miRNA display CGI


Results 1 - 20 of 30 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
12104 3' -57.5 NC_003309.1 + 31713 0.66 0.586192
Target:  5'- -gGCCgcaUGUCUggcUCG-GCGCGaCGAUCg -3'
miRNA:   3'- ugCGGa--ACAGA---AGCgCGCGCgGCUAG- -5'
12104 3' -57.5 NC_003309.1 + 47714 0.66 0.581864
Target:  5'- cGCGCCUUGaaacgcaugaacaCUUCGCccuCGCGCUGcUCg -3'
miRNA:   3'- -UGCGGAACa------------GAAGCGc--GCGCGGCuAG- -5'
12104 3' -57.5 NC_003309.1 + 22439 0.66 0.575384
Target:  5'- cUGCCggcGUCgagCGCgGCGCGCgaGAUCu -3'
miRNA:   3'- uGCGGaa-CAGaa-GCG-CGCGCGg-CUAG- -5'
12104 3' -57.5 NC_003309.1 + 7425 0.66 0.573228
Target:  5'- uGCGCCgcaacuucccgGUCUUCuucgGCGCGCGCUu--- -3'
miRNA:   3'- -UGCGGaa---------CAGAAG----CGCGCGCGGcuag -5'
12104 3' -57.5 NC_003309.1 + 47613 0.66 0.564622
Target:  5'- aACGuCCUgcccgGUCgUCGC-CGCGCCG-UCc -3'
miRNA:   3'- -UGC-GGAa----CAGaAGCGcGCGCGGCuAG- -5'
12104 3' -57.5 NC_003309.1 + 22476 0.66 0.549647
Target:  5'- cCGCCgacgcggcggCaUCGUGCGCGgCGAUCg -3'
miRNA:   3'- uGCGGaaca------GaAGCGCGCGCgGCUAG- -5'
12104 3' -57.5 NC_003309.1 + 17757 0.66 0.543266
Target:  5'- -aGCCgu-UUUUCGCGCGCGgcagcUCGAUCc -3'
miRNA:   3'- ugCGGaacAGAAGCGCGCGC-----GGCUAG- -5'
12104 3' -57.5 NC_003309.1 + 37296 0.67 0.532687
Target:  5'- gACGCCcUGaaUC-UCGCcgGCGCGUCGAUg -3'
miRNA:   3'- -UGCGGaAC--AGaAGCG--CGCGCGGCUAg -5'
12104 3' -57.5 NC_003309.1 + 10611 0.67 0.522182
Target:  5'- cUGCCggcaacgUUCGCGCGUGCCG-UCg -3'
miRNA:   3'- uGCGGaacag--AAGCGCGCGCGGCuAG- -5'
12104 3' -57.5 NC_003309.1 + 19303 0.67 0.522182
Target:  5'- cACGCCgagcgcGUUUUCG-GCGCGCaCGcgCg -3'
miRNA:   3'- -UGCGGaa----CAGAAGCgCGCGCG-GCuaG- -5'
12104 3' -57.5 NC_003309.1 + 45971 0.67 0.511758
Target:  5'- aACGaCUUGUCgcugUCGCGCaugacGCGCUucggGAUCg -3'
miRNA:   3'- -UGCgGAACAGa---AGCGCG-----CGCGG----CUAG- -5'
12104 3' -57.5 NC_003309.1 + 44493 0.67 0.511758
Target:  5'- uGCGCuaCUUGUCcggUCGUGcCGCuGCCGAa- -3'
miRNA:   3'- -UGCG--GAACAGa--AGCGC-GCG-CGGCUag -5'
12104 3' -57.5 NC_003309.1 + 22365 0.67 0.501422
Target:  5'- -gGCCUgcucGUCggcaagcCGaUGUGCGCCGAUCa -3'
miRNA:   3'- ugCGGAa---CAGaa-----GC-GCGCGCGGCUAG- -5'
12104 3' -57.5 NC_003309.1 + 43667 0.67 0.501422
Target:  5'- cACGCCgaccagcgUGUUgaugaacUCGCGCaGCGUCGGUUc -3'
miRNA:   3'- -UGCGGa-------ACAGa------AGCGCG-CGCGGCUAG- -5'
12104 3' -57.5 NC_003309.1 + 49104 0.67 0.491178
Target:  5'- -gGCCUg--CUUCG-GCGUGCCGAc- -3'
miRNA:   3'- ugCGGAacaGAAGCgCGCGCGGCUag -5'
12104 3' -57.5 NC_003309.1 + 30809 0.68 0.47099
Target:  5'- gACGCC--GUCUggCGCGCaaugucGCGCCGcGUCu -3'
miRNA:   3'- -UGCGGaaCAGAa-GCGCG------CGCGGC-UAG- -5'
12104 3' -57.5 NC_003309.1 + 10767 0.68 0.461055
Target:  5'- gUGCCUUG-CUUCGcCGCcgccucaaGCGCCGuccGUCg -3'
miRNA:   3'- uGCGGAACaGAAGC-GCG--------CGCGGC---UAG- -5'
12104 3' -57.5 NC_003309.1 + 9526 0.68 0.461055
Target:  5'- cGCGCCgcGUCgagCGCGCGCaCCGu-- -3'
miRNA:   3'- -UGCGGaaCAGaa-GCGCGCGcGGCuag -5'
12104 3' -57.5 NC_003309.1 + 7763 0.68 0.451231
Target:  5'- gGCGCCggcGcCUUCGCcgguGCGaCGCCGAg- -3'
miRNA:   3'- -UGCGGaa-CaGAAGCG----CGC-GCGGCUag -5'
12104 3' -57.5 NC_003309.1 + 6524 0.68 0.450255
Target:  5'- -aGCCUUGcUCUcggccgcUUGcCGCGCGCCcggGAUCa -3'
miRNA:   3'- ugCGGAAC-AGA-------AGC-GCGCGCGG---CUAG- -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.