miRNA display CGI


Results 1 - 20 of 56 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
6688 3' -59.7 NC_001847.1 + 5678 0.69 0.511459
Target:  5'- aAGGUGGGCCggccggggccgCCCagacccggcaguucAGGUGCGCCUGGg -3'
miRNA:   3'- -UCCAUUCGGga---------GGG--------------UCCGCGUGGACU- -5'
6688 3' -59.7 NC_001847.1 + 73649 0.66 0.716963
Target:  5'- ---gGAGCagaUCCC-GGCGUACCUGGa -3'
miRNA:   3'- uccaUUCGgg-AGGGuCCGCGUGGACU- -5'
6688 3' -59.7 NC_001847.1 + 15124 0.66 0.716963
Target:  5'- aGGGccUAGGCCgCUcaCCCGGGCaGCGCgCUGu -3'
miRNA:   3'- -UCC--AUUCGG-GA--GGGUCCG-CGUG-GACu -5'
6688 3' -59.7 NC_001847.1 + 19854 0.67 0.636456
Target:  5'- ----uGGCCCgcgCCCGGGgGCGCCg-- -3'
miRNA:   3'- uccauUCGGGa--GGGUCCgCGUGGacu -5'
6688 3' -59.7 NC_001847.1 + 32246 0.67 0.626291
Target:  5'- aGGGgcgGAGCCCagagcgggCCCGGGCcCGCCg-- -3'
miRNA:   3'- -UCCa--UUCGGGa-------GGGUCCGcGUGGacu -5'
6688 3' -59.7 NC_001847.1 + 128030 0.66 0.69709
Target:  5'- cAGGagGAGCCCggCCguGGCGCcuACgUGGu -3'
miRNA:   3'- -UCCa-UUCGGGa-GGguCCGCG--UGgACU- -5'
6688 3' -59.7 NC_001847.1 + 21635 0.66 0.677001
Target:  5'- cGGcgcGGGCCgCgCCCGGGCGCgACCgGAg -3'
miRNA:   3'- uCCa--UUCGG-GaGGGUCCGCG-UGGaCU- -5'
6688 3' -59.7 NC_001847.1 + 9690 0.67 0.646618
Target:  5'- cGGGgcaagcccGCCCUCCCcGGaCGCGCCc-- -3'
miRNA:   3'- -UCCauu-----CGGGAGGGuCC-GCGUGGacu -5'
6688 3' -59.7 NC_001847.1 + 6319 0.69 0.535858
Target:  5'- uGGUuGGCCCUUUuuGuGCGCGCCUGc -3'
miRNA:   3'- uCCAuUCGGGAGGguC-CGCGUGGACu -5'
6688 3' -59.7 NC_001847.1 + 91887 0.69 0.497042
Target:  5'- cAGGU--GCCC-CCCGGGCGCcgcGCCg-- -3'
miRNA:   3'- -UCCAuuCGGGaGGGUCCGCG---UGGacu -5'
6688 3' -59.7 NC_001847.1 + 26615 1.08 0.001099
Target:  5'- cAGGUAAGCCCUCCCAGGCGCACCUGAa -3'
miRNA:   3'- -UCCAUUCGGGAGGGUCCGCGUGGACU- -5'
6688 3' -59.7 NC_001847.1 + 48527 0.66 0.69709
Target:  5'- -cGUuguGGCCCgCCUcgAGGCGCGCCcgGAg -3'
miRNA:   3'- ucCAu--UCGGGaGGG--UCCGCGUGGa-CU- -5'
6688 3' -59.7 NC_001847.1 + 104481 0.66 0.69709
Target:  5'- cGGGUA-GCCCUCCaaCAGcGCcaGCACCg-- -3'
miRNA:   3'- -UCCAUuCGGGAGG--GUC-CG--CGUGGacu -5'
6688 3' -59.7 NC_001847.1 + 23787 0.68 0.605983
Target:  5'- cGGU-AGCCCUCUCGGGacccCACgUGAg -3'
miRNA:   3'- uCCAuUCGGGAGGGUCCgc--GUGgACU- -5'
6688 3' -59.7 NC_001847.1 + 9748 0.68 0.56565
Target:  5'- cGGGcGGGCCCUgCCCcGGgGCGCCc-- -3'
miRNA:   3'- -UCCaUUCGGGA-GGGuCCgCGUGGacu -5'
6688 3' -59.7 NC_001847.1 + 50018 0.66 0.687068
Target:  5'- -----cGCCUgcugggcCCCGGGCGCGCCgUGAu -3'
miRNA:   3'- uccauuCGGGa------GGGUCCGCGUGG-ACU- -5'
6688 3' -59.7 NC_001847.1 + 132954 0.69 0.503748
Target:  5'- gAGGUGcGCCCgcacgccgCCCAGGCgGCgcgggcgcugcgagACCUGGu -3'
miRNA:   3'- -UCCAUuCGGGa-------GGGUCCG-CG--------------UGGACU- -5'
6688 3' -59.7 NC_001847.1 + 101157 0.69 0.497042
Target:  5'- aAGGcUGGGCCCagCCCGGccaGCGCGCCcGGc -3'
miRNA:   3'- -UCC-AUUCGGGa-GGGUC---CGCGUGGaCU- -5'
6688 3' -59.7 NC_001847.1 + 103889 0.67 0.656768
Target:  5'- cAGGUgcacgaucGAGCacaUUUCCGGGCGCGCCc-- -3'
miRNA:   3'- -UCCA--------UUCGg--GAGGGUCCGCGUGGacu -5'
6688 3' -59.7 NC_001847.1 + 223 0.67 0.626291
Target:  5'- cGG-GGGCCCgagCCCGGGCcucGCGCCccGAc -3'
miRNA:   3'- uCCaUUCGGGa--GGGUCCG---CGUGGa-CU- -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.