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 + 13496 1.11 0.00059
Target:  5'- cGGUCAAGAUCGACGAGGUCGCCGGCAc -3'
miRNA:   3'- -CCAGUUCUAGCUGCUCCAGCGGCCGU- -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 + 16225 0.66 0.665314
Target:  5'- aGGUCAcGAUCGauacgccggccgGCGAGcgcacgggcaccGUCGCCGaGCu -3'
miRNA:   3'- -CCAGUuCUAGC------------UGCUC------------CAGCGGC-CGu -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 + 15062 0.66 0.654272
Target:  5'- cGGggCAGGuGUCGcCGaAGGgagcCGCCGGCGu -3'
miRNA:   3'- -CCa-GUUC-UAGCuGC-UCCa---GCGGCCGU- -5'
28131 3' -55.6 NC_005887.1 + 35050 0.66 0.643209
Target:  5'- gGGUuacgCGAGGUCGcUGccGUCGUCGGCGg -3'
miRNA:   3'- -CCA----GUUCUAGCuGCucCAGCGGCCGU- -5'
28131 3' -55.6 NC_005887.1 + 40707 0.66 0.643209
Target:  5'- uGG-CAGGAgccgaUCGAagacgacuuCGAGGUCGCCGcccGCGu -3'
miRNA:   3'- -CCaGUUCU-----AGCU---------GCUCCAGCGGC---CGU- -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 + 5822 0.67 0.61
Target:  5'- -aUCGAG-UCGGCGcGGGUCGCgaagGGCGa -3'
miRNA:   3'- ccAGUUCuAGCUGC-UCCAGCGg---CCGU- -5'
28131 3' -55.6 NC_005887.1 + 21036 0.67 0.587941
Target:  5'- cGGUCAGgcGAUCGucuCGAcagguucGUCGUCGGCGc -3'
miRNA:   3'- -CCAGUU--CUAGCu--GCUc------CAGCGGCCGU- -5'
28131 3' -55.6 NC_005887.1 + 33076 0.67 0.587941
Target:  5'- cGUCAGGuugauaguUCGGauccagguaguCGGGGUCGCCcGGCu -3'
miRNA:   3'- cCAGUUCu-------AGCU-----------GCUCCAGCGG-CCGu -5'
28131 3' -55.6 NC_005887.1 + 41530 0.75 0.221503
Target:  5'- cGG-CAAGAUCcGCGAGG-CGCuCGGCGc -3'
miRNA:   3'- -CCaGUUCUAGcUGCUCCaGCG-GCCGU- -5'
28131 3' -55.6 NC_005887.1 + 34637 0.73 0.265911
Target:  5'- cGUUcgcGUCGACGAGGcgCGCCGGCu -3'
miRNA:   3'- cCAGuucUAGCUGCUCCa-GCGGCCGu -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 + 33720 0.72 0.301108
Target:  5'- cGGUCGAucugcucGAUCGcgGCGAGGaucagcgCGCCGGCc -3'
miRNA:   3'- -CCAGUU-------CUAGC--UGCUCCa------GCGGCCGu -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 + 24988 0.67 0.575868
Target:  5'- aGGUCGGGGUaguUGcCGAGcGUCagcucgcGCCGGCGg -3'
miRNA:   3'- -CCAGUUCUA---GCuGCUC-CAG-------CGGCCGU- -5'
28131 3' -55.6 NC_005887.1 + 19973 0.77 0.160101
Target:  5'- cGUCAGGGUCGAauaGAGGUagaCGCCGGg- -3'
miRNA:   3'- cCAGUUCUAGCUg--CUCCA---GCGGCCgu -5'
28131 3' -55.6 NC_005887.1 + 23551 0.66 0.665314
Target:  5'- cGUCGgcaagcAGAUCaa-GGGcGUCGCCGGCu -3'
miRNA:   3'- cCAGU------UCUAGcugCUC-CAGCGGCCGu -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.