miRNA display CGI


Results 1 - 20 of 23 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
30435 3' -56.2 NC_006548.1 + 1118 0.7 0.296787
Target:  5'- gAGCgagcCUGGCCGUcuGCGcgGCcagcaacgccuguGCGGCg -3'
miRNA:   3'- -UCGaa--GACCGGCAu-CGCuaCG-------------UGCCG- -5'
30435 3' -56.2 NC_006548.1 + 1681 0.66 0.509167
Target:  5'- aAGCUgcauugGGCCGgGGCGGagagaguuaucgGCugGGCa -3'
miRNA:   3'- -UCGAaga---CCGGCaUCGCUa-----------CGugCCG- -5'
30435 3' -56.2 NC_006548.1 + 7159 0.68 0.409392
Target:  5'- gGGCgugacgaGGCCcUGGUGAUcaGCACGGCg -3'
miRNA:   3'- -UCGaaga---CCGGcAUCGCUA--CGUGCCG- -5'
30435 3' -56.2 NC_006548.1 + 7483 0.68 0.409392
Target:  5'- cAGC--CUGGaaGgcGCGAUGguCGGCa -3'
miRNA:   3'- -UCGaaGACCggCauCGCUACguGCCG- -5'
30435 3' -56.2 NC_006548.1 + 9646 0.67 0.490006
Target:  5'- uGCUcgacaggUGGCUGgguGCGggGCAUGGCg -3'
miRNA:   3'- uCGAag-----ACCGGCau-CGCuaCGUGCCG- -5'
30435 3' -56.2 NC_006548.1 + 11764 0.69 0.381357
Target:  5'- cAGCguccagCUGGUCaUGcGCGgcGCGCGGCg -3'
miRNA:   3'- -UCGaa----GACCGGcAU-CGCuaCGUGCCG- -5'
30435 3' -56.2 NC_006548.1 + 12922 0.68 0.399905
Target:  5'- cAGCacgUUCUGGCuCGcgcugagcGCGGUGCuguGCGGCg -3'
miRNA:   3'- -UCG---AAGACCG-GCau------CGCUACG---UGCCG- -5'
30435 3' -56.2 NC_006548.1 + 14425 1.11 0.00031
Target:  5'- cAGCUUCUGGCCGUAGCGAUGCACGGCu -3'
miRNA:   3'- -UCGAAGACCGGCAUCGCUACGUGCCG- -5'
30435 3' -56.2 NC_006548.1 + 16187 0.7 0.297548
Target:  5'- cGGCUUC-GGC----GCGGUGCGCGGUa -3'
miRNA:   3'- -UCGAAGaCCGgcauCGCUACGUGCCG- -5'
30435 3' -56.2 NC_006548.1 + 16661 0.7 0.329258
Target:  5'- cGCUUCcagGGUgaUGUAGCGGUcGuCGCGGCc -3'
miRNA:   3'- uCGAAGa--CCG--GCAUCGCUA-C-GUGCCG- -5'
30435 3' -56.2 NC_006548.1 + 17468 0.8 0.068963
Target:  5'- cGCagCUGGCCGaAGCGAUGCAgccugucguCGGCa -3'
miRNA:   3'- uCGaaGACCGGCaUCGCUACGU---------GCCG- -5'
30435 3' -56.2 NC_006548.1 + 18297 0.67 0.4487
Target:  5'- aGGCUcgUCcgGGCCGUccuugcccAGCGAUGC-CaGCu -3'
miRNA:   3'- -UCGA--AGa-CCGGCA--------UCGCUACGuGcCG- -5'
30435 3' -56.2 NC_006548.1 + 19045 0.66 0.511315
Target:  5'- cGGC-UCgggGGCCuacaUGGCGccUGCACGGUg -3'
miRNA:   3'- -UCGaAGa--CCGGc---AUCGCu-ACGUGCCG- -5'
30435 3' -56.2 NC_006548.1 + 22081 0.66 0.543965
Target:  5'- cGGCgaa-GGaUgGUGGCGGUGCgACGGCc -3'
miRNA:   3'- -UCGaagaCC-GgCAUCGCUACG-UGCCG- -5'
30435 3' -56.2 NC_006548.1 + 22589 0.67 0.479508
Target:  5'- cGGCggCUGugcGCCgGUAGUGGUugGUGCGGCa -3'
miRNA:   3'- -UCGaaGAC---CGG-CAUCGCUA--CGUGCCG- -5'
30435 3' -56.2 NC_006548.1 + 22875 0.69 0.349449
Target:  5'- aAGCg-CUGGCUGcagcuugcuacgaacUGGCGAUucagucGCGCGGCg -3'
miRNA:   3'- -UCGaaGACCGGC---------------AUCGCUA------CGUGCCG- -5'
30435 3' -56.2 NC_006548.1 + 26978 0.71 0.282603
Target:  5'- gAGCaagCUGGCCGUaAGCuGAgcaGCGuCGGCg -3'
miRNA:   3'- -UCGaa-GACCGGCA-UCG-CUa--CGU-GCCG- -5'
30435 3' -56.2 NC_006548.1 + 27600 0.73 0.199684
Target:  5'- aGGCca--GGCCGUaaccGGCGAUGC-CGGCg -3'
miRNA:   3'- -UCGaagaCCGGCA----UCGCUACGuGCCG- -5'
30435 3' -56.2 NC_006548.1 + 28018 0.66 0.522114
Target:  5'- gAGUUUCU-GCCGcGGUucgGCGCGGCc -3'
miRNA:   3'- -UCGAAGAcCGGCaUCGcuaCGUGCCG- -5'
30435 3' -56.2 NC_006548.1 + 33254 0.67 0.479508
Target:  5'- aGGCgggggUUGGCUucc-CGGUGCACGGCu -3'
miRNA:   3'- -UCGaa---GACCGGcaucGCUACGUGCCG- -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.