miRNA display CGI


Results 1 - 20 of 26 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
21238 5' -57.9 NC_004778.3 + 64366 0.66 0.780861
Target:  5'- uUUGCgGGCagcgCAACUuaacaucGCCCGCGUCGUu -3'
miRNA:   3'- -AAUGaCCGg---GUUGAc------CGGGCGUAGCG- -5'
21238 5' -57.9 NC_004778.3 + 32162 0.66 0.761849
Target:  5'- -aACUGGCCCAccuACUGcaaaCCCGaGUUGUg -3'
miRNA:   3'- aaUGACCGGGU---UGACc---GGGCgUAGCG- -5'
21238 5' -57.9 NC_004778.3 + 23407 0.66 0.752161
Target:  5'- ---aUGGCCCGACaaGGCgCCGUuugcGUUGCu -3'
miRNA:   3'- aaugACCGGGUUGa-CCG-GGCG----UAGCG- -5'
21238 5' -57.9 NC_004778.3 + 48997 0.66 0.752161
Target:  5'- -aACUGGCCCGACcGGUaCgGCAcCGa -3'
miRNA:   3'- aaUGACCGGGUUGaCCG-GgCGUaGCg -5'
21238 5' -57.9 NC_004778.3 + 28774 0.66 0.742364
Target:  5'- -aGCUucGGCgCCAAUUGacGCCCcuuuuaGCAUCGCa -3'
miRNA:   3'- aaUGA--CCG-GGUUGAC--CGGG------CGUAGCG- -5'
21238 5' -57.9 NC_004778.3 + 32277 0.66 0.742364
Target:  5'- -cGCUGG-CCGGC-GGCgCCGUGUCGg -3'
miRNA:   3'- aaUGACCgGGUUGaCCG-GGCGUAGCg -5'
21238 5' -57.9 NC_004778.3 + 111045 0.66 0.742364
Target:  5'- ---gUGGgCCAggcGCUGGCCaGCAguUCGCu -3'
miRNA:   3'- aaugACCgGGU---UGACCGGgCGU--AGCG- -5'
21238 5' -57.9 NC_004778.3 + 28447 0.66 0.739405
Target:  5'- ---aUGGUCCAGCUGcugcgauagcggucGCUCGcCGUCGCc -3'
miRNA:   3'- aaugACCGGGUUGAC--------------CGGGC-GUAGCG- -5'
21238 5' -57.9 NC_004778.3 + 52984 0.67 0.732469
Target:  5'- aUUACUGGCC--GCaGGCCC-CGcCGCa -3'
miRNA:   3'- -AAUGACCGGguUGaCCGGGcGUaGCG- -5'
21238 5' -57.9 NC_004778.3 + 32675 0.67 0.71242
Target:  5'- -cGC-GGCCCgAGCUGaGCgCGCAUgaCGCa -3'
miRNA:   3'- aaUGaCCGGG-UUGAC-CGgGCGUA--GCG- -5'
21238 5' -57.9 NC_004778.3 + 80923 0.67 0.711409
Target:  5'- gUACUcGGCCaCAACuaaaacaUGGCCUuuguaaaagGCAUCGUg -3'
miRNA:   3'- aAUGA-CCGG-GUUG-------ACCGGG---------CGUAGCG- -5'
21238 5' -57.9 NC_004778.3 + 98516 0.67 0.702285
Target:  5'- gUUGCUGcGCCCGggcGC-GGUgCGCGUCuGCa -3'
miRNA:   3'- -AAUGAC-CGGGU---UGaCCGgGCGUAG-CG- -5'
21238 5' -57.9 NC_004778.3 + 121851 0.67 0.681844
Target:  5'- ----cGuGCCCGACgcgGGCCUGCA-CGUg -3'
miRNA:   3'- aaugaC-CGGGUUGa--CCGGGCGUaGCG- -5'
21238 5' -57.9 NC_004778.3 + 93794 0.68 0.661234
Target:  5'- --uUUGGCCCGuaaUGGCgCGCAgacaauugaauUCGCg -3'
miRNA:   3'- aauGACCGGGUug-ACCGgGCGU-----------AGCG- -5'
21238 5' -57.9 NC_004778.3 + 118528 0.68 0.647782
Target:  5'- -aGCUGGCCgAAUccaggucgaacucgUGGCCCGgGUCcCa -3'
miRNA:   3'- aaUGACCGGgUUG--------------ACCGGGCgUAGcG- -5'
21238 5' -57.9 NC_004778.3 + 70051 0.69 0.609439
Target:  5'- aUACcGGUCC-GCUGGgCCGCuUUGCa -3'
miRNA:   3'- aAUGaCCGGGuUGACCgGGCGuAGCG- -5'
21238 5' -57.9 NC_004778.3 + 20389 0.69 0.609439
Target:  5'- -aACgUGGUCCAACU-GCCgGCAggCGCa -3'
miRNA:   3'- aaUG-ACCGGGUUGAcCGGgCGUa-GCG- -5'
21238 5' -57.9 NC_004778.3 + 33072 0.69 0.588786
Target:  5'- --cCUGGCgCAACggugcagcGGCCCGCugcCGCg -3'
miRNA:   3'- aauGACCGgGUUGa-------CCGGGCGua-GCG- -5'
21238 5' -57.9 NC_004778.3 + 54794 0.69 0.558066
Target:  5'- -cACUGGUCCAACgcgucucGCugCUGCAUCGCu -3'
miRNA:   3'- aaUGACCGGGUUGac-----CG--GGCGUAGCG- -5'
21238 5' -57.9 NC_004778.3 + 100593 0.71 0.48849
Target:  5'- gUACguuuuGCCCGuuugcaguuguaGCUGGUCCaGCAUCGCg -3'
miRNA:   3'- aAUGac---CGGGU------------UGACCGGG-CGUAGCG- -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.