miRNA display CGI


Results 1 - 20 of 40 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
23277 3' -54.5 NC_005259.1 + 67074 0.66 0.828619
Target:  5'- --aAGGGCCagcgugACGCCGaCCUUG-GCc -3'
miRNA:   3'- gcaUCCUGGcua---UGCGGC-GGAACuCG- -5'
23277 3' -54.5 NC_005259.1 + 64422 0.67 0.766085
Target:  5'- cCGUgAGGgaucgccgacgagcuGCCGggGCGCUGCCcuugGGGCg -3'
miRNA:   3'- -GCA-UCC---------------UGGCuaUGCGGCGGaa--CUCG- -5'
23277 3' -54.5 NC_005259.1 + 63578 0.66 0.828619
Target:  5'- --cGGGAU--AUACGCCGCCU--GGCu -3'
miRNA:   3'- gcaUCCUGgcUAUGCGGCGGAacUCG- -5'
23277 3' -54.5 NC_005259.1 + 62767 0.74 0.401406
Target:  5'- uCGUGGG-CCGGaACGUCGCgcagcuugguCUUGAGCg -3'
miRNA:   3'- -GCAUCCuGGCUaUGCGGCG----------GAACUCG- -5'
23277 3' -54.5 NC_005259.1 + 59360 0.67 0.781891
Target:  5'- gGUGGGAUCGcucuugcgaAUACGCCGCaccGuGCc -3'
miRNA:   3'- gCAUCCUGGC---------UAUGCGGCGgaaCuCG- -5'
23277 3' -54.5 NC_005259.1 + 58200 0.66 0.845981
Target:  5'- cCGUGGGcuuGCCGGUGucagggucaGUgGCCUcGAGCu -3'
miRNA:   3'- -GCAUCC---UGGCUAUg--------CGgCGGAaCUCG- -5'
23277 3' -54.5 NC_005259.1 + 56307 0.66 0.819634
Target:  5'- aCGUGgccGGACCcu--CGUCGCCgucGAGCa -3'
miRNA:   3'- -GCAU---CCUGGcuauGCGGCGGaa-CUCG- -5'
23277 3' -54.5 NC_005259.1 + 56249 0.7 0.613801
Target:  5'- aCGuUGGGAUCG----GCgGCCUUGAGCg -3'
miRNA:   3'- -GC-AUCCUGGCuaugCGgCGGAACUCG- -5'
23277 3' -54.5 NC_005259.1 + 52579 0.67 0.772054
Target:  5'- ---cGGACCGGccugaGCGUCGCC--GAGCa -3'
miRNA:   3'- gcauCCUGGCUa----UGCGGCGGaaCUCG- -5'
23277 3' -54.5 NC_005259.1 + 52051 0.66 0.828619
Target:  5'- cCGUcgAGGAUCGcgACGCCGuCCUccGAcauGCg -3'
miRNA:   3'- -GCA--UCCUGGCuaUGCGGC-GGAa-CU---CG- -5'
23277 3' -54.5 NC_005259.1 + 51415 0.66 0.801104
Target:  5'- cCGaGGGGCCGGU-UGagGUCUUGGGCg -3'
miRNA:   3'- -GCaUCCUGGCUAuGCggCGGAACUCG- -5'
23277 3' -54.5 NC_005259.1 + 51235 0.74 0.401406
Target:  5'- uCGUAGGcCCGGUACGUcaCGCCgUUGcGGCu -3'
miRNA:   3'- -GCAUCCuGGCUAUGCG--GCGG-AAC-UCG- -5'
23277 3' -54.5 NC_005259.1 + 50679 0.66 0.819634
Target:  5'- gCGUcGGuGCCGAcgagGCGCUGCucgucgucgcgCUUGAGCc -3'
miRNA:   3'- -GCAuCC-UGGCUa---UGCGGCG-----------GAACUCG- -5'
23277 3' -54.5 NC_005259.1 + 48052 0.7 0.613801
Target:  5'- gGUGGccacGGCgGGUaGCGCCGCCgcgcccUGAGCg -3'
miRNA:   3'- gCAUC----CUGgCUA-UGCGGCGGa-----ACUCG- -5'
23277 3' -54.5 NC_005259.1 + 47951 0.66 0.833037
Target:  5'- aCGgcGGuGCCGAUggccgccGCGCCGCCcgcgaauaugccGGGCa -3'
miRNA:   3'- -GCauCC-UGGCUA-------UGCGGCGGaa----------CUCG- -5'
23277 3' -54.5 NC_005259.1 + 45317 0.7 0.624608
Target:  5'- cCG-AGGccgccGCCGAacugcguggccUGCGCCGCCU-GGGCc -3'
miRNA:   3'- -GCaUCC-----UGGCU-----------AUGCGGCGGAaCUCG- -5'
23277 3' -54.5 NC_005259.1 + 45016 0.68 0.731422
Target:  5'- --cGGGGCC---GCGCCGCCcugcuucaUGAGCu -3'
miRNA:   3'- gcaUCCUGGcuaUGCGGCGGa-------ACUCG- -5'
23277 3' -54.5 NC_005259.1 + 44978 0.74 0.392441
Target:  5'- cCG-AGGGCCGGUGCGaCUGCCga-GGCa -3'
miRNA:   3'- -GCaUCCUGGCUAUGC-GGCGGaacUCG- -5'
23277 3' -54.5 NC_005259.1 + 44628 0.68 0.725178
Target:  5'- cCGUAGGuugcgccuugACCGGUGcCGCCGCCcgacUcgaacgccacaccguUGGGCa -3'
miRNA:   3'- -GCAUCC----------UGGCUAU-GCGGCGG----A---------------ACUCG- -5'
23277 3' -54.5 NC_005259.1 + 43984 0.69 0.657032
Target:  5'- gGgcGGuGCCGAUggACGCUGaaacacuguCCUUGAGCg -3'
miRNA:   3'- gCauCC-UGGCUA--UGCGGC---------GGAACUCG- -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.