miRNA display CGI


Results 1 - 20 of 53 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
18980 3' -55.9 NC_004684.1 + 58162 0.66 0.719001
Target:  5'- cGGGGA-GCCggUGCgacUGUGCCGCCAc -3'
miRNA:   3'- -UCCUUaCGGa-ACGga-ACGUGGCGGUc -5'
18980 3' -55.9 NC_004684.1 + 45074 0.66 0.719001
Target:  5'- -----cGCUcgGCUucuggUUGCGCCGCCAGg -3'
miRNA:   3'- uccuuaCGGaaCGG-----AACGUGGCGGUC- -5'
18980 3' -55.9 NC_004684.1 + 18463 0.66 0.719001
Target:  5'- uGGAAcuUGCCggugaUGUCgagcggcaccGCGCCGCCGGu -3'
miRNA:   3'- uCCUU--ACGGa----ACGGaa--------CGUGGCGGUC- -5'
18980 3' -55.9 NC_004684.1 + 15878 0.66 0.719001
Target:  5'- uGGuGUGCacgUUGCCggUGuCGCCGCCGc -3'
miRNA:   3'- uCCuUACGg--AACGGa-AC-GUGGCGGUc -5'
18980 3' -55.9 NC_004684.1 + 55760 0.66 0.719001
Target:  5'- uAGGuccaGCa--GCUggUGCGCCGCCAGg -3'
miRNA:   3'- -UCCuua-CGgaaCGGa-ACGUGGCGGUC- -5'
18980 3' -55.9 NC_004684.1 + 2918 0.66 0.719001
Target:  5'- uGGAaguauuucgagGUGCCUccggUGCCgaGCACCgagGCCAu -3'
miRNA:   3'- uCCU-----------UACGGA----ACGGaaCGUGG---CGGUc -5'
18980 3' -55.9 NC_004684.1 + 13662 0.66 0.719001
Target:  5'- uGGaGAAUGCCc-GCCUcgacGCaguagccgaugGCCGCCAGg -3'
miRNA:   3'- -UC-CUUACGGaaCGGAa---CG-----------UGGCGGUC- -5'
18980 3' -55.9 NC_004684.1 + 55891 0.66 0.708299
Target:  5'- uGGAccUGCCcgaugGCCUguUACCGCCGGa -3'
miRNA:   3'- uCCUu-ACGGaa---CGGAacGUGGCGGUC- -5'
18980 3' -55.9 NC_004684.1 + 40226 0.66 0.697522
Target:  5'- cAGGAucGCCgagGUCggUGCcgagGCCGCCAGc -3'
miRNA:   3'- -UCCUuaCGGaa-CGGa-ACG----UGGCGGUC- -5'
18980 3' -55.9 NC_004684.1 + 18140 0.66 0.686682
Target:  5'- cGGGcAGUcGuCCUcGCCUU-CGCCGCCGGu -3'
miRNA:   3'- -UCC-UUA-C-GGAaCGGAAcGUGGCGGUC- -5'
18980 3' -55.9 NC_004684.1 + 59437 0.66 0.686682
Target:  5'- -uGGcgGCCUUGCCcaccggugUGCGCCgGUCGGc -3'
miRNA:   3'- ucCUuaCGGAACGGa-------ACGUGG-CGGUC- -5'
18980 3' -55.9 NC_004684.1 + 2806 0.66 0.686682
Target:  5'- cGGuguggcGCaCUUGCCcccgGCACCGgCCAGg -3'
miRNA:   3'- uCCuua---CG-GAACGGaa--CGUGGC-GGUC- -5'
18980 3' -55.9 NC_004684.1 + 31266 0.66 0.686682
Target:  5'- gAGGccuUGCCcgaucugGCCcaGCACCGCCGc -3'
miRNA:   3'- -UCCuu-ACGGaa-----CGGaaCGUGGCGGUc -5'
18980 3' -55.9 NC_004684.1 + 26075 0.66 0.67579
Target:  5'- cAGGAGcGCCagcgggUUGCCUUcgcGCACCagcuugGCCAGc -3'
miRNA:   3'- -UCCUUaCGG------AACGGAA---CGUGG------CGGUC- -5'
18980 3' -55.9 NC_004684.1 + 38558 0.66 0.664857
Target:  5'- cGGugccUGCCUUGUCggcgugaucGCGCCGUCGGc -3'
miRNA:   3'- uCCuu--ACGGAACGGaa-------CGUGGCGGUC- -5'
18980 3' -55.9 NC_004684.1 + 12077 0.67 0.649502
Target:  5'- cGGGGucAUGCCgucggUGCCgccggucgcggugUGCGCCgcagguGCCAGg -3'
miRNA:   3'- -UCCU--UACGGa----ACGGa------------ACGUGG------CGGUC- -5'
18980 3' -55.9 NC_004684.1 + 33931 0.67 0.64291
Target:  5'- uGGuugGCCccgUUGCCgc-CGCCGCCGGg -3'
miRNA:   3'- uCCuuaCGG---AACGGaacGUGGCGGUC- -5'
18980 3' -55.9 NC_004684.1 + 12856 0.67 0.64291
Target:  5'- cGGAG-GCCgagGCCgc-CACCGCCGa -3'
miRNA:   3'- uCCUUaCGGaa-CGGaacGUGGCGGUc -5'
18980 3' -55.9 NC_004684.1 + 25753 0.67 0.64291
Target:  5'- uAGGucgcGCCcUGCCcgGUACCGCCGc -3'
miRNA:   3'- -UCCuua-CGGaACGGaaCGUGGCGGUc -5'
18980 3' -55.9 NC_004684.1 + 2771 0.67 0.636314
Target:  5'- cGGGGAUGCggUGCCcggcgcugaaauggUGCuugACCGUCAGg -3'
miRNA:   3'- -UCCUUACGgaACGGa-------------ACG---UGGCGGUC- -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.