miRNA display CGI


Results 1 - 20 of 80 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
18764 3' -66 NC_004683.1 + 54978 0.66 0.28861
Target:  5'- aCGCacaCCGCagCGUCAucgagcgcGUCGGCgGCCUCGa -3'
miRNA:   3'- -GCG---GGCG--GCGGU--------CAGCCGgCGGAGCc -5'
18764 3' -66 NC_004683.1 + 53637 0.66 0.262919
Target:  5'- gGCCCGCCGCgAccUGGCCGCg---- -3'
miRNA:   3'- gCGGGCGGCGgUcaGCCGGCGgagcc -5'
18764 3' -66 NC_004683.1 + 53585 0.7 0.149601
Target:  5'- aCGCCgGCCGCaccGcCGGCCGCgUCu- -3'
miRNA:   3'- -GCGGgCGGCGgu-CaGCCGGCGgAGcc -5'
18764 3' -66 NC_004683.1 + 52666 0.72 0.104399
Target:  5'- aCGCaUCGCCGCCAGUauggaGGaCCGCCcCGa -3'
miRNA:   3'- -GCG-GGCGGCGGUCAg----CC-GGCGGaGCc -5'
18764 3' -66 NC_004683.1 + 52604 0.66 0.256793
Target:  5'- -uCCUugGCCGCCucGUCGGCCGCgaUCGc -3'
miRNA:   3'- gcGGG--CGGCGGu-CAGCCGGCGg-AGCc -5'
18764 3' -66 NC_004683.1 + 52418 0.67 0.227906
Target:  5'- gCGaguaCCGCCgaacGCCGGaaUCGGCCGuCCUUGa -3'
miRNA:   3'- -GCg---GGCGG----CGGUC--AGCCGGC-GGAGCc -5'
18764 3' -66 NC_004683.1 + 52215 0.81 0.020947
Target:  5'- aGgCCGUCGUCGGUCGGguCCGCCUCGGc -3'
miRNA:   3'- gCgGGCGGCGGUCAGCC--GGCGGAGCC- -5'
18764 3' -66 NC_004683.1 + 51931 0.71 0.121942
Target:  5'- aGCUCGa-GCgCGGUCGGCCGCCgugCGa -3'
miRNA:   3'- gCGGGCggCG-GUCAGCCGGCGGa--GCc -5'
18764 3' -66 NC_004683.1 + 51782 0.68 0.211927
Target:  5'- -uCCUGCaggGCCuGcUCGGCUGCCUCGa -3'
miRNA:   3'- gcGGGCGg--CGGuC-AGCCGGCGGAGCc -5'
18764 3' -66 NC_004683.1 + 51627 0.7 0.131709
Target:  5'- aGCCCGCCcccgaGCCcgcGGUCGcGCUGCCggGGu -3'
miRNA:   3'- gCGGGCGG-----CGG---UCAGC-CGGCGGagCC- -5'
18764 3' -66 NC_004683.1 + 51226 0.69 0.165477
Target:  5'- cCGCCacgugGCCGuCCAGUCGGCCuugcgGCCcuUCGc -3'
miRNA:   3'- -GCGGg----CGGC-GGUCAGCCGG-----CGG--AGCc -5'
18764 3' -66 NC_004683.1 + 47105 0.66 0.269162
Target:  5'- gGCCCGuuGgCCAucaucGUgCGcGCCGgCUCGGu -3'
miRNA:   3'- gCGGGCggC-GGU-----CA-GC-CGGCgGAGCC- -5'
18764 3' -66 NC_004683.1 + 47015 0.66 0.259229
Target:  5'- gCGCgUGCCGCUccaccgucgugcacGUCGGCagCGCCUCGcGg -3'
miRNA:   3'- -GCGgGCGGCGGu-------------CAGCCG--GCGGAGC-C- -5'
18764 3' -66 NC_004683.1 + 46401 0.74 0.070387
Target:  5'- uGCCCGCaCGUCGGgcacaCCGCCUCGGg -3'
miRNA:   3'- gCGGGCG-GCGGUCagcc-GGCGGAGCC- -5'
18764 3' -66 NC_004683.1 + 46099 0.68 0.210896
Target:  5'- cCGCUCgGCCGCCGcGUCGGgcagcacUCGCCgaacagaUCGGg -3'
miRNA:   3'- -GCGGG-CGGCGGU-CAGCC-------GGCGG-------AGCC- -5'
18764 3' -66 NC_004683.1 + 45490 0.66 0.250785
Target:  5'- cCGCCCaaugcauCCGCUGGUUGGCgGUCagGGg -3'
miRNA:   3'- -GCGGGc------GGCGGUCAGCCGgCGGagCC- -5'
18764 3' -66 NC_004683.1 + 44850 0.7 0.142193
Target:  5'- gGCCCGCCGCCGccgGGUCGUagguuuggauCUCGGc -3'
miRNA:   3'- gCGGGCGGCGGUcagCCGGCG----------GAGCC- -5'
18764 3' -66 NC_004683.1 + 44447 0.67 0.239117
Target:  5'- -uCUCGCCGUCgauguAGUCGGCCGUCggcuugaCGGu -3'
miRNA:   3'- gcGGGCGGCGG-----UCAGCCGGCGGa------GCC- -5'
18764 3' -66 NC_004683.1 + 43825 0.71 0.128376
Target:  5'- gGUgCGCUGCUgaccUCGGCCGCgCUCGGu -3'
miRNA:   3'- gCGgGCGGCGGuc--AGCCGGCG-GAGCC- -5'
18764 3' -66 NC_004683.1 + 43156 0.66 0.250785
Target:  5'- gGCCuCGCCGUCAGgauuggcgaagaUCgGGCCGgCugUCGGg -3'
miRNA:   3'- gCGG-GCGGCGGUC------------AG-CCGGCgG--AGCC- -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.