miRNA display CGI


Results 1 - 20 of 48 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
29163 3' -58.9 NC_006150.1 + 764 1.09 0.002078
Target:  5'- gCGCGAGCAAACAGCGCCAGGCUGCCGg -3'
miRNA:   3'- -GCGCUCGUUUGUCGCGGUCCGACGGC- -5'
29163 3' -58.9 NC_006150.1 + 27158 0.67 0.809486
Target:  5'- gGCG-GCAGACGucuacgauGUuCCAGGCUGCuCGg -3'
miRNA:   3'- gCGCuCGUUUGU--------CGcGGUCCGACG-GC- -5'
29163 3' -58.9 NC_006150.1 + 130681 0.66 0.849845
Target:  5'- uGCGAcGUuuuggaacgucuGAGgGGCG-CAGGCUGCCa -3'
miRNA:   3'- gCGCU-CG------------UUUgUCGCgGUCCGACGGc -5'
29163 3' -58.9 NC_006150.1 + 147854 0.66 0.87191
Target:  5'- aCGCGcGUAGGCAGCuuGagAGaGCUGCCGc -3'
miRNA:   3'- -GCGCuCGUUUGUCG--CggUC-CGACGGC- -5'
29163 3' -58.9 NC_006150.1 + 218391 0.69 0.689564
Target:  5'- aGCGGGCGGAgGGCaugcuGCCuGGUUuGCCGc -3'
miRNA:   3'- gCGCUCGUUUgUCG-----CGGuCCGA-CGGC- -5'
29163 3' -58.9 NC_006150.1 + 888 0.69 0.722384
Target:  5'- aGCGAGCugaaggAAccgguuuuuauuucaGCGuGCGCCGGGC-GCCGg -3'
miRNA:   3'- gCGCUCG------UU---------------UGU-CGCGGUCCGaCGGC- -5'
29163 3' -58.9 NC_006150.1 + 210572 0.68 0.73756
Target:  5'- aCGCuuGAGUAGACuGCGCaCcuGCUGCCu -3'
miRNA:   3'- -GCG--CUCGUUUGuCGCG-GucCGACGGc -5'
29163 3' -58.9 NC_006150.1 + 80502 0.68 0.73756
Target:  5'- uCGCGAGcCAGACAGUGUgAGcgUGCCa -3'
miRNA:   3'- -GCGCUC-GUUUGUCGCGgUCcgACGGc -5'
29163 3' -58.9 NC_006150.1 + 88074 0.68 0.746936
Target:  5'- gGCGccGCGGACuGCGCCaccgagcuccGGGCagGCCGg -3'
miRNA:   3'- gCGCu-CGUUUGuCGCGG----------UCCGa-CGGC- -5'
29163 3' -58.9 NC_006150.1 + 823 0.67 0.800937
Target:  5'- cCGCGAGCGcugAGUcaGCCGGGCgGCuCGg -3'
miRNA:   3'- -GCGCUCGUuugUCG--CGGUCCGaCG-GC- -5'
29163 3' -58.9 NC_006150.1 + 120140 0.68 0.774469
Target:  5'- cCGCG-GCAAACAG-GCCAuGCUGUa- -3'
miRNA:   3'- -GCGCuCGUUUGUCgCGGUcCGACGgc -5'
29163 3' -58.9 NC_006150.1 + 183874 0.68 0.746936
Target:  5'- uGgGAGCGgugguugcAGCGGCGCaggcaaCGGGCUGCgGa -3'
miRNA:   3'- gCgCUCGU--------UUGUCGCG------GUCCGACGgC- -5'
29163 3' -58.9 NC_006150.1 + 119270 0.72 0.523513
Target:  5'- gCGCGuGGCcAGCGGCGCCGGaaUGCCc -3'
miRNA:   3'- -GCGC-UCGuUUGUCGCGGUCcgACGGc -5'
29163 3' -58.9 NC_006150.1 + 4078 0.68 0.774469
Target:  5'- uCGcCGAGCA--UAGCGUCAGGCUcgaGCgGu -3'
miRNA:   3'- -GC-GCUCGUuuGUCGCGGUCCGA---CGgC- -5'
29163 3' -58.9 NC_006150.1 + 213776 0.72 0.523513
Target:  5'- uGCuGGCAAACAGCGCgCAauaaaaaauGGCUGUCa -3'
miRNA:   3'- gCGcUCGUUUGUCGCG-GU---------CCGACGGc -5'
29163 3' -58.9 NC_006150.1 + 1051 0.68 0.73756
Target:  5'- uCGCGgauaguugauAGUAGGCGGCGCgCAGGCaGgCGa -3'
miRNA:   3'- -GCGC----------UCGUUUGUCGCG-GUCCGaCgGC- -5'
29163 3' -58.9 NC_006150.1 + 2238 0.67 0.791369
Target:  5'- gCGCGGuucagcuGCAGGCgAGgGCCGuGGCcGCCGa -3'
miRNA:   3'- -GCGCU-------CGUUUG-UCgCGGU-CCGaCGGC- -5'
29163 3' -58.9 NC_006150.1 + 207893 0.67 0.826129
Target:  5'- -uUGGGCGuucuGCAGUacugGCCGGGCcGCCGc -3'
miRNA:   3'- gcGCUCGUu---UGUCG----CGGUCCGaCGGC- -5'
29163 3' -58.9 NC_006150.1 + 149657 0.71 0.581385
Target:  5'- aCGCGAuGgAAGCAGcCGCCAaaGCUGCCu -3'
miRNA:   3'- -GCGCU-CgUUUGUC-GCGGUc-CGACGGc -5'
29163 3' -58.9 NC_006150.1 + 38106 0.68 0.728098
Target:  5'- gCGCGAauGCGG--GGCGCU-GGCUGCCu -3'
miRNA:   3'- -GCGCU--CGUUugUCGCGGuCCGACGGc -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.