miRNA display CGI


Results 1 - 20 of 25 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
13328 3' -51.7 NC_003409.1 + 77067 0.66 0.984908
Target:  5'- -cGGCGGCcgcuaagaaAAUcgaAGC-CAGGGUCAGGAc -3'
miRNA:   3'- gaCUGCUG---------UUA---UUGuGUCCCGGUCCU- -5'
13328 3' -51.7 NC_003409.1 + 63978 0.66 0.98299
Target:  5'- -aGACGACcacucaggGGCuCAGGcGCCAGGu -3'
miRNA:   3'- gaCUGCUGuua-----UUGuGUCC-CGGUCCu -5'
13328 3' -51.7 NC_003409.1 + 96776 0.66 0.980894
Target:  5'- cCUGugGAUuuu--CACuauGGGGUCAGGGu -3'
miRNA:   3'- -GACugCUGuuauuGUG---UCCCGGUCCU- -5'
13328 3' -51.7 NC_003409.1 + 109042 0.66 0.980894
Target:  5'- uUGuCGAaaggucccgcGUAAUGCAGGGCUGGGAu -3'
miRNA:   3'- gACuGCUgu--------UAUUGUGUCCCGGUCCU- -5'
13328 3' -51.7 NC_003409.1 + 22309 0.66 0.978611
Target:  5'- uCUGGCGACAAU-ACACGGuGGacguCCAGu- -3'
miRNA:   3'- -GACUGCUGUUAuUGUGUC-CC----GGUCcu -5'
13328 3' -51.7 NC_003409.1 + 119069 0.66 0.978611
Target:  5'- aCUGGguCGuuuCAGUAGaugGGGGCCAGGAu -3'
miRNA:   3'- -GACU--GCu--GUUAUUgugUCCCGGUCCU- -5'
13328 3' -51.7 NC_003409.1 + 93002 0.66 0.976132
Target:  5'- aCUGACauGACug-GGgACGGGGCCuucugGGGAa -3'
miRNA:   3'- -GACUG--CUGuuaUUgUGUCCCGG-----UCCU- -5'
13328 3' -51.7 NC_003409.1 + 49094 0.67 0.974547
Target:  5'- cCUGGCGGCucgacuGUGGCgcgccaccccacuagGCAGGGCCAc-- -3'
miRNA:   3'- -GACUGCUGu-----UAUUG---------------UGUCCCGGUccu -5'
13328 3' -51.7 NC_003409.1 + 51868 0.67 0.973449
Target:  5'- cCUGAcCGGCcuucuccGCGCAGGGUCAGcGGa -3'
miRNA:   3'- -GACU-GCUGuuau---UGUGUCCCGGUC-CU- -5'
13328 3' -51.7 NC_003409.1 + 74013 0.67 0.967439
Target:  5'- aCUGuuGGCAAcuGCACcaccGGGGCCcGGAc -3'
miRNA:   3'- -GACugCUGUUauUGUG----UCCCGGuCCU- -5'
13328 3' -51.7 NC_003409.1 + 120217 0.67 0.964098
Target:  5'- -aGGCGGC--UGGCACAcGGGCCGuGAg -3'
miRNA:   3'- gaCUGCUGuuAUUGUGU-CCCGGUcCU- -5'
13328 3' -51.7 NC_003409.1 + 128317 0.67 0.964098
Target:  5'- gUGGCGACGuu--UACGGGaCCGGGGa -3'
miRNA:   3'- gACUGCUGUuauuGUGUCCcGGUCCU- -5'
13328 3' -51.7 NC_003409.1 + 105972 0.67 0.960525
Target:  5'- cCUGACGACuAGUGGCGugUAGGGauuccaagCAGGGg -3'
miRNA:   3'- -GACUGCUG-UUAUUGU--GUCCCg-------GUCCU- -5'
13328 3' -51.7 NC_003409.1 + 111915 0.68 0.956713
Target:  5'- -cGGCGACAAUGA-AUGGGGaCCAGaGGa -3'
miRNA:   3'- gaCUGCUGUUAUUgUGUCCC-GGUC-CU- -5'
13328 3' -51.7 NC_003409.1 + 111990 0.68 0.948354
Target:  5'- -gGGCGugGugccgGAUGCAGGGCCuGGc -3'
miRNA:   3'- gaCUGCugUua---UUGUGUCCCGGuCCu -5'
13328 3' -51.7 NC_003409.1 + 112147 0.68 0.943799
Target:  5'- cCUGcaucCGGCAcc-ACGCccgGGGGCCAGGAc -3'
miRNA:   3'- -GACu---GCUGUuauUGUG---UCCCGGUCCU- -5'
13328 3' -51.7 NC_003409.1 + 46187 0.69 0.933923
Target:  5'- aUGGCGGC-----CACGuGGGCCGGGGc -3'
miRNA:   3'- gACUGCUGuuauuGUGU-CCCGGUCCU- -5'
13328 3' -51.7 NC_003409.1 + 79132 0.69 0.93076
Target:  5'- -gGACGACAGUGcGCuccagucccucuuaaACaaaAGGGCCGGGGa -3'
miRNA:   3'- gaCUGCUGUUAU-UG---------------UG---UCCCGGUCCU- -5'
13328 3' -51.7 NC_003409.1 + 20722 0.69 0.926951
Target:  5'- -gGGCGGCGuacgugGACGCGGaugcugacuauacaGGCCAGGGg -3'
miRNA:   3'- gaCUGCUGUua----UUGUGUC--------------CCGGUCCU- -5'
13328 3' -51.7 NC_003409.1 + 109432 0.7 0.904722
Target:  5'- --uGCGuCAAUAcGCACAuGGCCAGGAa -3'
miRNA:   3'- gacUGCuGUUAU-UGUGUcCCGGUCCU- -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.