miRNA display CGI


Results 1 - 20 of 61 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
28795 3' -56.4 NC_006146.1 + 77312 0.73 0.562356
Target:  5'- aGCCCgGCGGGUCGCGCaugccCAGGcugauGGUGa -3'
miRNA:   3'- gCGGGaCGUCCAGCGCG-----GUUU-----UCACc -5'
28795 3' -56.4 NC_006146.1 + 127577 0.68 0.815147
Target:  5'- gGCCCUGggcggccgAGGcCGCGCCGGccGGGUGa -3'
miRNA:   3'- gCGGGACg-------UCCaGCGCGGUU--UUCACc -5'
28795 3' -56.4 NC_006146.1 + 8521 0.69 0.797684
Target:  5'- gGuCCCgggcGCGGG-CGCGCCAAGGGg-- -3'
miRNA:   3'- gC-GGGa---CGUCCaGCGCGGUUUUCacc -5'
28795 3' -56.4 NC_006146.1 + 76886 0.69 0.788729
Target:  5'- uGcCCCUGcCGGGcCGCacgugggaGCCAGAGGUGa -3'
miRNA:   3'- gC-GGGAC-GUCCaGCG--------CGGUUUUCACc -5'
28795 3' -56.4 NC_006146.1 + 75824 0.69 0.788729
Target:  5'- gGCCCUGCGGGacaUGCaCCAGGGGagcucUGGa -3'
miRNA:   3'- gCGGGACGUCCa--GCGcGGUUUUC-----ACC- -5'
28795 3' -56.4 NC_006146.1 + 133417 0.69 0.787826
Target:  5'- uGUCCUGUguuuguuGGGUa--GCCAGGGGUGGa -3'
miRNA:   3'- gCGGGACG-------UCCAgcgCGGUUUUCACC- -5'
28795 3' -56.4 NC_006146.1 + 26735 0.71 0.693064
Target:  5'- aGCCggGCAGGUUggGgGUUAAGAGUGGg -3'
miRNA:   3'- gCGGgaCGUCCAG--CgCGGUUUUCACC- -5'
28795 3' -56.4 NC_006146.1 + 20730 0.71 0.67205
Target:  5'- gCGgCCUGCgAGGaccCGCGCCAAAAGaccauccUGGa -3'
miRNA:   3'- -GCgGGACG-UCCa--GCGCGGUUUUC-------ACC- -5'
28795 3' -56.4 NC_006146.1 + 11358 0.72 0.592352
Target:  5'- gGCCUggcGCAGGcgcugCGCGUCAGgcAGGUGGg -3'
miRNA:   3'- gCGGGa--CGUCCa----GCGCGGUU--UUCACC- -5'
28795 3' -56.4 NC_006146.1 + 23339 0.68 0.838492
Target:  5'- gGCCCUGCAGaccgaccucaGCGCCuggcgcGUGGa -3'
miRNA:   3'- gCGGGACGUCcag-------CGCGGuuuu--CACC- -5'
28795 3' -56.4 NC_006146.1 + 42353 0.67 0.855837
Target:  5'- uGCCgCUcCAGGaucuccCGCGCCGccAGGGUGGg -3'
miRNA:   3'- gCGG-GAcGUCCa-----GCGCGGU--UUUCACC- -5'
28795 3' -56.4 NC_006146.1 + 101668 0.67 0.856603
Target:  5'- gGCCCUGgGGGgaaacgggcuacgggCgGCGCUAGAGGgggGGa -3'
miRNA:   3'- gCGGGACgUCCa--------------G-CGCGGUUUUCa--CC- -5'
28795 3' -56.4 NC_006146.1 + 16700 0.66 0.921862
Target:  5'- aGCCagacGCAGGUCcacgaCGCCccGGGGUGGa -3'
miRNA:   3'- gCGGga--CGUCCAGc----GCGGu-UUUCACC- -5'
28795 3' -56.4 NC_006146.1 + 71754 0.66 0.916272
Target:  5'- cCGCcaCCUGCcGGUCGCuggaGCCccu-GUGGa -3'
miRNA:   3'- -GCG--GGACGuCCAGCG----CGGuuuuCACC- -5'
28795 3' -56.4 NC_006146.1 + 128920 0.66 0.904399
Target:  5'- aGCUgUGCGGGUCGagGCCGGGAa--- -3'
miRNA:   3'- gCGGgACGUCCAGCg-CGGUUUUcacc -5'
28795 3' -56.4 NC_006146.1 + 52430 0.67 0.891612
Target:  5'- gGCCuCUGCccuccaguuugGGGUCGaCGCCcugGAGAG-GGg -3'
miRNA:   3'- gCGG-GACG-----------UCCAGC-GCGG---UUUUCaCC- -5'
28795 3' -56.4 NC_006146.1 + 134719 0.67 0.882823
Target:  5'- aCGUCCUGCAGGaugcaUGCaccaggccagccagGCCAAcgcucgucccaGAGUGGg -3'
miRNA:   3'- -GCGGGACGUCCa----GCG--------------CGGUU-----------UUCACC- -5'
28795 3' -56.4 NC_006146.1 + 27333 0.67 0.877938
Target:  5'- gGCCCUccaaaaacaGCGGGUgGCGCgGcAAGgccgGGg -3'
miRNA:   3'- gCGGGA---------CGUCCAgCGCGgUuUUCa---CC- -5'
28795 3' -56.4 NC_006146.1 + 102832 0.67 0.870778
Target:  5'- gGCUCUGCGcuuGcUCGCGCCGcucGUGGa -3'
miRNA:   3'- gCGGGACGU---CcAGCGCGGUuuuCACC- -5'
28795 3' -56.4 NC_006146.1 + 40444 0.67 0.870778
Target:  5'- gGCCCcguagGCGGGU-GCGgCAAuggccuGGUGGg -3'
miRNA:   3'- gCGGGa----CGUCCAgCGCgGUUu-----UCACC- -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.