miRNA display CGI


Results 1 - 20 of 20 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
28444 5' -62.3 NC_005946.1 + 23806 0.66 0.558046
Target:  5'- -gCCCAGCGUggucuggagggaCUGCAGgCCCAGGa-- -3'
miRNA:   3'- ggGGGUCGCA------------GGCGUUgGGGUCCgac -5'
28444 5' -62.3 NC_005946.1 + 82815 0.66 0.519109
Target:  5'- aCCUCCAcGUGUaCgGCAggGCCgCCAGGCa- -3'
miRNA:   3'- -GGGGGU-CGCA-GgCGU--UGG-GGUCCGac -5'
28444 5' -62.3 NC_005946.1 + 62017 0.66 0.509538
Target:  5'- cCUCCCGGCuUCgGCAagaccuucauGCCCUGGaGCUGu -3'
miRNA:   3'- -GGGGGUCGcAGgCGU----------UGGGGUC-CGAC- -5'
28444 5' -62.3 NC_005946.1 + 41867 0.67 0.500041
Target:  5'- aCCCCCAuUGUuuccCUGCGGCCCCuGGUc- -3'
miRNA:   3'- -GGGGGUcGCA----GGCGUUGGGGuCCGac -5'
28444 5' -62.3 NC_005946.1 + 82647 0.67 0.500041
Target:  5'- cCUCCCAcuuuGCaGUCC-CAGCCUcugaCAGGCUGg -3'
miRNA:   3'- -GGGGGU----CG-CAGGcGUUGGG----GUCCGAC- -5'
28444 5' -62.3 NC_005946.1 + 3845 0.67 0.490625
Target:  5'- aUCCCCGGCGUCUGCAGguaCUuuGGUa- -3'
miRNA:   3'- -GGGGGUCGCAGGCGUUg--GGguCCGac -5'
28444 5' -62.3 NC_005946.1 + 67605 0.67 0.490625
Target:  5'- uUCCCCAGCcugauccacCCGCAAgugggaagguCCCUgAGGCUGg -3'
miRNA:   3'- -GGGGGUCGca-------GGCGUU----------GGGG-UCCGAC- -5'
28444 5' -62.3 NC_005946.1 + 3253 0.67 0.48129
Target:  5'- aCCCCAGgcaCCGCAACUcuuUCAGGCUc -3'
miRNA:   3'- gGGGGUCgcaGGCGUUGG---GGUCCGAc -5'
28444 5' -62.3 NC_005946.1 + 73561 0.67 0.461977
Target:  5'- cUCCUCAuggagcagcacGCGUCCGCccccgagGACCCCGuGGCg- -3'
miRNA:   3'- -GGGGGU-----------CGCAGGCG-------UUGGGGU-CCGac -5'
28444 5' -62.3 NC_005946.1 + 24044 0.68 0.435996
Target:  5'- uUCCCCAcCGUCCGaCGuCCCUGGGUa- -3'
miRNA:   3'- -GGGGGUcGCAGGC-GUuGGGGUCCGac -5'
28444 5' -62.3 NC_005946.1 + 74027 0.68 0.427234
Target:  5'- aCCCCaAGgGgcuggagaCUGUuuACCCCAGGCUGg -3'
miRNA:   3'- gGGGG-UCgCa-------GGCGu-UGGGGUCCGAC- -5'
28444 5' -62.3 NC_005946.1 + 23050 0.68 0.410027
Target:  5'- gUCCCGGagGUCCGCGagACCCCagaGGGCc- -3'
miRNA:   3'- gGGGGUCg-CAGGCGU--UGGGG---UCCGac -5'
28444 5' -62.3 NC_005946.1 + 95319 0.69 0.393259
Target:  5'- uCCCCCGGCGcCCGUggacgaGGCCaCCagagAGGCg- -3'
miRNA:   3'- -GGGGGUCGCaGGCG------UUGG-GG----UCCGac -5'
28444 5' -62.3 NC_005946.1 + 75352 0.69 0.390782
Target:  5'- aCCCCGGUGgacccguaccCCGCGucACCCCugucgguagaguccAGGCUGu -3'
miRNA:   3'- gGGGGUCGCa---------GGCGU--UGGGG--------------UCCGAC- -5'
28444 5' -62.3 NC_005946.1 + 75019 0.69 0.385043
Target:  5'- gCCgCCAGguCGUaacCCGCGGCUCCAGcGCUGc -3'
miRNA:   3'- -GGgGGUC--GCA---GGCGUUGGGGUC-CGAC- -5'
28444 5' -62.3 NC_005946.1 + 82948 0.69 0.383414
Target:  5'- gCCCCGGCGgggauggaaaaCGCuuACUCCAGGCa- -3'
miRNA:   3'- gGGGGUCGCag---------GCGu-UGGGGUCCGac -5'
28444 5' -62.3 NC_005946.1 + 31631 0.7 0.330795
Target:  5'- uCCCUCAGCGccgaUCCGCAagaguaaaccGCUCCAGGg-- -3'
miRNA:   3'- -GGGGGUCGC----AGGCGU----------UGGGGUCCgac -5'
28444 5' -62.3 NC_005946.1 + 67737 0.72 0.234134
Target:  5'- aCCUCCAG-GUCCagggccaccacgGUGACCUCGGGCUGa -3'
miRNA:   3'- -GGGGGUCgCAGG------------CGUUGGGGUCCGAC- -5'
28444 5' -62.3 NC_005946.1 + 104385 0.75 0.150601
Target:  5'- cUCCCaCGGCGUCCGCGgcgGCCCUcaGGGCc- -3'
miRNA:   3'- -GGGG-GUCGCAGGCGU---UGGGG--UCCGac -5'
28444 5' -62.3 NC_005946.1 + 94821 1.1 0.00045
Target:  5'- aCCCCCAGCGUCCGCAACCCCAGGCUGa -3'
miRNA:   3'- -GGGGGUCGCAGGCGUUGGGGUCCGAC- -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.