miRNA display CGI


Results 1 - 20 of 37 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
28131 3' -55.6 NC_005887.1 + 973 0.69 0.441044
Target:  5'- gGGUCGcgacgcGGAUCGAagcCGAGGccgccugacUCGuCCGGCGg -3'
miRNA:   3'- -CCAGU------UCUAGCU---GCUCC---------AGC-GGCCGU- -5'
28131 3' -55.6 NC_005887.1 + 2302 0.73 0.271422
Target:  5'- cGcCGAGAUCuacccgggcuuCGAGGUCGCUGGCAu -3'
miRNA:   3'- cCaGUUCUAGcu---------GCUCCAGCGGCCGU- -5'
28131 3' -55.6 NC_005887.1 + 3047 0.66 0.632136
Target:  5'- cGGaCgAAGAagCGACGgacguGGaGUCGCCGGCGa -3'
miRNA:   3'- -CCaG-UUCUa-GCUGC-----UC-CAGCGGCCGU- -5'
28131 3' -55.6 NC_005887.1 + 4862 0.67 0.61
Target:  5'- --gCGAGAUCcGCGAGcacggccUCGCCGGCu -3'
miRNA:   3'- ccaGUUCUAGcUGCUCc------AGCGGCCGu -5'
28131 3' -55.6 NC_005887.1 + 5822 0.67 0.61
Target:  5'- -aUCGAG-UCGGCGcGGGUCGCgaagGGCGa -3'
miRNA:   3'- ccAGUUCuAGCUGC-UCCAGCGg---CCGU- -5'
28131 3' -55.6 NC_005887.1 + 8930 0.72 0.317258
Target:  5'- cGUCGcGAucUCGACGGGcG-CGCCGGCGu -3'
miRNA:   3'- cCAGUuCU--AGCUGCUC-CaGCGGCCGU- -5'
28131 3' -55.6 NC_005887.1 + 9356 0.66 0.665314
Target:  5'- cGGgCAGGAcgaaUCGGCGAcagacgaauacgGGUCGaUCGGCGc -3'
miRNA:   3'- -CCaGUUCU----AGCUGCU------------CCAGC-GGCCGU- -5'
28131 3' -55.6 NC_005887.1 + 12548 0.66 0.643209
Target:  5'- -uUCAAGGacgUGGCGucgacGGcCGCCGGCAu -3'
miRNA:   3'- ccAGUUCUa--GCUGCu----CCaGCGGCCGU- -5'
28131 3' -55.6 NC_005887.1 + 13055 0.67 0.61
Target:  5'- uGGUCcGGGUCGGugcCGcGGGUCGCC-GCu -3'
miRNA:   3'- -CCAGuUCUAGCU---GC-UCCAGCGGcCGu -5'
28131 3' -55.6 NC_005887.1 + 13496 1.11 0.00059
Target:  5'- cGGUCAAGAUCGACGAGGUCGCCGGCAc -3'
miRNA:   3'- -CCAGUUCUAGCUGCUCCAGCGGCCGU- -5'
28131 3' -55.6 NC_005887.1 + 14843 0.68 0.54434
Target:  5'- gGGUUGAucuGGUCGGCGAGGUgGUCGuaAc -3'
miRNA:   3'- -CCAGUU---CUAGCUGCUCCAgCGGCcgU- -5'
28131 3' -55.6 NC_005887.1 + 15062 0.66 0.654272
Target:  5'- cGGggCAGGuGUCGcCGaAGGgagcCGCCGGCGu -3'
miRNA:   3'- -CCa-GUUC-UAGCuGC-UCCa---GCGGCCGU- -5'
28131 3' -55.6 NC_005887.1 + 15267 0.66 0.665314
Target:  5'- aGUgcuGcgCGGCGAGcGUcCGCCGGCGa -3'
miRNA:   3'- cCAguuCuaGCUGCUC-CA-GCGGCCGU- -5'
28131 3' -55.6 NC_005887.1 + 15362 0.68 0.521862
Target:  5'- cGGUCGAGGUauGCGGcagucucGuUCGCCGGCGg -3'
miRNA:   3'- -CCAGUUCUAgcUGCU-------CcAGCGGCCGU- -5'
28131 3' -55.6 NC_005887.1 + 15513 0.67 0.598956
Target:  5'- cGGUCAucg-CGGCGAcGUCGuCCGGUu -3'
miRNA:   3'- -CCAGUucuaGCUGCUcCAGC-GGCCGu -5'
28131 3' -55.6 NC_005887.1 + 16225 0.66 0.665314
Target:  5'- aGGUCAcGAUCGauacgccggccgGCGAGcgcacgggcaccGUCGCCGaGCu -3'
miRNA:   3'- -CCAGUuCUAGC------------UGCUC------------CAGCGGC-CGu -5'
28131 3' -55.6 NC_005887.1 + 16426 0.69 0.467908
Target:  5'- aGGcCGAGAUCGACGGGaucgagaaccgcguGcgCGCgGGCAu -3'
miRNA:   3'- -CCaGUUCUAGCUGCUC--------------Ca-GCGgCCGU- -5'
28131 3' -55.6 NC_005887.1 + 16482 0.67 0.566032
Target:  5'- cGG-CAGGAUcCGGCGGGcUgGUCGGCGa -3'
miRNA:   3'- -CCaGUUCUA-GCUGCUCcAgCGGCCGU- -5'
28131 3' -55.6 NC_005887.1 + 16626 0.67 0.60779
Target:  5'- cGGUCGAGAUCGGCuucgugcacgaguuGcugacgcgcccacucGG-CGCCGGCGg -3'
miRNA:   3'- -CCAGUUCUAGCUG--------------Cu--------------CCaGCGGCCGU- -5'
28131 3' -55.6 NC_005887.1 + 17648 0.66 0.676324
Target:  5'- --gCGGGAUUGACGGGcGUguucgucgCGCCGGUc -3'
miRNA:   3'- ccaGUUCUAGCUGCUC-CA--------GCGGCCGu -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.