miRNA display CGI


Results 1 - 20 of 36 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
16305 3' -58.3 NC_004084.1 + 19357 0.66 0.617469
Target:  5'- aGCgacCUGCugaUCGacaaCGUCCCGAUCGCa -3'
miRNA:   3'- -CGaguGAUG---AGCg---GCGGGGCUAGCGc -5'
16305 3' -58.3 NC_004084.1 + 35435 0.66 0.613213
Target:  5'- cGCUCGCgaggucgaccaggACUCGguCgGCCUCG-UCGCGa -3'
miRNA:   3'- -CGAGUGa------------UGAGC--GgCGGGGCuAGCGC- -5'
16305 3' -58.3 NC_004084.1 + 26082 0.66 0.611085
Target:  5'- uGCUCguGCUcUUCGCCugcGCugggaucaggacguuCCCGGUCGCGa -3'
miRNA:   3'- -CGAG--UGAuGAGCGG---CG---------------GGGCUAGCGC- -5'
16305 3' -58.3 NC_004084.1 + 46878 0.66 0.596217
Target:  5'- uGCgUCgGCUGC-CGCCacGCCCCGGcggCGCa -3'
miRNA:   3'- -CG-AG-UGAUGaGCGG--CGGGGCUa--GCGc -5'
16305 3' -58.3 NC_004084.1 + 31938 0.66 0.596217
Target:  5'- aGCUUGCcugggacaccguUGCU-GCCGUCUCGAUgGCGg -3'
miRNA:   3'- -CGAGUG------------AUGAgCGGCGGGGCUAgCGC- -5'
16305 3' -58.3 NC_004084.1 + 17842 0.66 0.596217
Target:  5'- aGUUCGauggugacCUCGUCGCCCgcauCGAUCGCu -3'
miRNA:   3'- -CGAGUgau-----GAGCGGCGGG----GCUAGCGc -5'
16305 3' -58.3 NC_004084.1 + 29232 0.66 0.595156
Target:  5'- uGUUCGCgggcgagUACUCGUCGCgCCCGGcUCGa- -3'
miRNA:   3'- -CGAGUG-------AUGAGCGGCG-GGGCU-AGCgc -5'
16305 3' -58.3 NC_004084.1 + 7252 0.66 0.585629
Target:  5'- --gCGCgUGCUCGgcgaCCGUCUCGAUCGCc -3'
miRNA:   3'- cgaGUG-AUGAGC----GGCGGGGCUAGCGc -5'
16305 3' -58.3 NC_004084.1 + 54100 0.66 0.575078
Target:  5'- cGCUCcggACUCGacgaCGCCCgCGAUCaccgGCGg -3'
miRNA:   3'- -CGAGugaUGAGCg---GCGGG-GCUAG----CGC- -5'
16305 3' -58.3 NC_004084.1 + 16675 0.66 0.575078
Target:  5'- -gUCGCcgg-CGUCGUCCCGAUCGUc -3'
miRNA:   3'- cgAGUGaugaGCGGCGGGGCUAGCGc -5'
16305 3' -58.3 NC_004084.1 + 10756 0.66 0.564571
Target:  5'- gGCUCGCcaguggggGCgUCGCCGaCCUCGA-CGCc -3'
miRNA:   3'- -CGAGUGa-------UG-AGCGGC-GGGGCUaGCGc -5'
16305 3' -58.3 NC_004084.1 + 42528 0.67 0.533383
Target:  5'- cGCcCGCUGCgggaaGCCGCUCgGAUCGa- -3'
miRNA:   3'- -CGaGUGAUGag---CGGCGGGgCUAGCgc -5'
16305 3' -58.3 NC_004084.1 + 16733 0.67 0.523121
Target:  5'- cGCUCGCcggucUGCaUCGCgGCCUCGAugacguuguUCGCc -3'
miRNA:   3'- -CGAGUG-----AUG-AGCGgCGGGGCU---------AGCGc -5'
16305 3' -58.3 NC_004084.1 + 57379 0.67 0.523121
Target:  5'- cCUCgGCgaACUCGagcgCGcCCCCGAUCGCGu -3'
miRNA:   3'- cGAG-UGa-UGAGCg---GC-GGGGCUAGCGC- -5'
16305 3' -58.3 NC_004084.1 + 47736 0.67 0.512935
Target:  5'- ---gGCUACccgaacggUCGCUGCCCggCGAUCGCa -3'
miRNA:   3'- cgagUGAUG--------AGCGGCGGG--GCUAGCGc -5'
16305 3' -58.3 NC_004084.1 + 27261 0.67 0.502832
Target:  5'- cGCUCgACgagauCUCGCgGUCCgaaccgcugaCGAUCGCGg -3'
miRNA:   3'- -CGAG-UGau---GAGCGgCGGG----------GCUAGCGC- -5'
16305 3' -58.3 NC_004084.1 + 2421 0.67 0.502832
Target:  5'- gGCUCGCcagcgaUGCUCGCCaucggcgaucaGCCCCuccgcGUCGCc -3'
miRNA:   3'- -CGAGUG------AUGAGCGG-----------CGGGGc----UAGCGc -5'
16305 3' -58.3 NC_004084.1 + 41118 0.67 0.502832
Target:  5'- uCUCGaugUGCUCGCCGCCaCCGc-CGCc -3'
miRNA:   3'- cGAGUg--AUGAGCGGCGG-GGCuaGCGc -5'
16305 3' -58.3 NC_004084.1 + 44584 0.68 0.490824
Target:  5'- cCUgGCUGCcacgcagaggucaUCGCCgagugggccgaucGCCUCGGUCGCGa -3'
miRNA:   3'- cGAgUGAUG-------------AGCGG-------------CGGGGCUAGCGC- -5'
16305 3' -58.3 NC_004084.1 + 52555 0.68 0.473068
Target:  5'- uGCUC-CUcCUCGUcgauCGUCuuGAUCGCGa -3'
miRNA:   3'- -CGAGuGAuGAGCG----GCGGggCUAGCGC- -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.