miRNA display CGI


Results 1 - 20 of 24 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
13160 3' -59.2 NC_003401.1 + 55189 0.66 0.784085
Target:  5'- aGCGCCgcgggGGCAGUCCCaUC-UgCCGu- -3'
miRNA:   3'- -CGUGGa----CCGUCAGGGcAGuAgGGCcg -5'
13160 3' -59.2 NC_003401.1 + 122810 0.66 0.784085
Target:  5'- cGCACUaugcGGCGGUCCCcGUgcacucuaccgCGUCCCuGGg -3'
miRNA:   3'- -CGUGGa---CCGUCAGGG-CA-----------GUAGGG-CCg -5'
13160 3' -59.2 NC_003401.1 + 120009 0.66 0.756435
Target:  5'- cCACC-GGCGGUcugccCCCGUC--CCUGGUg -3'
miRNA:   3'- cGUGGaCCGUCA-----GGGCAGuaGGGCCG- -5'
13160 3' -59.2 NC_003401.1 + 19826 0.66 0.746995
Target:  5'- aGUuuUUGGCuGUCCacuGUCAccccgCCCGGCa -3'
miRNA:   3'- -CGugGACCGuCAGGg--CAGUa----GGGCCG- -5'
13160 3' -59.2 NC_003401.1 + 95035 0.66 0.746995
Target:  5'- -gACC-GGCAGUCCCuaCGUCCUgcuaaaggaGGCg -3'
miRNA:   3'- cgUGGaCCGUCAGGGcaGUAGGG---------CCG- -5'
13160 3' -59.2 NC_003401.1 + 132634 0.66 0.737459
Target:  5'- cGgACCggGGCGcUCCCGggagUCGgccgggCCCGGCg -3'
miRNA:   3'- -CgUGGa-CCGUcAGGGC----AGUa-----GGGCCG- -5'
13160 3' -59.2 NC_003401.1 + 69996 0.67 0.727834
Target:  5'- cCACCgagaCAGUCCCacgCAaCCCGGCg -3'
miRNA:   3'- cGUGGacc-GUCAGGGca-GUaGGGCCG- -5'
13160 3' -59.2 NC_003401.1 + 106427 0.67 0.727834
Target:  5'- -uGCCUuGCacGGUCCCGUguUCUCGGg -3'
miRNA:   3'- cgUGGAcCG--UCAGGGCAguAGGGCCg -5'
13160 3' -59.2 NC_003401.1 + 132309 0.67 0.71813
Target:  5'- gGCGCCgccGGCcuccCCCGgc-UCCCGGCc -3'
miRNA:   3'- -CGUGGa--CCGuca-GGGCaguAGGGCCG- -5'
13160 3' -59.2 NC_003401.1 + 86227 0.67 0.71813
Target:  5'- uGCGCuUUGGCcGUCCUGUCAgaugaacccCgCCGGUa -3'
miRNA:   3'- -CGUG-GACCGuCAGGGCAGUa--------G-GGCCG- -5'
13160 3' -59.2 NC_003401.1 + 22836 0.67 0.708355
Target:  5'- aCGCCUGGU--UUCCGUCGaggcgggCCCGGg -3'
miRNA:   3'- cGUGGACCGucAGGGCAGUa------GGGCCg -5'
13160 3' -59.2 NC_003401.1 + 49591 0.67 0.698518
Target:  5'- gGCAUCUGGUA--UCUGUCcUCuuGGCa -3'
miRNA:   3'- -CGUGGACCGUcaGGGCAGuAGggCCG- -5'
13160 3' -59.2 NC_003401.1 + 52600 0.67 0.698518
Target:  5'- aGCAC--GGCGGUCcaguCCGUCG-CCUGGUg -3'
miRNA:   3'- -CGUGgaCCGUCAG----GGCAGUaGGGCCG- -5'
13160 3' -59.2 NC_003401.1 + 132399 0.67 0.688627
Target:  5'- gGCGCaagaUGGCGG-CCgCGg---CCCGGCg -3'
miRNA:   3'- -CGUGg---ACCGUCaGG-GCaguaGGGCCG- -5'
13160 3' -59.2 NC_003401.1 + 84006 0.68 0.668718
Target:  5'- cGCGCCcGGU--UCCC--CAUCCCGGUc -3'
miRNA:   3'- -CGUGGaCCGucAGGGcaGUAGGGCCG- -5'
13160 3' -59.2 NC_003401.1 + 19592 0.68 0.658717
Target:  5'- cGCGCC--GCGGUUCgGUgG-CCCGGCg -3'
miRNA:   3'- -CGUGGacCGUCAGGgCAgUaGGGCCG- -5'
13160 3' -59.2 NC_003401.1 + 127556 0.69 0.608558
Target:  5'- -uGCCUGcGUGGUCuuugCCGUCcUCCCGcGCg -3'
miRNA:   3'- cgUGGAC-CGUCAG----GGCAGuAGGGC-CG- -5'
13160 3' -59.2 NC_003401.1 + 15855 0.69 0.608558
Target:  5'- aGCugUUGGCcGU-CCGUCAggacgcgCCUGGCc -3'
miRNA:   3'- -CGugGACCGuCAgGGCAGUa------GGGCCG- -5'
13160 3' -59.2 NC_003401.1 + 121115 0.69 0.578606
Target:  5'- uCGCCUGGCaAGgugCCUacaGUU-UCCCGGCa -3'
miRNA:   3'- cGUGGACCG-UCa--GGG---CAGuAGGGCCG- -5'
13160 3' -59.2 NC_003401.1 + 74178 0.7 0.548984
Target:  5'- uGCGCCgcgGGCGGUCuCCGguUCggUuuGGCu -3'
miRNA:   3'- -CGUGGa--CCGUCAG-GGC--AGuaGggCCG- -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.