miRNA display CGI


Results 1 - 20 of 90 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
11989 3' -58.3 NC_003278.1 + 16 0.67 0.387813
Target:  5'- aCGACUGCgCGcGC-CGGCGAaugaGCCGAUGc -3'
miRNA:   3'- -GCUGGCG-GU-CGaGCUGCUg---UGGCUGC- -5'
11989 3' -58.3 NC_003278.1 + 2221 0.69 0.312954
Target:  5'- cCGACUGCagauaaacGCUCGACccCACCGACu -3'
miRNA:   3'- -GCUGGCGgu------CGAGCUGcuGUGGCUGc -5'
11989 3' -58.3 NC_003278.1 + 2432 0.71 0.230932
Target:  5'- uGGCUGCUGGCggCGGUGGCugCGACGu -3'
miRNA:   3'- gCUGGCGGUCGa-GCUGCUGugGCUGC- -5'
11989 3' -58.3 NC_003278.1 + 2625 0.71 0.224985
Target:  5'- -uACCGCCGGCcgcaaCGACaACACCGGCc -3'
miRNA:   3'- gcUGGCGGUCGa----GCUGcUGUGGCUGc -5'
11989 3' -58.3 NC_003278.1 + 2721 0.72 0.202484
Target:  5'- aCGGCCGCC---UCGAauuCGACGCCGGCu -3'
miRNA:   3'- -GCUGGCGGucgAGCU---GCUGUGGCUGc -5'
11989 3' -58.3 NC_003278.1 + 2786 0.66 0.49384
Target:  5'- gCGACgccagagcccaUGCCGGUggUGuCGACGCCGAUGu -3'
miRNA:   3'- -GCUG-----------GCGGUCGa-GCuGCUGUGGCUGC- -5'
11989 3' -58.3 NC_003278.1 + 3171 0.67 0.424657
Target:  5'- uGAUgUGCCAGUUCGuCGACGaCGGCGc -3'
miRNA:   3'- gCUG-GCGGUCGAGCuGCUGUgGCUGC- -5'
11989 3' -58.3 NC_003278.1 + 3421 0.67 0.424657
Target:  5'- uCGACgC-CCAGUUCGAUGGCGCaugaGGCc -3'
miRNA:   3'- -GCUG-GcGGUCGAGCUGCUGUGg---CUGc -5'
11989 3' -58.3 NC_003278.1 + 4532 0.66 0.49384
Target:  5'- gGGCCugGCCGGCUgGugaguuCGGCGCCuauGGCGa -3'
miRNA:   3'- gCUGG--CGGUCGAgCu-----GCUGUGG---CUGC- -5'
11989 3' -58.3 NC_003278.1 + 4703 0.71 0.219168
Target:  5'- uCGAUC-CCaAGUUCGcCGACACCGGCa -3'
miRNA:   3'- -GCUGGcGG-UCGAGCuGCUGUGGCUGc -5'
11989 3' -58.3 NC_003278.1 + 5056 0.67 0.43419
Target:  5'- gCGGCUGU--GCUCGGCGAuCGCuuCGACGg -3'
miRNA:   3'- -GCUGGCGguCGAGCUGCU-GUG--GCUGC- -5'
11989 3' -58.3 NC_003278.1 + 5471 0.67 0.405972
Target:  5'- cCGAucuucUCGCCcugcAGCUCGuCGACGCCGuagACGu -3'
miRNA:   3'- -GCU-----GGCGG----UCGAGCuGCUGUGGC---UGC- -5'
11989 3' -58.3 NC_003278.1 + 5649 0.69 0.320705
Target:  5'- uCGACCGCCugaugaucGGCUUcaACGGCACCaGCGc -3'
miRNA:   3'- -GCUGGCGG--------UCGAGc-UGCUGUGGcUGC- -5'
11989 3' -58.3 NC_003278.1 + 5793 0.71 0.219168
Target:  5'- aGACCaCCGGCaaggugguagUCGgcaACGGCGCCGACGc -3'
miRNA:   3'- gCUGGcGGUCG----------AGC---UGCUGUGGCUGC- -5'
11989 3' -58.3 NC_003278.1 + 5925 0.69 0.290558
Target:  5'- uCGGCCGCgAGCUgGuccACGACAaguacuucCCGAUGg -3'
miRNA:   3'- -GCUGGCGgUCGAgC---UGCUGU--------GGCUGC- -5'
11989 3' -58.3 NC_003278.1 + 6250 0.67 0.405972
Target:  5'- aGGCCGUagucCUCGACGACGuaGGCGu -3'
miRNA:   3'- gCUGGCGguc-GAGCUGCUGUggCUGC- -5'
11989 3' -58.3 NC_003278.1 + 6521 0.66 0.483627
Target:  5'- -cACCGUCAuGCUCuggcgcauCGAUGCCGGCGa -3'
miRNA:   3'- gcUGGCGGU-CGAGcu------GCUGUGGCUGC- -5'
11989 3' -58.3 NC_003278.1 + 6603 0.7 0.276338
Target:  5'- aGGgCGCCGGCguaaUCGcCGGCAUCGAUGc -3'
miRNA:   3'- gCUgGCGGUCG----AGCuGCUGUGGCUGC- -5'
11989 3' -58.3 NC_003278.1 + 6623 0.66 0.483627
Target:  5'- gCGuACCGCCGGCU--GCGucauCGCCGAa- -3'
miRNA:   3'- -GC-UGGCGGUCGAgcUGCu---GUGGCUgc -5'
11989 3' -58.3 NC_003278.1 + 6701 0.66 0.492814
Target:  5'- gCGGCC-UCGGCgaucucuUCGGCGAUgacgcaGCCGGCGg -3'
miRNA:   3'- -GCUGGcGGUCG-------AGCUGCUG------UGGCUGC- -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.