miRNA display CGI


Results 1 - 20 of 38 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
12125 3' -53 NC_003309.1 + 5201 0.66 0.865306
Target:  5'- cGCGAcuucuucGCCgaAGcCGCGCuCGAUCGCc -3'
miRNA:   3'- -CGCUcua----UGG--UCaGCGCGuGCUAGCG- -5'
12125 3' -53 NC_003309.1 + 32312 0.66 0.821761
Target:  5'- aGCGAGAUGCCgagcGGUauCGCACGcacAUCa- -3'
miRNA:   3'- -CGCUCUAUGG----UCAgcGCGUGC---UAGcg -5'
12125 3' -53 NC_003309.1 + 45362 0.66 0.821761
Target:  5'- uCGGGAaACCGG-CGCGCGaucucUCGCa -3'
miRNA:   3'- cGCUCUaUGGUCaGCGCGUgcu--AGCG- -5'
12125 3' -53 NC_003309.1 + 39243 0.66 0.825445
Target:  5'- cGCGG---AUCAGcaUCGCGCACGAaggucgacgaagugcUCGCc -3'
miRNA:   3'- -CGCUcuaUGGUC--AGCGCGUGCU---------------AGCG- -5'
12125 3' -53 NC_003309.1 + 15907 0.66 0.830911
Target:  5'- cGCGcGGAUACUcugcgAGcgCGUGCGCcucGAUCGCc -3'
miRNA:   3'- -CGC-UCUAUGG-----UCa-GCGCGUG---CUAGCG- -5'
12125 3' -53 NC_003309.1 + 19854 0.66 0.830911
Target:  5'- cGCGAcc-GCCAuGUCGCcCucgGCGAUCGCc -3'
miRNA:   3'- -CGCUcuaUGGU-CAGCGcG---UGCUAGCG- -5'
12125 3' -53 NC_003309.1 + 5132 0.66 0.830911
Target:  5'- cGCGAGcgcacGUACCA--UGCGCGCcaucuUCGCg -3'
miRNA:   3'- -CGCUC-----UAUGGUcaGCGCGUGcu---AGCG- -5'
12125 3' -53 NC_003309.1 + 3084 0.66 0.830911
Target:  5'- aCGAcuUGCCGG-CGUacuGCugGAUCGCc -3'
miRNA:   3'- cGCUcuAUGGUCaGCG---CGugCUAGCG- -5'
12125 3' -53 NC_003309.1 + 5062 0.66 0.848568
Target:  5'- gGCGcGGcgGCCGGUgcCGCGacgGCGGUCGg -3'
miRNA:   3'- -CGC-UCuaUGGUCA--GCGCg--UGCUAGCg -5'
12125 3' -53 NC_003309.1 + 29268 0.66 0.865306
Target:  5'- aGCGAaauGUACCAGUgGCGgACaugCGCc -3'
miRNA:   3'- -CGCUc--UAUGGUCAgCGCgUGcuaGCG- -5'
12125 3' -53 NC_003309.1 + 17035 0.66 0.864492
Target:  5'- cGCGAGcccgGCCuGUUGCggacugagcaucuGCACGAUgcCGCc -3'
miRNA:   3'- -CGCUCua--UGGuCAGCG-------------CGUGCUA--GCG- -5'
12125 3' -53 NC_003309.1 + 5582 0.66 0.857056
Target:  5'- cGCGAauGAacGCCuugucuucgCGCGCGcCGAUCGCg -3'
miRNA:   3'- -CGCU--CUa-UGGuca------GCGCGU-GCUAGCG- -5'
12125 3' -53 NC_003309.1 + 10489 0.66 0.848568
Target:  5'- cGCGAG--GCUu-UCGCGCAuCGcgCGCa -3'
miRNA:   3'- -CGCUCuaUGGucAGCGCGU-GCuaGCG- -5'
12125 3' -53 NC_003309.1 + 5409 0.66 0.848568
Target:  5'- uCGGGAUAUCGGUgucagcacCGauguaGCcgACGAUCGCg -3'
miRNA:   3'- cGCUCUAUGGUCA--------GCg----CG--UGCUAGCG- -5'
12125 3' -53 NC_003309.1 + 20058 0.66 0.848568
Target:  5'- cGCGAcacGCCcguucaGGUCgGCGUACGAcuUCGCg -3'
miRNA:   3'- -CGCUcuaUGG------UCAG-CGCGUGCU--AGCG- -5'
12125 3' -53 NC_003309.1 + 25681 0.67 0.812408
Target:  5'- uCGAccGAU-CCAcGUCGCGCA-GGUUGCg -3'
miRNA:   3'- cGCU--CUAuGGU-CAGCGCGUgCUAGCG- -5'
12125 3' -53 NC_003309.1 + 16215 0.67 0.783245
Target:  5'- cGCGAcAUaGCCGGcCG-GCGCGAacUCGCa -3'
miRNA:   3'- -CGCUcUA-UGGUCaGCgCGUGCU--AGCG- -5'
12125 3' -53 NC_003309.1 + 16765 0.67 0.783245
Target:  5'- cGUGAGGccGCC-GUCGCGCGcCGA-CGUc -3'
miRNA:   3'- -CGCUCUa-UGGuCAGCGCGU-GCUaGCG- -5'
12125 3' -53 NC_003309.1 + 40481 0.67 0.783245
Target:  5'- gGCGAGGgaGCCAGagGaCGCcggaguUGGUCGCg -3'
miRNA:   3'- -CGCUCUa-UGGUCagC-GCGu-----GCUAGCG- -5'
12125 3' -53 NC_003309.1 + 15426 0.67 0.772178
Target:  5'- cGCGAGuguCCGGcgccggaacaccuUCGCGCcgACGAgaUCGCc -3'
miRNA:   3'- -CGCUCuauGGUC-------------AGCGCG--UGCU--AGCG- -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.