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
18367 3' -59 NC_004681.1 + 1414 0.66 0.619079
Target:  5'- gGCUGGaC-CGCC-CCggaaGGUGAcuuccgAGUGCa -3'
miRNA:   3'- gCGACC-GuGCGGaGGg---CCACU------UCACG- -5'
18367 3' -59 NC_004681.1 + 19412 0.66 0.619079
Target:  5'- uCGC-GGCcCGCCUCCaacaGGUGugcgcUGCg -3'
miRNA:   3'- -GCGaCCGuGCGGAGGg---CCACuuc--ACG- -5'
18367 3' -59 NC_004681.1 + 45430 0.66 0.608596
Target:  5'- cCGCcuccaUGGC-CGCC-CUCGGUGuGGUGa -3'
miRNA:   3'- -GCG-----ACCGuGCGGaGGGCCACuUCACg -5'
18367 3' -59 NC_004681.1 + 28764 0.66 0.608596
Target:  5'- uCGC-GGCG-GCgUUCCUGGcGggGUGCg -3'
miRNA:   3'- -GCGaCCGUgCG-GAGGGCCaCuuCACG- -5'
18367 3' -59 NC_004681.1 + 5801 0.66 0.577286
Target:  5'- aCGCUGGC-CGCCccaaCCUGGUacugcggcacgaGAAGcGCc -3'
miRNA:   3'- -GCGACCGuGCGGa---GGGCCA------------CUUCaCG- -5'
18367 3' -59 NC_004681.1 + 71622 0.67 0.566922
Target:  5'- aCGCUGGCAucCGCaUCCagcggauGGUGGAGUucuGCc -3'
miRNA:   3'- -GCGACCGU--GCGgAGGg------CCACUUCA---CG- -5'
18367 3' -59 NC_004681.1 + 14511 0.67 0.566922
Target:  5'- uGCUGGCGCGag-CaaGGUGAAGUc- -3'
miRNA:   3'- gCGACCGUGCggaGggCCACUUCAcg -5'
18367 3' -59 NC_004681.1 + 46768 0.67 0.556606
Target:  5'- gCGCgUGGUugGUCacCCCGGaaaacGAGGUGUa -3'
miRNA:   3'- -GCG-ACCGugCGGa-GGGCCa----CUUCACG- -5'
18367 3' -59 NC_004681.1 + 60949 0.67 0.546346
Target:  5'- uGgaGGCGUGCCUCuuGGaGAaguuccGGUGCa -3'
miRNA:   3'- gCgaCCGUGCGGAGggCCaCU------UCACG- -5'
18367 3' -59 NC_004681.1 + 49032 0.67 0.536146
Target:  5'- gCGUUGGC-CGCCg--CGGUGAAGUu- -3'
miRNA:   3'- -GCGACCGuGCGGaggGCCACUUCAcg -5'
18367 3' -59 NC_004681.1 + 34547 0.67 0.522987
Target:  5'- gCGgUGGCGCGCUUCUuCGGUGuGgacuucuucggcuuGUGCg -3'
miRNA:   3'- -GCgACCGUGCGGAGG-GCCACuU--------------CACG- -5'
18367 3' -59 NC_004681.1 + 4091 0.67 0.515953
Target:  5'- gCGCUGGguCGCUUCCUcucguGG-GAGGcaaUGCg -3'
miRNA:   3'- -GCGACCguGCGGAGGG-----CCaCUUC---ACG- -5'
18367 3' -59 NC_004681.1 + 19796 0.68 0.486265
Target:  5'- aGCU---GCGUCUCCaCGGUGAAG-GCg -3'
miRNA:   3'- gCGAccgUGCGGAGG-GCCACUUCaCG- -5'
18367 3' -59 NC_004681.1 + 32847 0.68 0.476549
Target:  5'- aCGcCUGGCACGUUcgCCuUGGUGggGUacucGCa -3'
miRNA:   3'- -GC-GACCGUGCGGa-GG-GCCACuuCA----CG- -5'
18367 3' -59 NC_004681.1 + 18195 0.68 0.465974
Target:  5'- -cCUGGaGCGCCUCCCGGcGcacccccGGGUGUa -3'
miRNA:   3'- gcGACCgUGCGGAGGGCCaC-------UUCACG- -5'
18367 3' -59 NC_004681.1 + 46922 0.68 0.457413
Target:  5'- uCGCUGGCACuaCCUa-CGGUGAGGccGCc -3'
miRNA:   3'- -GCGACCGUGc-GGAggGCCACUUCa-CG- -5'
18367 3' -59 NC_004681.1 + 64839 0.69 0.448
Target:  5'- gGaCUGGUaccuGCGCCgcgaccucaCCCagcGGUGAAGUGCu -3'
miRNA:   3'- gC-GACCG----UGCGGa--------GGG---CCACUUCACG- -5'
18367 3' -59 NC_004681.1 + 7106 0.69 0.415033
Target:  5'- aCGCUGGCAucguCGCCaUCCCcuccaaccgggaugcGGUGAuccUGCa -3'
miRNA:   3'- -GCGACCGU----GCGG-AGGG---------------CCACUuc-ACG- -5'
18367 3' -59 NC_004681.1 + 36784 0.7 0.37683
Target:  5'- cCGCUGGCcCGCCcCCCGcUGAcuAG-GCa -3'
miRNA:   3'- -GCGACCGuGCGGaGGGCcACU--UCaCG- -5'
18367 3' -59 NC_004681.1 + 9910 0.7 0.360266
Target:  5'- aGCUGGCcgACGCCUUCCcc-GAAGaUGCg -3'
miRNA:   3'- gCGACCG--UGCGGAGGGccaCUUC-ACG- -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.