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
9179 5' -54.8 NC_002512.2 + 205971 0.66 0.979269
Target:  5'- cGCGuacaGGUUCguCGCgUCGUUGCACu -3'
miRNA:   3'- -UGCuagaCCAAGguGCG-AGCAGCGUG- -5'
9179 5' -54.8 NC_002512.2 + 117327 0.66 0.979269
Target:  5'- gGCGGguucccgCUGGcgCCgGCGUUC-UCGCACg -3'
miRNA:   3'- -UGCUa------GACCaaGG-UGCGAGcAGCGUG- -5'
9179 5' -54.8 NC_002512.2 + 2264 0.66 0.978604
Target:  5'- uACGGUCUGGUUgUCACGCagccuaaacguuucUCGguucgcUCGCAg -3'
miRNA:   3'- -UGCUAGACCAA-GGUGCG--------------AGC------AGCGUg -5'
9179 5' -54.8 NC_002512.2 + 87790 0.66 0.97699
Target:  5'- -gGGUCgguaccgGG-UCCGCGUUCgGUUGCACc -3'
miRNA:   3'- ugCUAGa------CCaAGGUGCGAG-CAGCGUG- -5'
9179 5' -54.8 NC_002512.2 + 6445 0.66 0.97699
Target:  5'- aACGAcguUCUGGUggucagcaaauaUCU-CGCUCGagGCGCa -3'
miRNA:   3'- -UGCU---AGACCA------------AGGuGCGAGCagCGUG- -5'
9179 5' -54.8 NC_002512.2 + 112153 0.66 0.974532
Target:  5'- gGCGGUCgacGGcgagCCgGCGCUCGagccCGCACg -3'
miRNA:   3'- -UGCUAGa--CCaa--GG-UGCGAGCa---GCGUG- -5'
9179 5' -54.8 NC_002512.2 + 206154 0.66 0.971887
Target:  5'- gACGGUCauggccgugUGGaaCCGCGuCUCGUCcugggGCACg -3'
miRNA:   3'- -UGCUAG---------ACCaaGGUGC-GAGCAG-----CGUG- -5'
9179 5' -54.8 NC_002512.2 + 145081 0.66 0.971887
Target:  5'- -aGAUCgacGaGUUCCGCGaggCGUCGCGg -3'
miRNA:   3'- ugCUAGa--C-CAAGGUGCga-GCAGCGUg -5'
9179 5' -54.8 NC_002512.2 + 170492 0.66 0.969051
Target:  5'- uCGAUCUccaGcgCCACGCacaUGUCGCGCa -3'
miRNA:   3'- uGCUAGAc--CaaGGUGCGa--GCAGCGUG- -5'
9179 5' -54.8 NC_002512.2 + 192257 0.66 0.969051
Target:  5'- cCGAUCUGG-UCUACGCgag-CGUGCu -3'
miRNA:   3'- uGCUAGACCaAGGUGCGagcaGCGUG- -5'
9179 5' -54.8 NC_002512.2 + 182597 0.66 0.969051
Target:  5'- cGCGAUCgcccggcaGUUCCGCagcgGCUCGguggcCGCGCg -3'
miRNA:   3'- -UGCUAGac------CAAGGUG----CGAGCa----GCGUG- -5'
9179 5' -54.8 NC_002512.2 + 82120 0.66 0.966016
Target:  5'- cGCGAgUCgGGacggCCGCGCUgG-CGCACg -3'
miRNA:   3'- -UGCU-AGaCCaa--GGUGCGAgCaGCGUG- -5'
9179 5' -54.8 NC_002512.2 + 130308 0.67 0.955671
Target:  5'- gAUGAUgUGcg-CCACGC-CGUCGUACc -3'
miRNA:   3'- -UGCUAgACcaaGGUGCGaGCAGCGUG- -5'
9179 5' -54.8 NC_002512.2 + 154968 0.67 0.951793
Target:  5'- cGCGAUCcgccuccgGGccUCCGCGUcCGUCGCGa -3'
miRNA:   3'- -UGCUAGa-------CCa-AGGUGCGaGCAGCGUg -5'
9179 5' -54.8 NC_002512.2 + 140235 0.68 0.938821
Target:  5'- cGCG-UCUcGUUCCAC-CUCGUCGUcuGCg -3'
miRNA:   3'- -UGCuAGAcCAAGGUGcGAGCAGCG--UG- -5'
9179 5' -54.8 NC_002512.2 + 176137 0.68 0.938821
Target:  5'- cCGuAUCUcGaUCCGCGgaCGUCGCGCa -3'
miRNA:   3'- uGC-UAGAcCaAGGUGCgaGCAGCGUG- -5'
9179 5' -54.8 NC_002512.2 + 36629 0.69 0.912637
Target:  5'- gAUGA-CUGGUUUCugGCUgGUgGUGCg -3'
miRNA:   3'- -UGCUaGACCAAGGugCGAgCAgCGUG- -5'
9179 5' -54.8 NC_002512.2 + 204231 0.69 0.906713
Target:  5'- aGCG-UCUGGUcUCCaACGCUCG-CaGCGCc -3'
miRNA:   3'- -UGCuAGACCA-AGG-UGCGAGCaG-CGUG- -5'
9179 5' -54.8 NC_002512.2 + 151079 0.7 0.880786
Target:  5'- uGCGGUCUcGG-UCCGCGC-CGgagacgUGCACg -3'
miRNA:   3'- -UGCUAGA-CCaAGGUGCGaGCa-----GCGUG- -5'
9179 5' -54.8 NC_002512.2 + 180696 0.7 0.866533
Target:  5'- cCGGUuguaCUGGaUCC--GCUCGUCGCACa -3'
miRNA:   3'- uGCUA----GACCaAGGugCGAGCAGCGUG- -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.