miRNA display CGI


Results 1 - 20 of 34 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
13103 3' -66 NC_003401.1 + 8859 0.68 0.340655
Target:  5'- cCUGGgguacuUCGCgGGGCGcGGCGUGGacCGCa -3'
miRNA:   3'- aGACC------GGCGgUCCGCcCCGCACC--GCG- -5'
13103 3' -66 NC_003401.1 + 14172 0.67 0.385984
Target:  5'- aUUGGCCGCgcggcucuggCGGGCGGcaaguacaGGCGUgugGGUGUg -3'
miRNA:   3'- aGACCGGCG----------GUCCGCC--------CCGCA---CCGCG- -5'
13103 3' -66 NC_003401.1 + 15041 1.11 0.000243
Target:  5'- cUCUGGCCGCCAGGCGGGGCGUGGCGCg -3'
miRNA:   3'- -AGACCGGCGGUCCGCCCCGCACCGCG- -5'
13103 3' -66 NC_003401.1 + 17014 0.73 0.156555
Target:  5'- uUUUGGuacaCCGCCAGGUGGGGCagguUGGUGg -3'
miRNA:   3'- -AGACC----GGCGGUCCGCCCCGc---ACCGCg -5'
13103 3' -66 NC_003401.1 + 18141 0.68 0.312643
Target:  5'- --cGGCCGCU---CGGGGCGaucUGGCGUu -3'
miRNA:   3'- agaCCGGCGGuccGCCCCGC---ACCGCG- -5'
13103 3' -66 NC_003401.1 + 18184 0.68 0.333485
Target:  5'- --cGGCCGCC-GGUGuGGGUG-GGCa- -3'
miRNA:   3'- agaCCGGCGGuCCGC-CCCGCaCCGcg -5'
13103 3' -66 NC_003401.1 + 19652 0.75 0.119684
Target:  5'- cCUGgaGCUGCCGGGCGGGGUgacaGUGGacaGCc -3'
miRNA:   3'- aGAC--CGGCGGUCCGCCCCG----CACCg--CG- -5'
13103 3' -66 NC_003401.1 + 20594 0.67 0.385984
Target:  5'- --cGGCCGCCAacccccaacGCGGGGCc--GCGCc -3'
miRNA:   3'- agaCCGGCGGUc--------CGCCCCGcacCGCG- -5'
13103 3' -66 NC_003401.1 + 21334 0.69 0.273961
Target:  5'- cCUGcGCCGCCaaaaAGGCGcGGGaccCGUGcGCGUc -3'
miRNA:   3'- aGAC-CGGCGG----UCCGC-CCC---GCAC-CGCG- -5'
13103 3' -66 NC_003401.1 + 21820 0.66 0.418337
Target:  5'- --aGGCaGCuUGGGCGGGGCcgaccacaGGCGCg -3'
miRNA:   3'- agaCCGgCG-GUCCGCCCCGca------CCGCG- -5'
13103 3' -66 NC_003401.1 + 22778 0.7 0.256103
Target:  5'- -gUGGCCGagCAcGGCGa-GCGUGGCGCu -3'
miRNA:   3'- agACCGGCg-GU-CCGCccCGCACCGCG- -5'
13103 3' -66 NC_003401.1 + 23483 0.69 0.292804
Target:  5'- cUCgGGgaGCCGGGUGcaGGGCGggGGCGUg -3'
miRNA:   3'- -AGaCCggCGGUCCGC--CCCGCa-CCGCG- -5'
13103 3' -66 NC_003401.1 + 23765 0.68 0.340655
Target:  5'- uUUUGGCCugcuGCCAGGUGGcagcCGUccaGGCGCg -3'
miRNA:   3'- -AGACCGG----CGGUCCGCCcc--GCA---CCGCG- -5'
13103 3' -66 NC_003401.1 + 27600 0.67 0.397119
Target:  5'- --gGGCacgCGCCAGcGCGGGGgGcagaggcugaaggaaUGGCGUu -3'
miRNA:   3'- agaCCG---GCGGUC-CGCCCCgC---------------ACCGCG- -5'
13103 3' -66 NC_003401.1 + 27683 0.69 0.273961
Target:  5'- --cGGCUGCguGGCGagaccGGCGUGGUGg -3'
miRNA:   3'- agaCCGGCGguCCGCc----CCGCACCGCg -5'
13103 3' -66 NC_003401.1 + 27708 0.67 0.385984
Target:  5'- --nGGCuCGCCGGcuGCGGGGgCgGUGGuUGCg -3'
miRNA:   3'- agaCCG-GCGGUC--CGCCCC-G-CACC-GCG- -5'
13103 3' -66 NC_003401.1 + 30361 0.66 0.43512
Target:  5'- gUUGaGgCGCC-GGUGGGGCGaucugGGUGUg -3'
miRNA:   3'- aGAC-CgGCGGuCCGCCCCGCa----CCGCG- -5'
13103 3' -66 NC_003401.1 + 32319 0.67 0.370439
Target:  5'- -gUGcCCGCCuaaaaGGGCGGuGGUgccgggcgGUGGCGCg -3'
miRNA:   3'- agACcGGCGG-----UCCGCC-CCG--------CACCGCG- -5'
13103 3' -66 NC_003401.1 + 43318 0.66 0.443656
Target:  5'- gCUGGUCGCC-GGCGuucccgugaGGCG-GGcCGCg -3'
miRNA:   3'- aGACCGGCGGuCCGCc--------CCGCaCC-GCG- -5'
13103 3' -66 NC_003401.1 + 69737 0.67 0.370439
Target:  5'- --cGGCCGCCAuGCGGGacucuggaGUGuUGGCGa -3'
miRNA:   3'- agaCCGGCGGUcCGCCC--------CGC-ACCGCg -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.