miRNA display CGI


Results 1 - 20 of 55 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
12194 3' -54.7 NC_003309.1 + 47491 0.79 0.150348
Target:  5'- -gGCGGCGCAGCGAcACCU-UCGcCGCCg -3'
miRNA:   3'- cgUGCCGCGUUGCU-UGGAcAGC-GUGG- -5'
12194 3' -54.7 NC_003309.1 + 39962 0.78 0.172337
Target:  5'- uCGCGGCGCGcuuguCGAgcACCUGUUGCGCg -3'
miRNA:   3'- cGUGCCGCGUu----GCU--UGGACAGCGUGg -5'
12194 3' -54.7 NC_003309.1 + 1779 0.75 0.276518
Target:  5'- cCGCGGCGCAACGcagaaguaauGCCgccgcccgucgaUGUCGUGCCa -3'
miRNA:   3'- cGUGCCGCGUUGCu---------UGG------------ACAGCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 27336 0.75 0.276518
Target:  5'- -aGCGGCGCGGCGAACUgccGaUGCAUCa -3'
miRNA:   3'- cgUGCCGCGUUGCUUGGa--CaGCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 8930 0.74 0.312471
Target:  5'- uGCACGGgGCcgAACGccuccgcGACCgcgGUCGCAUCg -3'
miRNA:   3'- -CGUGCCgCG--UUGC-------UUGGa--CAGCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 32958 0.72 0.406547
Target:  5'- gGCGCGagaGCGCGACGAcCCUGagcugaUCGCGgCa -3'
miRNA:   3'- -CGUGC---CGCGUUGCUuGGAC------AGCGUgG- -5'
12194 3' -54.7 NC_003309.1 + 7749 0.72 0.415855
Target:  5'- cGC-CGGUGCGACGccgagauACCccuUCGCACCa -3'
miRNA:   3'- -CGuGCCGCGUUGCu------UGGac-AGCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 12764 0.72 0.415855
Target:  5'- gGCAUuGCGgAACGAACUcGUCaGCGCCu -3'
miRNA:   3'- -CGUGcCGCgUUGCUUGGaCAG-CGUGG- -5'
12194 3' -54.7 NC_003309.1 + 10725 0.72 0.425292
Target:  5'- uGCGCGaGCGCgAGCGaAGCCUcggCGCGCUc -3'
miRNA:   3'- -CGUGC-CGCG-UUGC-UUGGAca-GCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 8531 0.71 0.444542
Target:  5'- -gGCGGCGgcACGAGCUUcggCGCACCg -3'
miRNA:   3'- cgUGCCGCguUGCUUGGAca-GCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 28840 0.71 0.484447
Target:  5'- uCACGGUGCuGGCGcugcAACCaUGUCGC-CCg -3'
miRNA:   3'- cGUGCCGCG-UUGC----UUGG-ACAGCGuGG- -5'
12194 3' -54.7 NC_003309.1 + 16850 0.7 0.494692
Target:  5'- --cCGGaGCAauGCGAAUCUcGUCGCGCCc -3'
miRNA:   3'- cguGCCgCGU--UGCUUGGA-CAGCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 16775 0.7 0.505034
Target:  5'- aCACGGCG-AACGugagGCCgccGUCGCGCg -3'
miRNA:   3'- cGUGCCGCgUUGCu---UGGa--CAGCGUGg -5'
12194 3' -54.7 NC_003309.1 + 30269 0.7 0.505034
Target:  5'- aGCACGGCGCcugguauuggAGCGAGCCa---GUAUCg -3'
miRNA:   3'- -CGUGCCGCG----------UUGCUUGGacagCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 30893 0.7 0.515468
Target:  5'- gGCuCGGCGUAcaacgugcgauCGAACCUaGUCGCAauCCg -3'
miRNA:   3'- -CGuGCCGCGUu----------GCUUGGA-CAGCGU--GG- -5'
12194 3' -54.7 NC_003309.1 + 43088 0.7 0.515468
Target:  5'- aCGCGGCGCgAGCGAcucaCUGcCGC-CCg -3'
miRNA:   3'- cGUGCCGCG-UUGCUug--GACaGCGuGG- -5'
12194 3' -54.7 NC_003309.1 + 52077 0.7 0.515468
Target:  5'- cGCACGGCGaacCGGCgGAGCUUcUCGCAUg -3'
miRNA:   3'- -CGUGCCGC---GUUG-CUUGGAcAGCGUGg -5'
12194 3' -54.7 NC_003309.1 + 3957 0.69 0.579649
Target:  5'- gGCAcguCGGCGCuccgauGCGGcagccAUCUG-CGCGCCg -3'
miRNA:   3'- -CGU---GCCGCGu-----UGCU-----UGGACaGCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 27477 0.69 0.579649
Target:  5'- aGCGCGGCGaagaGGCGu-UCUaUCGCAUCa -3'
miRNA:   3'- -CGUGCCGCg---UUGCuuGGAcAGCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 6285 0.69 0.60147
Target:  5'- gGCAauauCGGCGuCGACGAGuuUGUcCGCAUg -3'
miRNA:   3'- -CGU----GCCGC-GUUGCUUggACA-GCGUGg -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.