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 + 36698 0.66 0.893073
Target:  5'- --gCGUCcacgGAGUucAGGGGCUUGUGGAa- -3'
miRNA:   3'- caaGCAG----CUCG--UCCUCGAGCACCUcg -5'
25533 3' -55.4 NC_005337.1 + 39607 0.68 0.823689
Target:  5'- cUUCGgCGGGCGGGAGCggaUCGUcucGcGGGCc -3'
miRNA:   3'- cAAGCaGCUCGUCCUCG---AGCA---C-CUCG- -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 + 98975 0.67 0.864347
Target:  5'- cUUCGacuccgCGAGCGGG-GCcgagGUGGAGCc -3'
miRNA:   3'- cAAGCa-----GCUCGUCCuCGag--CACCUCG- -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 + 63355 0.67 0.87916
Target:  5'- ---aGUCGAGgAGGAGCUgcagaaccaggaCGUGGcuuccggaGGCg -3'
miRNA:   3'- caagCAGCUCgUCCUCGA------------GCACC--------UCG- -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 + 80241 0.66 0.888996
Target:  5'- ---gGUCGgcguacaucuccagcGGCAGGAGCUCGaucuUGG-GCu -3'
miRNA:   3'- caagCAGC---------------UCGUCCUCGAGC----ACCuCG- -5'
25533 3' -55.4 NC_005337.1 + 892 0.68 0.823689
Target:  5'- --gCGcCGAGCAGGAGCccgagcgCGacGAGCg -3'
miRNA:   3'- caaGCaGCUCGUCCUCGa------GCacCUCG- -5'
25533 3' -55.4 NC_005337.1 + 2333 0.68 0.823689
Target:  5'- ---aGUUGAGCAGGuacAGCUCc-GGGGCc -3'
miRNA:   3'- caagCAGCUCGUCC---UCGAGcaCCUCG- -5'
25533 3' -55.4 NC_005337.1 + 131072 0.69 0.759554
Target:  5'- aGggCGaCGAGCGcGAGUUCGUGGucuGCg -3'
miRNA:   3'- -CaaGCaGCUCGUcCUCGAGCACCu--CG- -5'
25533 3' -55.4 NC_005337.1 + 98033 0.71 0.638276
Target:  5'- --cCGaCGGGCuGGGGUUCGUccgGGAGCg -3'
miRNA:   3'- caaGCaGCUCGuCCUCGAGCA---CCUCG- -5'
25533 3' -55.4 NC_005337.1 + 125498 0.71 0.679541
Target:  5'- -cUCGgcaUCGAGguGGAGgUCGUGcGGCu -3'
miRNA:   3'- caAGC---AGCUCguCCUCgAGCACcUCG- -5'
25533 3' -55.4 NC_005337.1 + 122662 0.7 0.68978
Target:  5'- -cUCGUCGAGCAGGuGGCcCGccgGGuGUg -3'
miRNA:   3'- caAGCAGCUCGUCC-UCGaGCa--CCuCG- -5'
25533 3' -55.4 NC_005337.1 + 133444 0.7 0.714136
Target:  5'- cUUCGUCGAGCccGGGcccgcgcgcgcggacGGCUCcGcGGAGCu -3'
miRNA:   3'- cAAGCAGCUCG--UCC---------------UCGAG-CaCCUCG- -5'
25533 3' -55.4 NC_005337.1 + 47530 0.7 0.730152
Target:  5'- -aUCGUgccgGAGCGGGAcCUCGUGG-GCc -3'
miRNA:   3'- caAGCAg---CUCGUCCUcGAGCACCuCG- -5'
25533 3' -55.4 NC_005337.1 + 93661 0.7 0.730152
Target:  5'- cUUCGUCGAGCuccuGGAGgUCcguuUGGuGCg -3'
miRNA:   3'- cAAGCAGCUCGu---CCUCgAGc---ACCuCG- -5'
25533 3' -55.4 NC_005337.1 + 72369 0.7 0.740052
Target:  5'- --aCGUCGAGaucGGGGacaUCGUGGuGCa -3'
miRNA:   3'- caaGCAGCUCgu-CCUCg--AGCACCuCG- -5'
25533 3' -55.4 NC_005337.1 + 123620 0.69 0.749856
Target:  5'- -cUCG-CGGGUgcuGAcGCUCGUGGAGCu -3'
miRNA:   3'- caAGCaGCUCGuc-CU-CGAGCACCUCG- -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.