miRNA display CGI


Results 1 - 20 of 63 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
15665 3' -57 NC_004065.1 + 222647 0.66 0.934128
Target:  5'- gACCCGUCCACguGgCGCGcaguucaACCggaUCg -3'
miRNA:   3'- gUGGGCAGGUGguCgGUGCa------UGGa--AG- -5'
15665 3' -57 NC_004065.1 + 220561 0.67 0.892956
Target:  5'- aGCCgGUCUccucGCCAacgagacguguuucGCCACGUGCCg-- -3'
miRNA:   3'- gUGGgCAGG----UGGU--------------CGGUGCAUGGaag -5'
15665 3' -57 NC_004065.1 + 209731 0.68 0.852878
Target:  5'- uCACCaaaGUCCACCacacgAGCgCACGUAUCa-- -3'
miRNA:   3'- -GUGGg--CAGGUGG-----UCG-GUGCAUGGaag -5'
15665 3' -57 NC_004065.1 + 207971 0.66 0.938843
Target:  5'- uGCUCGggagCCGCCAGCuuCAUG-AUCUUCa -3'
miRNA:   3'- gUGGGCa---GGUGGUCG--GUGCaUGGAAG- -5'
15665 3' -57 NC_004065.1 + 198950 0.74 0.545214
Target:  5'- cCGCCCGUggCCACCAGCCGCGagaagGCg-UCu -3'
miRNA:   3'- -GUGGGCA--GGUGGUCGGUGCa----UGgaAG- -5'
15665 3' -57 NC_004065.1 + 198852 0.72 0.653422
Target:  5'- uGCCCGaUCCGCaCA-CCACGUACCa-- -3'
miRNA:   3'- gUGGGC-AGGUG-GUcGGUGCAUGGaag -5'
15665 3' -57 NC_004065.1 + 189152 0.71 0.721827
Target:  5'- gACCCG-CgCACCuGCCGCGUauGCCUg- -3'
miRNA:   3'- gUGGGCaG-GUGGuCGGUGCA--UGGAag -5'
15665 3' -57 NC_004065.1 + 187630 0.68 0.867685
Target:  5'- -uUCCGUCaucaCAUCGGCCACGUACa-UCa -3'
miRNA:   3'- guGGGCAG----GUGGUCGGUGCAUGgaAG- -5'
15665 3' -57 NC_004065.1 + 169090 0.68 0.837323
Target:  5'- aUACCCGUCUucUUGGCCACGU-CCUg- -3'
miRNA:   3'- -GUGGGCAGGu-GGUCGGUGCAuGGAag -5'
15665 3' -57 NC_004065.1 + 163579 0.67 0.887734
Target:  5'- gCugCCGUCCGCCaccagAGUCAagaggcuggcgccCGUGCCgUCg -3'
miRNA:   3'- -GugGGCAGGUGG-----UCGGU-------------GCAUGGaAG- -5'
15665 3' -57 NC_004065.1 + 162729 0.78 0.330908
Target:  5'- -cCUCGUCCugGCCGGCCGCGcgagGCCUUCg -3'
miRNA:   3'- guGGGCAGG--UGGUCGGUGCa---UGGAAG- -5'
15665 3' -57 NC_004065.1 + 162080 0.68 0.837323
Target:  5'- -cCCCGUCCGCCcGCC-CGU-CCgUCc -3'
miRNA:   3'- guGGGCAGGUGGuCGGuGCAuGGaAG- -5'
15665 3' -57 NC_004065.1 + 152293 0.69 0.80417
Target:  5'- uCGCCCaGUCCugCGGCgGCGgcggUGCCggCg -3'
miRNA:   3'- -GUGGG-CAGGugGUCGgUGC----AUGGaaG- -5'
15665 3' -57 NC_004065.1 + 150574 0.67 0.89488
Target:  5'- gUACCUGUCguCC-GCCGCGUACgUg- -3'
miRNA:   3'- -GUGGGCAGguGGuCGGUGCAUGgAag -5'
15665 3' -57 NC_004065.1 + 150180 0.67 0.89488
Target:  5'- aGCCCGccUCCuGCCgAGCCGCGcGCCccUCa -3'
miRNA:   3'- gUGGGC--AGG-UGG-UCGGUGCaUGGa-AG- -5'
15665 3' -57 NC_004065.1 + 147140 0.67 0.887734
Target:  5'- -cCCCGUCUGCCgcaucaccguGGCCaugagcgGCGUGCuCUUCg -3'
miRNA:   3'- guGGGCAGGUGG----------UCGG-------UGCAUG-GAAG- -5'
15665 3' -57 NC_004065.1 + 139045 0.67 0.89488
Target:  5'- -gUCCGUCCGCCAGagguuuuccgaCCgcaGCGUGCCcgUCu -3'
miRNA:   3'- guGGGCAGGUGGUC-----------GG---UGCAUGGa-AG- -5'
15665 3' -57 NC_004065.1 + 138805 0.66 0.918643
Target:  5'- uCGCCgucaGUCCGCC-GCCGCucGUGCCg-- -3'
miRNA:   3'- -GUGGg---CAGGUGGuCGGUG--CAUGGaag -5'
15665 3' -57 NC_004065.1 + 138546 0.67 0.913033
Target:  5'- gGCCgCGUCCA-CGGCCucccUGUACCUg- -3'
miRNA:   3'- gUGG-GCAGGUgGUCGGu---GCAUGGAag -5'
15665 3' -57 NC_004065.1 + 137906 0.68 0.867685
Target:  5'- aGCCCuUCCaacgcaaccuGCUAGcCCACGUGCuCUUCu -3'
miRNA:   3'- gUGGGcAGG----------UGGUC-GGUGCAUG-GAAG- -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.