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
7259 3' -60 NC_001900.1 + 323 0.66 0.467458
Target:  5'- gGGCCGgGgaauugauccggcaaCCGCCGGaUCUAgcgCCGCg -3'
miRNA:   3'- -CCGGUgCag-------------GGCGGCC-AGAUga-GGCG- -5'
7259 3' -60 NC_001900.1 + 717 0.68 0.370549
Target:  5'- uGCCACGggCCGCagCGGUCUGgaacguCUaCCGCa -3'
miRNA:   3'- cCGGUGCagGGCG--GCCAGAU------GA-GGCG- -5'
7259 3' -60 NC_001900.1 + 1679 1.13 0.000183
Target:  5'- gGGCCACGUCCCGCCGGUCUACUCCGCg -3'
miRNA:   3'- -CCGGUGCAGGGCGGCCAGAUGAGGCG- -5'
7259 3' -60 NC_001900.1 + 3155 0.77 0.095622
Target:  5'- cGGUCACGucaacgaccuUCCCGCCGGUCgGgUCgGCg -3'
miRNA:   3'- -CCGGUGC----------AGGGCGGCCAGaUgAGgCG- -5'
7259 3' -60 NC_001900.1 + 3287 0.72 0.212261
Target:  5'- cGGCCGCGacUUCCGCUGGUCga-UCCc- -3'
miRNA:   3'- -CCGGUGC--AGGGCGGCCAGaugAGGcg -5'
7259 3' -60 NC_001900.1 + 3563 0.69 0.307605
Target:  5'- cGGCCugGUgCauCCGGUCUcGCUguuccCCGCg -3'
miRNA:   3'- -CCGGugCAgGgcGGCCAGA-UGA-----GGCG- -5'
7259 3' -60 NC_001900.1 + 5493 0.72 0.217736
Target:  5'- cGGUUcgggugucguagGCGUcCCCGCUGGcgUACUCCGCa -3'
miRNA:   3'- -CCGG------------UGCA-GGGCGGCCagAUGAGGCG- -5'
7259 3' -60 NC_001900.1 + 5561 0.73 0.163772
Target:  5'- gGGCCugGUCCCcacGCCcGaCUACUUCGUg -3'
miRNA:   3'- -CCGGugCAGGG---CGGcCaGAUGAGGCG- -5'
7259 3' -60 NC_001900.1 + 10294 0.77 0.095622
Target:  5'- uGGCgACGUUCCcCCGGacaUGCUCCGCa -3'
miRNA:   3'- -CCGgUGCAGGGcGGCCag-AUGAGGCG- -5'
7259 3' -60 NC_001900.1 + 13218 0.7 0.293203
Target:  5'- cGCUggGCGUCUCGUCGGagacCUCCGCg -3'
miRNA:   3'- cCGG--UGCAGGGCGGCCagauGAGGCG- -5'
7259 3' -60 NC_001900.1 + 13322 0.67 0.414125
Target:  5'- aGGCCAUGUguuacUCC-UCGGUCgcagGCUCCuGCu -3'
miRNA:   3'- -CCGGUGCA-----GGGcGGCCAGa---UGAGG-CG- -5'
7259 3' -60 NC_001900.1 + 13733 0.67 0.431491
Target:  5'- -aCCACGaagcggaUCCU-CCGGUCUGCUaCUGCg -3'
miRNA:   3'- ccGGUGC-------AGGGcGGCCAGAUGA-GGCG- -5'
7259 3' -60 NC_001900.1 + 14436 0.77 0.085671
Target:  5'- cGGCCACGcCCCGuCCGGguu-CUUCGCg -3'
miRNA:   3'- -CCGGUGCaGGGC-GGCCagauGAGGCG- -5'
7259 3' -60 NC_001900.1 + 19265 0.67 0.396317
Target:  5'- gGGaCCACgGUCCUGgCuGUCgcgagACUCCGUg -3'
miRNA:   3'- -CC-GGUG-CAGGGCgGcCAGa----UGAGGCG- -5'
7259 3' -60 NC_001900.1 + 23217 0.7 0.272595
Target:  5'- cGGUCugGUCCuCGcCCGGgCUGCgcCCGUc -3'
miRNA:   3'- -CCGGugCAGG-GC-GGCCaGAUGa-GGCG- -5'
7259 3' -60 NC_001900.1 + 23885 0.67 0.432417
Target:  5'- cGGCCAgGgcacCCCGaguuCGGUC-AC-CCGCg -3'
miRNA:   3'- -CCGGUgCa---GGGCg---GCCAGaUGaGGCG- -5'
7259 3' -60 NC_001900.1 + 24163 0.67 0.423212
Target:  5'- uGCCACGUCUuguCGCCGcGcCagUACUgCGCg -3'
miRNA:   3'- cCGGUGCAGG---GCGGC-CaG--AUGAgGCG- -5'
7259 3' -60 NC_001900.1 + 24832 0.68 0.37901
Target:  5'- uGCCGC--CCgCGCCGGUCUG-UCCGa -3'
miRNA:   3'- cCGGUGcaGG-GCGGCCAGAUgAGGCg -5'
7259 3' -60 NC_001900.1 + 28121 0.67 0.396317
Target:  5'- gGGCCucACGgCCUGUgaCGGUggcgGCUCCGCa -3'
miRNA:   3'- -CCGG--UGCaGGGCG--GCCAga--UGAGGCG- -5'
7259 3' -60 NC_001900.1 + 31668 0.67 0.432417
Target:  5'- aGGUC-CGcCUCGCgGuGUCgagcugACUCCGCa -3'
miRNA:   3'- -CCGGuGCaGGGCGgC-CAGa-----UGAGGCG- -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.