miRNA display CGI


Results 1 - 20 of 26 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
28938 3' -57.9 NC_006146.1 + 24092 0.66 0.831573
Target:  5'- gGCCUCgccugGGaCGCgggUCGAGgGCGGCUg -3'
miRNA:   3'- gUGGAGa----CCaGCG---AGUUCgCGUCGGu -5'
28938 3' -57.9 NC_006146.1 + 43866 0.66 0.831573
Target:  5'- gGCCUCUGGUgacaCGCgcagCGuguuGCGCAGgCu -3'
miRNA:   3'- gUGGAGACCA----GCGa---GUu---CGCGUCgGu -5'
28938 3' -57.9 NC_006146.1 + 48716 0.66 0.831573
Target:  5'- cCGCuCUCUGGccuccCGCUCGcGCaGCAGCUc -3'
miRNA:   3'- -GUG-GAGACCa----GCGAGUuCG-CGUCGGu -5'
28938 3' -57.9 NC_006146.1 + 98323 0.66 0.814669
Target:  5'- gGCCgUCUGGcacgggGC-CGGGCGCGGCCc -3'
miRNA:   3'- gUGG-AGACCag----CGaGUUCGCGUCGGu -5'
28938 3' -57.9 NC_006146.1 + 103740 0.66 0.814669
Target:  5'- -uCCUCccGGacgccgCGCUCAGGaGCGGCCAg -3'
miRNA:   3'- guGGAGa-CCa-----GCGAGUUCgCGUCGGU- -5'
28938 3' -57.9 NC_006146.1 + 153012 0.67 0.805969
Target:  5'- gGCUUCUGG-CGCUCugaUGCuGCCAg -3'
miRNA:   3'- gUGGAGACCaGCGAGuucGCGuCGGU- -5'
28938 3' -57.9 NC_006146.1 + 106147 0.67 0.805969
Target:  5'- aCACCUggCUGGaCGCUCGcaUGCAGgCCAu -3'
miRNA:   3'- -GUGGA--GACCaGCGAGUucGCGUC-GGU- -5'
28938 3' -57.9 NC_006146.1 + 143778 0.67 0.805969
Target:  5'- gGCUUCUGG-CGCUCugaUGCuGCCAg -3'
miRNA:   3'- gUGGAGACCaGCGAGuucGCGuCGGU- -5'
28938 3' -57.9 NC_006146.1 + 146856 0.67 0.805969
Target:  5'- gGCUUCUGG-CGCUCugaUGCuGCCAg -3'
miRNA:   3'- gUGGAGACCaGCGAGuucGCGuCGGU- -5'
28938 3' -57.9 NC_006146.1 + 69891 0.67 0.805969
Target:  5'- gGCCg-UGGUC-CUCAucgGGCGCAGCa- -3'
miRNA:   3'- gUGGagACCAGcGAGU---UCGCGUCGgu -5'
28938 3' -57.9 NC_006146.1 + 94005 0.67 0.805969
Target:  5'- uCACCUCUGGcUC-C-CAcGUGCGGCCc -3'
miRNA:   3'- -GUGGAGACC-AGcGaGUuCGCGUCGGu -5'
28938 3' -57.9 NC_006146.1 + 149934 0.67 0.805969
Target:  5'- gGCUUCUGG-CGCUCugaUGCuGCCAg -3'
miRNA:   3'- gUGGAGACCaGCGAGuucGCGuCGGU- -5'
28938 3' -57.9 NC_006146.1 + 156090 0.67 0.805969
Target:  5'- gGCUUCUGG-CGCUCugaUGCuGCCAg -3'
miRNA:   3'- gUGGAGACCaGCGAGuucGCGuCGGU- -5'
28938 3' -57.9 NC_006146.1 + 45556 0.67 0.788112
Target:  5'- cCGCC-CUGGccucCGCgaggagCucGCGCAGCCAg -3'
miRNA:   3'- -GUGGaGACCa---GCGa-----GuuCGCGUCGGU- -5'
28938 3' -57.9 NC_006146.1 + 8550 0.67 0.778972
Target:  5'- cCAUCUCcaaGG-CGCUCAuAGCuGCAGCCc -3'
miRNA:   3'- -GUGGAGa--CCaGCGAGU-UCG-CGUCGGu -5'
28938 3' -57.9 NC_006146.1 + 56304 0.67 0.769702
Target:  5'- cCGCCUCgaGGUgGCcCAGGCcGUAGCUg -3'
miRNA:   3'- -GUGGAGa-CCAgCGaGUUCG-CGUCGGu -5'
28938 3' -57.9 NC_006146.1 + 41606 0.67 0.760312
Target:  5'- gGCCcggggggCUGGUcCGCUgggccCGGGCGCAGaCCAg -3'
miRNA:   3'- gUGGa------GACCA-GCGA-----GUUCGCGUC-GGU- -5'
28938 3' -57.9 NC_006146.1 + 115389 0.68 0.750811
Target:  5'- gGCC-CUGGcCGCUCGcgugcaggaggcAGCugGCGGCCGg -3'
miRNA:   3'- gUGGaGACCaGCGAGU------------UCG--CGUCGGU- -5'
28938 3' -57.9 NC_006146.1 + 97080 0.68 0.74794
Target:  5'- aCACCUUcaaguugacacccgUGGUCGauaaUCAGGgGCAGCg- -3'
miRNA:   3'- -GUGGAG--------------ACCAGCg---AGUUCgCGUCGgu -5'
28938 3' -57.9 NC_006146.1 + 20687 0.69 0.681927
Target:  5'- gACCUcCUGGcUgGC-CAAGCGCAagGCCAu -3'
miRNA:   3'- gUGGA-GACC-AgCGaGUUCGCGU--CGGU- -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.