miRNA display CGI


Results 1 - 20 of 27 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
26504 5' -62.4 NC_005357.1 + 5146 0.66 0.292634
Target:  5'- uGCCgcgcagGCGGCcGUCGCUgcucacgcccuUGGCGAGGGu -3'
miRNA:   3'- cUGGa-----CGCUG-CGGCGG-----------ACCGCUCCUu -5'
26504 5' -62.4 NC_005357.1 + 12012 0.66 0.292634
Target:  5'- cGGCCaGCaGCGCgGCCguggccGGCGAGGu- -3'
miRNA:   3'- -CUGGaCGcUGCGgCGGa-----CCGCUCCuu -5'
26504 5' -62.4 NC_005357.1 + 27609 0.66 0.28548
Target:  5'- cGACCUGgGcgaaggcaGCGCCGCCgaGGUGcAGGu- -3'
miRNA:   3'- -CUGGACgC--------UGCGGCGGa-CCGC-UCCuu -5'
26504 5' -62.4 NC_005357.1 + 16690 0.66 0.278464
Target:  5'- cGCCcaGCGugcUGCCGCC-GGUGAGGAc -3'
miRNA:   3'- cUGGa-CGCu--GCGGCGGaCCGCUCCUu -5'
26504 5' -62.4 NC_005357.1 + 4785 0.66 0.278464
Target:  5'- cACaCUGCGcccagcACGCCGgCUGGCGcugcGGGAu -3'
miRNA:   3'- cUG-GACGC------UGCGGCgGACCGC----UCCUu -5'
26504 5' -62.4 NC_005357.1 + 41746 0.66 0.278464
Target:  5'- cGGCCcgGcCGGCGCCGCCguaGGCGGccuGGu- -3'
miRNA:   3'- -CUGGa-C-GCUGCGGCGGa--CCGCU---CCuu -5'
26504 5' -62.4 NC_005357.1 + 19329 0.66 0.271586
Target:  5'- cGCCgUG-GGCGCCGCCguUGGCGucGGGGc -3'
miRNA:   3'- cUGG-ACgCUGCGGCGG--ACCGC--UCCUu -5'
26504 5' -62.4 NC_005357.1 + 9315 0.67 0.215727
Target:  5'- cGACCUgGCGGCGCaCGUCggcgcGGCGGGcGGc -3'
miRNA:   3'- -CUGGA-CGCUGCG-GCGGa----CCGCUC-CUu -5'
26504 5' -62.4 NC_005357.1 + 14232 0.67 0.215727
Target:  5'- cGACCUGgacaaGGCGCCGCaccugcugGGCGuGGGc -3'
miRNA:   3'- -CUGGACg----CUGCGGCGga------CCGCuCCUu -5'
26504 5' -62.4 NC_005357.1 + 15189 0.68 0.210168
Target:  5'- aGCCUGgGGCGCCGgCUGGacaGcaaAGGAu -3'
miRNA:   3'- cUGGACgCUGCGGCgGACCg--C---UCCUu -5'
26504 5' -62.4 NC_005357.1 + 23348 0.68 0.204732
Target:  5'- cGGCCUGCaauCGCgUGaCCUcGGCGAGGAc -3'
miRNA:   3'- -CUGGACGcu-GCG-GC-GGA-CCGCUCCUu -5'
26504 5' -62.4 NC_005357.1 + 12964 0.68 0.194226
Target:  5'- uGGCCgcGCGcuCGUCGCCUGGUGccAGGAGc -3'
miRNA:   3'- -CUGGa-CGCu-GCGGCGGACCGC--UCCUU- -5'
26504 5' -62.4 NC_005357.1 + 20376 0.68 0.189152
Target:  5'- cGACCcgagcaagcGCGACGaCCGCaacaUGGCGuGGAAg -3'
miRNA:   3'- -CUGGa--------CGCUGC-GGCGg---ACCGCuCCUU- -5'
26504 5' -62.4 NC_005357.1 + 37929 0.68 0.184195
Target:  5'- cGCCUGUGGCGCCGCgCgcauccGGCGGuuucgucguucuGGAAg -3'
miRNA:   3'- cUGGACGCUGCGGCG-Ga-----CCGCU------------CCUU- -5'
26504 5' -62.4 NC_005357.1 + 18901 0.68 0.184195
Target:  5'- cGACC-GCGuGCGCCGCCUGGa-AGGc- -3'
miRNA:   3'- -CUGGaCGC-UGCGGCGGACCgcUCCuu -5'
26504 5' -62.4 NC_005357.1 + 14996 0.69 0.179353
Target:  5'- gGGCCUGCG--GCCGCCgGGCGcGGu- -3'
miRNA:   3'- -CUGGACGCugCGGCGGaCCGCuCCuu -5'
26504 5' -62.4 NC_005357.1 + 8471 0.69 0.156805
Target:  5'- uGGCCUGCGAUGCCGCagccgacGCGAGu-- -3'
miRNA:   3'- -CUGGACGCUGCGGCGgac----CGCUCcuu -5'
26504 5' -62.4 NC_005357.1 + 38564 0.69 0.156805
Target:  5'- cGGCCUacaGCGACGgCGCCUGGUacaacuucgccGAGGu- -3'
miRNA:   3'- -CUGGA---CGCUGCgGCGGACCG-----------CUCCuu -5'
26504 5' -62.4 NC_005357.1 + 33428 0.7 0.148525
Target:  5'- cGCCUGCuggaaGCGCCcCCgcgcGGCGAGGAAa -3'
miRNA:   3'- cUGGACGc----UGCGGcGGa---CCGCUCCUU- -5'
26504 5' -62.4 NC_005357.1 + 42281 0.7 0.147318
Target:  5'- cGCCUGCGGgGaaGCCUGGCGccacgccguagcuuGGGAc -3'
miRNA:   3'- cUGGACGCUgCggCGGACCGC--------------UCCUu -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.