miRNA display CGI


Results 1 - 20 of 302 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
6682 3' -61.7 NC_001847.1 + 87685 0.66 0.585576
Target:  5'- gGGCGCUgGGGCUgCUGcggcGCCGc-GGCGg -3'
miRNA:   3'- aCCGUGA-CCCGAgGGC----CGGUuuCCGC- -5'
6682 3' -61.7 NC_001847.1 + 67549 0.66 0.585576
Target:  5'- aGGCGC-GGGCgguucUCCCagaucggcgcgGGCCAAAgccucGGCGa -3'
miRNA:   3'- aCCGUGaCCCG-----AGGG-----------CCGGUUU-----CCGC- -5'
6682 3' -61.7 NC_001847.1 + 30021 0.66 0.575652
Target:  5'- -aGCGCUGGccGCgucuauggCCgCGGCCGuGGGCGa -3'
miRNA:   3'- acCGUGACC--CGa-------GG-GCCGGUuUCCGC- -5'
6682 3' -61.7 NC_001847.1 + 94146 0.66 0.575652
Target:  5'- aGGUGCUGGGCgacaucUCgCGGCgGcugcuGGGCGc -3'
miRNA:   3'- aCCGUGACCCG------AGgGCCGgUu----UCCGC- -5'
6682 3' -61.7 NC_001847.1 + 129295 0.66 0.575652
Target:  5'- cUGGUAg-GGGCgggCCUGGUgcAAGGCGg -3'
miRNA:   3'- -ACCGUgaCCCGa--GGGCCGguUUCCGC- -5'
6682 3' -61.7 NC_001847.1 + 50274 0.66 0.595532
Target:  5'- gGGCGCguacgUGGGCcgccuagCCgGGCUAGuGGGCGc -3'
miRNA:   3'- aCCGUG-----ACCCGa------GGgCCGGUU-UCCGC- -5'
6682 3' -61.7 NC_001847.1 + 64334 0.66 0.585576
Target:  5'- cGGCGCUcGGCggauccccUCCCGGCCccgccGCGa -3'
miRNA:   3'- aCCGUGAcCCG--------AGGGCCGGuuuc-CGC- -5'
6682 3' -61.7 NC_001847.1 + 134894 0.66 0.605514
Target:  5'- gGGCccCUGGGCgCCgGGCgucGGGGCGc -3'
miRNA:   3'- aCCGu-GACCCGaGGgCCGgu-UUCCGC- -5'
6682 3' -61.7 NC_001847.1 + 103699 0.66 0.595532
Target:  5'- cGGCccGCgccgGGGCcgCCgCGGCCGccGGCc -3'
miRNA:   3'- aCCG--UGa---CCCGa-GG-GCCGGUuuCCGc -5'
6682 3' -61.7 NC_001847.1 + 134860 0.66 0.595532
Target:  5'- cGGCGCccgcgcGGGCUCggCGGCCcccGGGCu -3'
miRNA:   3'- aCCGUGa-----CCCGAGg-GCCGGuu-UCCGc -5'
6682 3' -61.7 NC_001847.1 + 74387 0.66 0.585576
Target:  5'- aGGCGCUGGGggaccgCgCGGCCGccGcGCGc -3'
miRNA:   3'- aCCGUGACCCga----GgGCCGGUuuC-CGC- -5'
6682 3' -61.7 NC_001847.1 + 16671 0.66 0.585576
Target:  5'- aGGCGCgcccGGGC-CuuGcGCCGcAGGCa -3'
miRNA:   3'- aCCGUGa---CCCGaGggC-CGGUuUCCGc -5'
6682 3' -61.7 NC_001847.1 + 71475 0.66 0.585576
Target:  5'- cGGCACc-GGCUgagCCCGGCaacgguGGCGg -3'
miRNA:   3'- aCCGUGacCCGA---GGGCCGguuu--CCGC- -5'
6682 3' -61.7 NC_001847.1 + 81062 0.66 0.615514
Target:  5'- gGGCG-UGGGCggggCCUGGCUGGAcGGgGa -3'
miRNA:   3'- aCCGUgACCCGa---GGGCCGGUUU-CCgC- -5'
6682 3' -61.7 NC_001847.1 + 103397 0.66 0.575652
Target:  5'- cGGCGCcGGG-UCCUGGCCcuccGCGg -3'
miRNA:   3'- aCCGUGaCCCgAGGGCCGGuuucCGC- -5'
6682 3' -61.7 NC_001847.1 + 128229 0.66 0.603516
Target:  5'- gGGCcaggGGGCUaugcaaauuaaaCCGGgCAGGGGCGa -3'
miRNA:   3'- aCCGuga-CCCGAg-----------GGCCgGUUUCCGC- -5'
6682 3' -61.7 NC_001847.1 + 57773 0.66 0.585576
Target:  5'- gGGCuGCUGGuGCUCgCCGGgCu--GGUGg -3'
miRNA:   3'- aCCG-UGACC-CGAG-GGCCgGuuuCCGC- -5'
6682 3' -61.7 NC_001847.1 + 31094 0.66 0.585576
Target:  5'- cGGCGCUGGGg-CCgGGCagcgcGGUGg -3'
miRNA:   3'- aCCGUGACCCgaGGgCCGguuu-CCGC- -5'
6682 3' -61.7 NC_001847.1 + 103964 0.66 0.584582
Target:  5'- cGGCGC-GcGGCUCCggcagcgCGGCCGcgcagAAGGCc -3'
miRNA:   3'- aCCGUGaC-CCGAGG-------GCCGGU-----UUCCGc -5'
6682 3' -61.7 NC_001847.1 + 130511 0.66 0.612513
Target:  5'- aGGCGCgcgagcgccggcGGGCcgCCCGcGCCGAGcuggccgagcuguGGCGg -3'
miRNA:   3'- aCCGUGa-----------CCCGa-GGGC-CGGUUU-------------CCGC- -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.