miRNA display CGI


Results 1 - 20 of 45 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
11593 3' -60.2 NC_003085.1 + 15946 0.66 0.441376
Target:  5'- -aGGCuCGGCUgguggcgcucccuugGCCGCugggagguggGGCGUGAGCGu -3'
miRNA:   3'- acCCG-GCCGA---------------CGGCG----------UUGUACUCGCc -5'
11593 3' -60.2 NC_003085.1 + 43514 0.66 0.437574
Target:  5'- gUGGaCUGGCaucUGCCGCGGCGUGuccgucuucGUGGu -3'
miRNA:   3'- -ACCcGGCCG---ACGGCGUUGUACu--------CGCC- -5'
11593 3' -60.2 NC_003085.1 + 19394 0.66 0.437573
Target:  5'- gUGGGCCGGUacCC-CAGCAaggcccaGGGCGGc -3'
miRNA:   3'- -ACCCGGCCGacGGcGUUGUa------CUCGCC- -5'
11593 3' -60.2 NC_003085.1 + 11816 0.66 0.437573
Target:  5'- --cGCCGGgUGCCcCGACGcUGAGgCGGa -3'
miRNA:   3'- accCGGCCgACGGcGUUGU-ACUC-GCC- -5'
11593 3' -60.2 NC_003085.1 + 25158 0.66 0.418847
Target:  5'- gUGuGGCCGGC-GaCCGUGGCcUGguGGCGGu -3'
miRNA:   3'- -AC-CCGGCCGaC-GGCGUUGuAC--UCGCC- -5'
11593 3' -60.2 NC_003085.1 + 21480 0.66 0.409668
Target:  5'- aGGG-CGGcCUG-CGCGGCGUG-GUGGa -3'
miRNA:   3'- aCCCgGCC-GACgGCGUUGUACuCGCC- -5'
11593 3' -60.2 NC_003085.1 + 6314 0.66 0.400616
Target:  5'- -aGGCCGaGCggGaaccgCGCAGCAUGGGCGc -3'
miRNA:   3'- acCCGGC-CGa-Cg----GCGUUGUACUCGCc -5'
11593 3' -60.2 NC_003085.1 + 28602 0.66 0.400616
Target:  5'- cUGGGUgGGCggcaCCGCAGCGgcGAGCu- -3'
miRNA:   3'- -ACCCGgCCGac--GGCGUUGUa-CUCGcc -5'
11593 3' -60.2 NC_003085.1 + 41026 0.66 0.391692
Target:  5'- aGGGaCGGCUGCUGCuggccGAGCa- -3'
miRNA:   3'- aCCCgGCCGACGGCGuuguaCUCGcc -5'
11593 3' -60.2 NC_003085.1 + 48792 0.66 0.391692
Target:  5'- cGGGacaGGUgGCCgGCGACGUccGGGCGGu -3'
miRNA:   3'- aCCCgg-CCGaCGG-CGUUGUA--CUCGCC- -5'
11593 3' -60.2 NC_003085.1 + 14353 0.66 0.391692
Target:  5'- gGGGCCGGacCUGCCacuCAACG-GGGUGa -3'
miRNA:   3'- aCCCGGCC--GACGGc--GUUGUaCUCGCc -5'
11593 3' -60.2 NC_003085.1 + 7975 0.67 0.382899
Target:  5'- cGGGCCGGUa---GCAGCGcUGGcGCGGu -3'
miRNA:   3'- aCCCGGCCGacggCGUUGU-ACU-CGCC- -5'
11593 3' -60.2 NC_003085.1 + 38193 0.67 0.374237
Target:  5'- cUGGGCUGGCg---GCAACucGGGCGGc -3'
miRNA:   3'- -ACCCGGCCGacggCGUUGuaCUCGCC- -5'
11593 3' -60.2 NC_003085.1 + 14372 0.67 0.349061
Target:  5'- aGcGGCUGGCUG-CGCGG-AUGAGgGGc -3'
miRNA:   3'- aC-CCGGCCGACgGCGUUgUACUCgCC- -5'
11593 3' -60.2 NC_003085.1 + 8813 0.67 0.349061
Target:  5'- cUGGGacugaGGCUGCCGaGACAUGGcuGCGc -3'
miRNA:   3'- -ACCCgg---CCGACGGCgUUGUACU--CGCc -5'
11593 3' -60.2 NC_003085.1 + 40485 0.67 0.339334
Target:  5'- cGGGCCGGUgaaguccgcgagGCCGCGGCccuUGgcccAGCGc -3'
miRNA:   3'- aCCCGGCCGa-----------CGGCGUUGu--AC----UCGCc -5'
11593 3' -60.2 NC_003085.1 + 6743 0.68 0.332959
Target:  5'- aUGGuccgacugcCCGGcCUGCCGCGcCGUG-GCGGa -3'
miRNA:   3'- -ACCc--------GGCC-GACGGCGUuGUACuCGCC- -5'
11593 3' -60.2 NC_003085.1 + 5558 0.68 0.332959
Target:  5'- aGGGCCuGGC-GCCGCGAacgGuGCGc -3'
miRNA:   3'- aCCCGG-CCGaCGGCGUUguaCuCGCc -5'
11593 3' -60.2 NC_003085.1 + 41679 0.68 0.332169
Target:  5'- uUGGGCCGcgaaugcGCUcGCCGCGACGauGGCu- -3'
miRNA:   3'- -ACCCGGC-------CGA-CGGCGUUGUacUCGcc -5'
11593 3' -60.2 NC_003085.1 + 6615 0.68 0.317409
Target:  5'- aUGGGgguccucaaguCCGGC-GCCG-GACGUGAGCGc -3'
miRNA:   3'- -ACCC-----------GGCCGaCGGCgUUGUACUCGCc -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.