miRNA display CGI


Results 1 - 20 of 41 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
25657 3' -59.9 NC_005337.1 + 2364 0.66 0.710667
Target:  5'- uCCG-CGCCAGGuGCUCUAucGGGUgCGUCg -3'
miRNA:   3'- uGGCaGCGGUUC-CGGGGU--CUCA-GCAG- -5'
25657 3' -59.9 NC_005337.1 + 2868 0.69 0.554751
Target:  5'- aGCCGcgCGCCAGcgggaacacgaucacGGCCCCGcGGUCGa- -3'
miRNA:   3'- -UGGCa-GCGGUU---------------CCGGGGUcUCAGCag -5'
25657 3' -59.9 NC_005337.1 + 6008 0.69 0.540997
Target:  5'- gACCGcCGCgugCAGcGGCguccgCCCAGAGUUGUCg -3'
miRNA:   3'- -UGGCaGCG---GUU-CCG-----GGGUCUCAGCAG- -5'
25657 3' -59.9 NC_005337.1 + 10634 0.66 0.720457
Target:  5'- gACCGUcgCGCCGcugcAGaGCUCCAcGAG-CGUCa -3'
miRNA:   3'- -UGGCA--GCGGU----UC-CGGGGU-CUCaGCAG- -5'
25657 3' -59.9 NC_005337.1 + 11394 0.71 0.437982
Target:  5'- gGCUGaugCGCCAGGGCCCCGG-GUUc-- -3'
miRNA:   3'- -UGGCa--GCGGUUCCGGGGUCuCAGcag -5'
25657 3' -59.9 NC_005337.1 + 11521 0.68 0.58055
Target:  5'- cGCCGggcagCGCaggguGGCCgCCAG-GUCGUCc -3'
miRNA:   3'- -UGGCa----GCGguu--CCGG-GGUCuCAGCAG- -5'
25657 3' -59.9 NC_005337.1 + 11753 0.7 0.483534
Target:  5'- cGCCG-CGCCAGGGCCagCAGcGagGUCu -3'
miRNA:   3'- -UGGCaGCGGUUCCGGg-GUCuCagCAG- -5'
25657 3' -59.9 NC_005337.1 + 14257 0.66 0.68991
Target:  5'- uACCGUCGCaugcAGGCCCUcccuuacgauggcGGAGUgGa- -3'
miRNA:   3'- -UGGCAGCGgu--UCCGGGG-------------UCUCAgCag -5'
25657 3' -59.9 NC_005337.1 + 20579 0.67 0.67095
Target:  5'- uCCGUCuCCAuGGgCUCAGGGUCGg- -3'
miRNA:   3'- uGGCAGcGGUuCCgGGGUCUCAGCag -5'
25657 3' -59.9 NC_005337.1 + 21071 0.75 0.240548
Target:  5'- cGCCGUaGUCGuGGUCCCGGAcGUCGUCg -3'
miRNA:   3'- -UGGCAgCGGUuCCGGGGUCU-CAGCAG- -5'
25657 3' -59.9 NC_005337.1 + 25037 0.69 0.531243
Target:  5'- cGCCGUCGCCAcGGGCCCuccucgCAGA--CGUa -3'
miRNA:   3'- -UGGCAGCGGU-UCCGGG------GUCUcaGCAg -5'
25657 3' -59.9 NC_005337.1 + 33827 0.69 0.549826
Target:  5'- uCCGUCGCgAAGGgCCguGuuuaugaAGUCGUCc -3'
miRNA:   3'- uGGCAGCGgUUCCgGGguC-------UCAGCAG- -5'
25657 3' -59.9 NC_005337.1 + 39192 0.66 0.730173
Target:  5'- gGCCGUCGCCGcGGGCuacgcggaCCCGGAcccgggCGUg -3'
miRNA:   3'- -UGGCAGCGGU-UCCG--------GGGUCUca----GCAg -5'
25657 3' -59.9 NC_005337.1 + 44425 0.69 0.502387
Target:  5'- uGCCGgagCGCCGGGaGCCgccgCCGGAGgaCGUCg -3'
miRNA:   3'- -UGGCa--GCGGUUC-CGG----GGUCUCa-GCAG- -5'
25657 3' -59.9 NC_005337.1 + 50414 1.09 0.001061
Target:  5'- cACCGUCGCCAAGGCCCCAGAGUCGUCg -3'
miRNA:   3'- -UGGCAGCGGUUCCGGGGUCUCAGCAG- -5'
25657 3' -59.9 NC_005337.1 + 59875 0.66 0.720457
Target:  5'- gGCgGU-GCCAGaGCCCCGGAGauguaCGUCu -3'
miRNA:   3'- -UGgCAgCGGUUcCGGGGUCUCa----GCAG- -5'
25657 3' -59.9 NC_005337.1 + 62407 0.69 0.511932
Target:  5'- cACCGcCGCCuc-GCCCguGGcGUCGUCg -3'
miRNA:   3'- -UGGCaGCGGuucCGGGguCU-CAGCAG- -5'
25657 3' -59.9 NC_005337.1 + 63489 0.68 0.610611
Target:  5'- aGCCGcCGCau-GGCCUCcGAGUCGg- -3'
miRNA:   3'- -UGGCaGCGguuCCGGGGuCUCAGCag -5'
25657 3' -59.9 NC_005337.1 + 66547 0.66 0.720457
Target:  5'- cGCCG-CGCCGccGGUCCCGGAGgacgacggGUCc -3'
miRNA:   3'- -UGGCaGCGGUu-CCGGGGUCUCag------CAG- -5'
25657 3' -59.9 NC_005337.1 + 67404 0.67 0.633762
Target:  5'- cGCCGUUGCCGAaguccacGGCCagcaccuugcgcuucUCGGGGUUGUUg -3'
miRNA:   3'- -UGGCAGCGGUU-------CCGG---------------GGUCUCAGCAG- -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.