miRNA display CGI


Results 1 - 20 of 35 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
18052 3' -63.2 NC_004680.1 + 8638 0.66 0.412103
Target:  5'- gUGGCCUGUucaCGCGCGGCGGcaccaUUGUUc -3'
miRNA:   3'- gGCCGGGCGg--GUGCGCCGCU-----AGCAGc -5'
18052 3' -63.2 NC_004680.1 + 7369 0.66 0.39502
Target:  5'- cUCGGCCUcauucucagcgGCCUcaucagACGCGGCGAaCGUg- -3'
miRNA:   3'- -GGCCGGG-----------CGGG------UGCGCCGCUaGCAgc -5'
18052 3' -63.2 NC_004680.1 + 48184 0.66 0.386652
Target:  5'- gCCGGCgcucaugacauCCGCCCACGCGccaaaGCGccCGUa- -3'
miRNA:   3'- -GGCCG-----------GGCGGGUGCGC-----CGCuaGCAgc -5'
18052 3' -63.2 NC_004680.1 + 35080 0.66 0.386652
Target:  5'- cCCGGCgcaaCGUCCAUGUuguuGGCGGacacUCGUCc -3'
miRNA:   3'- -GGCCGg---GCGGGUGCG----CCGCU----AGCAGc -5'
18052 3' -63.2 NC_004680.1 + 25409 0.66 0.378402
Target:  5'- gCGGCCCucGUCUACGaGGCGAUgacUGUCc -3'
miRNA:   3'- gGCCGGG--CGGGUGCgCCGCUA---GCAGc -5'
18052 3' -63.2 NC_004680.1 + 34570 0.66 0.378402
Target:  5'- cCCGGCUg---CACGUgGGCGAUCGUCa -3'
miRNA:   3'- -GGCCGGgcggGUGCG-CCGCUAGCAGc -5'
18052 3' -63.2 NC_004680.1 + 17238 0.66 0.37595
Target:  5'- gCGGCUgaUCCugGUGGCGGgaccugcggcggguUCGUCGg -3'
miRNA:   3'- gGCCGGgcGGGugCGCCGCU--------------AGCAGC- -5'
18052 3' -63.2 NC_004680.1 + 52200 0.66 0.37027
Target:  5'- gCCGGCaaGCCgACGagccaggaGGCGGauaCGUCGa -3'
miRNA:   3'- -GGCCGggCGGgUGCg-------CCGCUa--GCAGC- -5'
18052 3' -63.2 NC_004680.1 + 22225 0.67 0.362259
Target:  5'- aCCGGgagaCUGCgCGCGCGGCG-UCGg-- -3'
miRNA:   3'- -GGCCg---GGCGgGUGCGCCGCuAGCagc -5'
18052 3' -63.2 NC_004680.1 + 9806 0.67 0.359089
Target:  5'- cCCGGCCCGCCgAcacaccauucgcCGCGaacccauccacaauGCGAgaacccgcagccuUCGUCGc -3'
miRNA:   3'- -GGCCGGGCGGgU------------GCGC--------------CGCU-------------AGCAGC- -5'
18052 3' -63.2 NC_004680.1 + 27112 0.67 0.354369
Target:  5'- gCCGGCCaaCCugggguugUugGCGGCGcgccuguaGUCGUCGg -3'
miRNA:   3'- -GGCCGGgcGG--------GugCGCCGC--------UAGCAGC- -5'
18052 3' -63.2 NC_004680.1 + 826 0.67 0.354369
Target:  5'- aCGGCCagccaaacggUGCCCACGCGGauacaGcUCGUa- -3'
miRNA:   3'- gGCCGG----------GCGGGUGCGCCg----CuAGCAgc -5'
18052 3' -63.2 NC_004680.1 + 21444 0.67 0.346602
Target:  5'- gCCGGCgCCGCCaUACGUGGcCGA-CGg-- -3'
miRNA:   3'- -GGCCG-GGCGG-GUGCGCC-GCUaGCagc -5'
18052 3' -63.2 NC_004680.1 + 28157 0.67 0.331435
Target:  5'- uCgGGCCUGCauuuCCGCgaccGCGGCGGucaucugcUCGUCGu -3'
miRNA:   3'- -GgCCGGGCG----GGUG----CGCCGCU--------AGCAGC- -5'
18052 3' -63.2 NC_004680.1 + 44638 0.67 0.331435
Target:  5'- -gGGCgUCGaUCAUGCGGCGuUCGUCGg -3'
miRNA:   3'- ggCCG-GGCgGGUGCGCCGCuAGCAGC- -5'
18052 3' -63.2 NC_004680.1 + 12412 0.68 0.316761
Target:  5'- cCCGGCgCGgcaCCCgaaGCGGCGGUCGcCc -3'
miRNA:   3'- -GGCCGgGC---GGGug-CGCCGCUAGCaGc -5'
18052 3' -63.2 NC_004680.1 + 49600 0.68 0.30961
Target:  5'- -aGGCCCGCCCAcCGCcuGCauuccAUCGUCc -3'
miRNA:   3'- ggCCGGGCGGGU-GCGc-CGc----UAGCAGc -5'
18052 3' -63.2 NC_004680.1 + 30921 0.68 0.302583
Target:  5'- uCgGGCUgGCCUACG-GGUgugauGAUCGUCGu -3'
miRNA:   3'- -GgCCGGgCGGGUGCgCCG-----CUAGCAGC- -5'
18052 3' -63.2 NC_004680.1 + 43771 0.68 0.301887
Target:  5'- -aGGCCCuGUCCcguguggAUGCGGUGAUCGggUCGu -3'
miRNA:   3'- ggCCGGG-CGGG-------UGCGCCGCUAGC--AGC- -5'
18052 3' -63.2 NC_004680.1 + 22772 0.68 0.288227
Target:  5'- gUCGGCguCCGCCCcgggagaAgGCGGCcgaGUCGUCGu -3'
miRNA:   3'- -GGCCG--GGCGGG-------UgCGCCGc--UAGCAGC- -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.