miRNA display CGI


Results 1 - 20 of 35 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
21865 3' -57.5 NC_004902.1 + 908 0.66 0.516751
Target:  5'- cCCACcGCCuggcgugguuGCUGCACacaGGGUCaugGCCu -3'
miRNA:   3'- -GGUGaCGGu---------CGGCGUGg--UCUAGa--CGG- -5'
21865 3' -57.5 NC_004902.1 + 968 0.67 0.465259
Target:  5'- aCCAC-GCCAgGCgGUggGCCuGGUaCUGCCg -3'
miRNA:   3'- -GGUGaCGGU-CGgCG--UGGuCUA-GACGG- -5'
21865 3' -57.5 NC_004902.1 + 3561 0.68 0.435673
Target:  5'- gCCACUGCaucCAGUCGCAugaUCGcAUCUGCa -3'
miRNA:   3'- -GGUGACG---GUCGGCGU---GGUcUAGACGg -5'
21865 3' -57.5 NC_004902.1 + 4300 0.7 0.313389
Target:  5'- gCCACUGCCccaacuGGUgGUGCCAGcaCUGCUg -3'
miRNA:   3'- -GGUGACGG------UCGgCGUGGUCuaGACGG- -5'
21865 3' -57.5 NC_004902.1 + 4646 0.69 0.353901
Target:  5'- -aGCaUGCCuGCUGCACCAGAgggCagGCUg -3'
miRNA:   3'- ggUG-ACGGuCGGCGUGGUCUa--Ga-CGG- -5'
21865 3' -57.5 NC_004902.1 + 10321 0.7 0.30572
Target:  5'- aCugUGCUuuggcGGCCGCACgAGcgguggCUGCCu -3'
miRNA:   3'- gGugACGG-----UCGGCGUGgUCua----GACGG- -5'
21865 3' -57.5 NC_004902.1 + 11326 0.66 0.548724
Target:  5'- aCCAUUuuaGCgCAGCCuCGCCGGccauguccAUCUGCUg -3'
miRNA:   3'- -GGUGA---CG-GUCGGcGUGGUC--------UAGACGG- -5'
21865 3' -57.5 NC_004902.1 + 14025 0.66 0.517806
Target:  5'- aCUGCUGUCaucaucugaucagguGGCCGCuuuuCUAGAuccuccguuacaucUCUGCCa -3'
miRNA:   3'- -GGUGACGG---------------UCGGCGu---GGUCU--------------AGACGG- -5'
21865 3' -57.5 NC_004902.1 + 14662 0.66 0.536922
Target:  5'- gCCAg-GCaaaAGCUGUGCCGGGaugugugUCUGCCc -3'
miRNA:   3'- -GGUgaCGg--UCGGCGUGGUCU-------AGACGG- -5'
21865 3' -57.5 NC_004902.1 + 15882 0.66 0.548724
Target:  5'- aCCACggauauagGCCAGCaucuguGCACCuGggUUGCUc -3'
miRNA:   3'- -GGUGa-------CGGUCGg-----CGUGGuCuaGACGG- -5'
21865 3' -57.5 NC_004902.1 + 16271 0.7 0.324368
Target:  5'- aCCACUGCCaAGCaUGCAgCAGAgauggcacguuaccaUCUcgGCCa -3'
miRNA:   3'- -GGUGACGG-UCG-GCGUgGUCU---------------AGA--CGG- -5'
21865 3' -57.5 NC_004902.1 + 19430 0.72 0.224783
Target:  5'- -aGCUGCCAGgauCCGCGgCAG-UCUGUCa -3'
miRNA:   3'- ggUGACGGUC---GGCGUgGUCuAGACGG- -5'
21865 3' -57.5 NC_004902.1 + 20979 0.66 0.506258
Target:  5'- gCCACUGUgGuCUGCACagaAGAUaUUGCCg -3'
miRNA:   3'- -GGUGACGgUcGGCGUGg--UCUA-GACGG- -5'
21865 3' -57.5 NC_004902.1 + 23619 1.13 0.000235
Target:  5'- uCCACUGCCAGCCGCACCAGAUCUGCCu -3'
miRNA:   3'- -GGUGACGGUCGGCGUGGUCUAGACGG- -5'
21865 3' -57.5 NC_004902.1 + 23842 0.72 0.249532
Target:  5'- aUACU-UCAGCCGCAUgGGAUucCUGCCg -3'
miRNA:   3'- gGUGAcGGUCGGCGUGgUCUA--GACGG- -5'
21865 3' -57.5 NC_004902.1 + 24410 0.71 0.268851
Target:  5'- gCGCUGUCGGCCuuggcggcacgcuGCGCCuug-CUGCCa -3'
miRNA:   3'- gGUGACGGUCGG-------------CGUGGucuaGACGG- -5'
21865 3' -57.5 NC_004902.1 + 25191 0.7 0.304961
Target:  5'- aCCAgUGCUGGCCGCaaacuccGCCAGGacaUCaugGCCc -3'
miRNA:   3'- -GGUgACGGUCGGCG-------UGGUCU---AGa--CGG- -5'
21865 3' -57.5 NC_004902.1 + 25833 0.69 0.379927
Target:  5'- aCCAUgacuuUGCCauacGGgaGCACCAGAuuuagcUCUGCCg -3'
miRNA:   3'- -GGUG-----ACGG----UCggCGUGGUCU------AGACGG- -5'
21865 3' -57.5 NC_004902.1 + 25997 0.68 0.38798
Target:  5'- gCGCUGCCGcaaccaaucuuguGCC-UGCC-GAUCUGCCu -3'
miRNA:   3'- gGUGACGGU-------------CGGcGUGGuCUAGACGG- -5'
21865 3' -57.5 NC_004902.1 + 27131 0.7 0.313389
Target:  5'- aCCAaUGCCuGCCGUAUUacaAGGUgUGCCa -3'
miRNA:   3'- -GGUgACGGuCGGCGUGG---UCUAgACGG- -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.