 + 64374 0.66 0.893073
Target:  5'- --gCG-CGcGCAGGAGCacgUUGUcGGAGCg -3'
miRNA:   3'- caaGCaGCuCGUCCUCG---AGCA-CCUCG- -5'
25533 3' -55.4 NC_005337.1 + 80241 0.66 0.888996
Target:  5'- ---gGUCGgcguacaucuccagcGGCAGGAGCUCGaucuUGG-GCu -3'
miRNA:   3'- caagCAGC---------------UCGUCCUCGAGC----ACCuCG- -5'
25533 3' -55.4 NC_005337.1 + 118079 0.67 0.87916
Target:  5'- -gUUGUaGAGCuccucGGGGCUCuccggcgcgugGUGGAGCa -3'
miRNA:   3'- caAGCAgCUCGu----CCUCGAG-----------CACCUCG- -5'
25533 3' -55.4 NC_005337.1 + 63355 0.67 0.87916
Target:  5'- ---aGUCGAGgAGGAGCUgcagaaccaggaCGUGGcuuccggaGGCg -3'
miRNA:   3'- caagCAGCUCgUCCUCGA------------GCACC--------UCG- -5'
25533 3' -55.4 NC_005337.1 + 24586 0.67 0.87916
Target:  5'- ---aG-CGAGCAGaccaucGAGCUCGUGGccuucGGCg -3'
miRNA:   3'- caagCaGCUCGUC------CUCGAGCACC-----UCG- -5'
25533 3' -55.4 NC_005337.1 + 51501 0.67 0.871863
Target:  5'- --cCGUCGucaaccucacGCcGGuGUUCGUGGAGCc -3'
miRNA:   3'- caaGCAGCu---------CGuCCuCGAGCACCUCG- -5'
25533 3' -55.4 NC_005337.1 + 94215 0.67 0.871863
Target:  5'- cGUUCGgacacuagCGGGCGGuGAGCUCGaugucggucUGGuucaGGCg -3'
miRNA:   3'- -CAAGCa-------GCUCGUC-CUCGAGC---------ACC----UCG- -5'
25533 3' -55.4 NC_005337.1 + 113126 0.67 0.870378
Target:  5'- --gCGUCGAGCAGGAcgcgcugcgguacguGCUguucgcggugcgcugCGUGGcGGCc -3'
miRNA:   3'- caaGCAGCUCGUCCU---------------CGA---------------GCACC-UCG- -5'
25533 3' -55.4 NC_005337.1 + 98975 0.67 0.864347
Target:  5'- cUUCGacuccgCGAGCGGG-GCcgagGUGGAGCc -3'
miRNA:   3'- cAAGCa-----GCUCGUCCuCGag--CACCUCG- -5'
25533 3' -55.4 NC_005337.1 + 127788 0.67 0.856617
Target:  5'- --gCGUgGuGCGGGuGCUgGUGGAcGCc -3'
miRNA:   3'- caaGCAgCuCGUCCuCGAgCACCU-CG- -5'
25533 3' -55.4 NC_005337.1 + 108885 0.67 0.848679
Target:  5'- -gUCGUCGAcggcggcgGCAGcGAGCgCGUG-AGCa -3'
miRNA:   3'- caAGCAGCU--------CGUC-CUCGaGCACcUCG- -5'
25533 3' -55.4 NC_005337.1 + 2388 0.68 0.832208
Target:  5'- --gCGUCGAcgacacgcGCAGGcggaAGCggucgcaCGUGGAGCg -3'
miRNA:   3'- caaGCAGCU--------CGUCC----UCGa------GCACCUCG- -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.