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 + 37116 0.76 0.195599
Target:  5'- gAGGAggGCUggcgUGCCgccagcgcacUGCGCCGCCAGu -3'
miRNA:   3'- -UCCUuaCGGa---ACGGa---------ACGUGGCGGUC- -5'
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 + 2918 0.66 0.719001
Target:  5'- uGGAaguauuucgagGUGCCUccggUGCCgaGCACCgagGCCAu -3'
miRNA:   3'- uCCU-----------UACGGA----ACGGaaCGUGG---CGGUc -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 + 59437 0.66 0.686682
Target:  5'- -uGGcgGCCUUGCCcaccggugUGCGCCgGUCGGc -3'
miRNA:   3'- ucCUuaCGGAACGGa-------ACGUGG-CGGUC- -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 + 25422 0.67 0.630817
Target:  5'- uGGggUGCCUccgaccuUGCCgcugGC-CUGUCGGa -3'
miRNA:   3'- uCCuuACGGA-------ACGGaa--CGuGGCGGUC- -5'
18980 3' -55.9 NC_004684.1 + 13241 0.67 0.620923
Target:  5'- gGGGAGUuCCgugGCCagGCcgugACCGCCAGc -3'
miRNA:   3'- -UCCUUAcGGaa-CGGaaCG----UGGCGGUC- -5'
18980 3' -55.9 NC_004684.1 + 59515 0.67 0.620923
Target:  5'- cGGGcgcGUCguagGCCUgcgcacagguccUGCACCGCCAGc -3'
miRNA:   3'- -UCCuuaCGGaa--CGGA------------ACGUGGCGGUC- -5'
18980 3' -55.9 NC_004684.1 + 10007 0.71 0.377138
Target:  5'- cGGAAcUGCCggaccUGCCgcGCGCCGaCCGGg -3'
miRNA:   3'- uCCUU-ACGGa----ACGGaaCGUGGC-GGUC- -5'
18980 3' -55.9 NC_004684.1 + 61924 0.7 0.432445
Target:  5'- cGGggUGCgg-GCCacgGCAcCCGCCGGg -3'
miRNA:   3'- uCCuuACGgaaCGGaa-CGU-GGCGGUC- -5'
18980 3' -55.9 NC_004684.1 + 40162 0.7 0.475875
Target:  5'- cAGGAcgGCCUUGCUggcggcgaagcucaUGCGCUGCUc- -3'
miRNA:   3'- -UCCUuaCGGAACGGa-------------ACGUGGCGGuc -5'
18980 3' -55.9 NC_004684.1 + 12891 0.69 0.534073
Target:  5'- gGGGAGccUGCgCUcgccgccagcggUGCCggUGCGCCGUCGGc -3'
miRNA:   3'- -UCCUU--ACG-GA------------ACGGa-ACGUGGCGGUC- -5'
18980 3' -55.9 NC_004684.1 + 66979 0.69 0.534073
Target:  5'- cGGggUGCCagucGCCcagcUUGC-CCGCCAc -3'
miRNA:   3'- uCCuuACGGaa--CGG----AACGuGGCGGUc -5'
18980 3' -55.9 NC_004684.1 + 58935 0.67 0.598975
Target:  5'- cGGGGAcaacaGCCagGCCUUGCGCCggGCCc- -3'
miRNA:   3'- -UCCUUa----CGGaaCGGAACGUGG--CGGuc -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 + 9579 0.72 0.343008
Target:  5'- cGGGAGUGaCCggguacggcUGCgCUUGC-CCGCCAGc -3'
miRNA:   3'- -UCCUUAC-GGa--------ACG-GAACGuGGCGGUC- -5'
18980 3' -55.9 NC_004684.1 + 22923 0.72 0.351328
Target:  5'- uGGccaGCCcgGCC-UGCACCGCCGGg -3'
miRNA:   3'- uCCuuaCGGaaCGGaACGUGGCGGUC- -5'
18980 3' -55.9 NC_004684.1 + 22387 0.7 0.442115
Target:  5'- cGGggUucggcaccgccGCCgcgcggGCCUUGgcCGCCGCCAGg -3'
miRNA:   3'- uCCuuA-----------CGGaa----CGGAAC--GUGGCGGUC- -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.