miRNA display CGI


Results 1 - 20 of 20 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
26526 3' -60.9 NC_005357.1 + 18377 0.66 0.305566
Target:  5'- cGAGGUuGGCCUugccgauGGCGccgguGGCGGCCAc -3'
miRNA:   3'- uCUUCGuCCGGGu------CCGC-----UCGUCGGUu -5'
26526 3' -60.9 NC_005357.1 + 29095 0.66 0.290529
Target:  5'- cGAGGuCAGGCCCGuGCGGGacuugcuGCCGGu -3'
miRNA:   3'- uCUUC-GUCCGGGUcCGCUCgu-----CGGUU- -5'
26526 3' -60.9 NC_005357.1 + 10071 0.66 0.290529
Target:  5'- cGAGGCGucGUCgGGGCGAGCcguGCCAu -3'
miRNA:   3'- uCUUCGUc-CGGgUCCGCUCGu--CGGUu -5'
26526 3' -60.9 NC_005357.1 + 4354 0.66 0.283231
Target:  5'- cAGAGGaaucGGCCggacggCAGGCGGaugcGCAGCCAGg -3'
miRNA:   3'- -UCUUCgu--CCGG------GUCCGCU----CGUCGGUU- -5'
26526 3' -60.9 NC_005357.1 + 21262 0.66 0.278209
Target:  5'- cGcAGCAGGCCgcgcuguugaaccaGGGCGcggacacGGCGGCCAAg -3'
miRNA:   3'- uCuUCGUCCGGg-------------UCCGC-------UCGUCGGUU- -5'
26526 3' -60.9 NC_005357.1 + 24966 0.67 0.248911
Target:  5'- ---uGCAGGCCCuGGCGuGGCaccuGGCCu- -3'
miRNA:   3'- ucuuCGUCCGGGuCCGC-UCG----UCGGuu -5'
26526 3' -60.9 NC_005357.1 + 23573 0.67 0.236175
Target:  5'- --cGGCAGGUgCGGGCGGGgGGCg-- -3'
miRNA:   3'- ucuUCGUCCGgGUCCGCUCgUCGguu -5'
26526 3' -60.9 NC_005357.1 + 4059 0.67 0.230014
Target:  5'- cAGGccAGC-GGCCCAGGgGggauuGGUAGCCAu -3'
miRNA:   3'- -UCU--UCGuCCGGGUCCgC-----UCGUCGGUu -5'
26526 3' -60.9 NC_005357.1 + 24207 0.68 0.212343
Target:  5'- ---cGUAGGCgcugCCAaaguccGGCGAGCGGCCGAu -3'
miRNA:   3'- ucuuCGUCCG----GGU------CCGCUCGUCGGUU- -5'
26526 3' -60.9 NC_005357.1 + 7051 0.68 0.195852
Target:  5'- cAGgcGCAuGGCCuCGGGCG-GCAGCg-- -3'
miRNA:   3'- -UCuuCGU-CCGG-GUCCGCuCGUCGguu -5'
26526 3' -60.9 NC_005357.1 + 28092 0.69 0.185489
Target:  5'- cGAaccAGCAGGCCC-GGCaGuuCAGCCAAg -3'
miRNA:   3'- uCU---UCGUCCGGGuCCG-CucGUCGGUU- -5'
26526 3' -60.9 NC_005357.1 + 10583 0.69 0.180491
Target:  5'- cGGgcGUAGuaCCCAGGCGcGCAGCCu- -3'
miRNA:   3'- -UCuuCGUCc-GGGUCCGCuCGUCGGuu -5'
26526 3' -60.9 NC_005357.1 + 29452 0.69 0.175613
Target:  5'- cAGguGCuccuGGCaCCAGGCGAcgaagcgcGCGGCCAGu -3'
miRNA:   3'- -UCuuCGu---CCG-GGUCCGCU--------CGUCGGUU- -5'
26526 3' -60.9 NC_005357.1 + 31686 0.69 0.166208
Target:  5'- -cGAGCGcGCCCuuGGCGAGCAGCa-- -3'
miRNA:   3'- ucUUCGUcCGGGu-CCGCUCGUCGguu -5'
26526 3' -60.9 NC_005357.1 + 19429 0.7 0.161676
Target:  5'- cAGcAGCAGGCcgaCCAGGCGAa-AGCCGAa -3'
miRNA:   3'- -UCuUCGUCCG---GGUCCGCUcgUCGGUU- -5'
26526 3' -60.9 NC_005357.1 + 24300 0.7 0.140653
Target:  5'- uGGggGCggugAGGUC--GGCGAGCAGCCGc -3'
miRNA:   3'- -UCuuCG----UCCGGguCCGCUCGUCGGUu -5'
26526 3' -60.9 NC_005357.1 + 27444 0.71 0.122161
Target:  5'- cGGccGCAGGCCCuGGCGcuGGUAuGCCAGc -3'
miRNA:   3'- -UCuuCGUCCGGGuCCGC--UCGU-CGGUU- -5'
26526 3' -60.9 NC_005357.1 + 39952 0.73 0.096935
Target:  5'- uGGggGCAGGCUUgguuccuggacaaAGGCGAGCgccugGGCCGc -3'
miRNA:   3'- -UCuuCGUCCGGG-------------UCCGCUCG-----UCGGUu -5'
26526 3' -60.9 NC_005357.1 + 18283 0.76 0.054295
Target:  5'- cGAGGCGcuGGgCCAGGCGcGCAGCCGg -3'
miRNA:   3'- uCUUCGU--CCgGGUCCGCuCGUCGGUu -5'
26526 3' -60.9 NC_005357.1 + 10846 1.06 0.000233
Target:  5'- cAGAAGCAGGCCCAGGCGAGCAGCCAAa -3'
miRNA:   3'- -UCUUCGUCCGGGUCCGCUCGUCGGUU- -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.