miRNA display CGI


Results 1 - 20 of 70 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
11927 5' -58.2 NC_003278.1 + 29464 0.65 0.441731
Target:  5'- gGCGuuGGCcuucucgaucacgccGCCgcgcaccgccacgucGCCCAGAaCGUAGCa -3'
miRNA:   3'- aCGCuuCCG---------------UGG---------------CGGGUCUaGCGUCG- -5'
11927 5' -58.2 NC_003278.1 + 19799 0.67 0.359704
Target:  5'- aUGCc--GGUGCCGgCCAGcgCgGCAGCg -3'
miRNA:   3'- -ACGcuuCCGUGGCgGGUCuaG-CGUCG- -5'
11927 5' -58.2 NC_003278.1 + 2079 0.67 0.357102
Target:  5'- aUGCGccgcGGCACCGaUcuggagacguucuaCCAGGUgCGCAGCu -3'
miRNA:   3'- -ACGCuu--CCGUGGC-G--------------GGUCUA-GCGUCG- -5'
11927 5' -58.2 NC_003278.1 + 15769 1.12 0.000157
Target:  5'- gUGCGAAGGCACCGCCCAGAUCGCAGCg -3'
miRNA:   3'- -ACGCUUCCGUGGCGGGUCUAGCGUCG- -5'
11927 5' -58.2 NC_003278.1 + 8754 0.66 0.414477
Target:  5'- aUGCGAacgcuggaAGGCACgcaccgCGUCCucGGUgGCGGCg -3'
miRNA:   3'- -ACGCU--------UCCGUG------GCGGGu-CUAgCGUCG- -5'
11927 5' -58.2 NC_003278.1 + 8186 0.66 0.404996
Target:  5'- cUGCGAacAGGUAgCCGaCgCAGGUCgGCAGg -3'
miRNA:   3'- -ACGCU--UCCGU-GGC-GgGUCUAG-CGUCg -5'
11927 5' -58.2 NC_003278.1 + 27674 0.66 0.404996
Target:  5'- gUGCuGggGGCGCUGUUugagCAGGUgCGCGGg -3'
miRNA:   3'- -ACG-CuuCCGUGGCGG----GUCUA-GCGUCg -5'
11927 5' -58.2 NC_003278.1 + 10764 0.66 0.395654
Target:  5'- cGUGAucgccuGGGCGUCGCCCuuGGcgCGCAGa -3'
miRNA:   3'- aCGCU------UCCGUGGCGGG--UCuaGCGUCg -5'
11927 5' -58.2 NC_003278.1 + 28768 0.67 0.386451
Target:  5'- uUGCGGuaguuGGGCugCuucgcagacguaGCCCAGggCGCGcGCc -3'
miRNA:   3'- -ACGCU-----UCCGugG------------CGGGUCuaGCGU-CG- -5'
11927 5' -58.2 NC_003278.1 + 8823 0.67 0.359704
Target:  5'- gUGCGAGcagucaGCGCCGCCgAGG--GCGGCc -3'
miRNA:   3'- -ACGCUUc-----CGUGGCGGgUCUagCGUCG- -5'
11927 5' -58.2 NC_003278.1 + 18083 0.67 0.377391
Target:  5'- aGCGgcGGCACCGggguguaguCgUAGGUgaugCGCAGCu -3'
miRNA:   3'- aCGCuuCCGUGGC---------GgGUCUA----GCGUCG- -5'
11927 5' -58.2 NC_003278.1 + 16773 0.67 0.386451
Target:  5'- aGCGccuGGUACUGCUCAGugcugagcGUCGUGGUa -3'
miRNA:   3'- aCGCuu-CCGUGGCGGGUC--------UAGCGUCG- -5'
11927 5' -58.2 NC_003278.1 + 29882 0.66 0.43384
Target:  5'- -uUGgcGGCGCCGCCgg---CGCGGCu -3'
miRNA:   3'- acGCuuCCGUGGCGGgucuaGCGUCG- -5'
11927 5' -58.2 NC_003278.1 + 28693 0.67 0.376493
Target:  5'- gGCGccGGguucguugucCAgCGCCCAGAUCaguuucgGCAGCu -3'
miRNA:   3'- aCGCuuCC----------GUgGCGGGUCUAG-------CGUCG- -5'
11927 5' -58.2 NC_003278.1 + 19429 0.66 0.427976
Target:  5'- cGCGGugcugaccugcuccaGGGCGCCGCgCUGGGU-GCGGa -3'
miRNA:   3'- aCGCU---------------UCCGUGGCG-GGUCUAgCGUCg -5'
11927 5' -58.2 NC_003278.1 + 19105 0.66 0.395654
Target:  5'- cGCGAucagggAGGCugccuUCGCCCGcuUCuGCAGCa -3'
miRNA:   3'- aCGCU------UCCGu----GGCGGGUcuAG-CGUCG- -5'
11927 5' -58.2 NC_003278.1 + 11950 0.67 0.359704
Target:  5'- cGCGGucGGCGCCGgCC----CGCGGCg -3'
miRNA:   3'- aCGCUu-CCGUGGCgGGucuaGCGUCG- -5'
11927 5' -58.2 NC_003278.1 + 5967 0.67 0.359704
Target:  5'- cGCGGccgAGGauCACCaccagGCCCGGGUCaCGGCg -3'
miRNA:   3'- aCGCU---UCC--GUGG-----CGGGUCUAGcGUCG- -5'
11927 5' -58.2 NC_003278.1 + 21745 0.66 0.424093
Target:  5'- gGUGAuGGC-CUGCgCCGGggCGCuGGCg -3'
miRNA:   3'- aCGCUuCCGuGGCG-GGUCuaGCG-UCG- -5'
11927 5' -58.2 NC_003278.1 + 22356 0.66 0.404996
Target:  5'- gGCGGuaccgAGGaccgaGCCGagCAGAUCGguGCg -3'
miRNA:   3'- aCGCU-----UCCg----UGGCggGUCUAGCguCG- -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.