miRNA display CGI


Results 1 - 20 of 75 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
33168 5' -52.8 NC_007497.1 + 40703 0.66 0.81907
Target:  5'- cGGAagGAACggGaaGGCGCGcgaGCuCAUCGCg -3'
miRNA:   3'- aCCU--UUUGa-CggCUGCGC---UG-GUAGCG- -5'
33168 5' -52.8 NC_007497.1 + 2485 0.66 0.81907
Target:  5'- cGGGAAcgaucggcauGCUGCCGAUGaaccuGAUCAguaGCg -3'
miRNA:   3'- aCCUUU----------UGACGGCUGCg----CUGGUag-CG- -5'
33168 5' -52.8 NC_007497.1 + 21114 0.66 0.80946
Target:  5'- cGGGu-ACUGCgGGCGCgcgauGACUA-CGCa -3'
miRNA:   3'- aCCUuuUGACGgCUGCG-----CUGGUaGCG- -5'
33168 5' -52.8 NC_007497.1 + 39857 0.66 0.80946
Target:  5'- uUGGu---CUGCgGACGCuGGCUugcuUCGCc -3'
miRNA:   3'- -ACCuuuuGACGgCUGCG-CUGGu---AGCG- -5'
33168 5' -52.8 NC_007497.1 + 18872 0.66 0.80946
Target:  5'- aGGAA----GCCGAUGCGuuGCUAUCGa -3'
miRNA:   3'- aCCUUuugaCGGCUGCGC--UGGUAGCg -5'
33168 5' -52.8 NC_007497.1 + 7267 0.66 0.80946
Target:  5'- cGGGAGuaccacCUGcCCGGCGC-ACCugaucuUCGCg -3'
miRNA:   3'- aCCUUUu-----GAC-GGCUGCGcUGGu-----AGCG- -5'
33168 5' -52.8 NC_007497.1 + 5120 0.66 0.80946
Target:  5'- aUGGGcgcucGCUGagcaaCCGACGUGgACCGUCGa -3'
miRNA:   3'- -ACCUuu---UGAC-----GGCUGCGC-UGGUAGCg -5'
33168 5' -52.8 NC_007497.1 + 42372 0.66 0.80946
Target:  5'- cGGc--ACUGCUaaGCGCGA-CAUCGCg -3'
miRNA:   3'- aCCuuuUGACGGc-UGCGCUgGUAGCG- -5'
33168 5' -52.8 NC_007497.1 + 40801 0.66 0.799653
Target:  5'- -----cAUUGCCGcaucgaacgGCGCGAgCGUCGCu -3'
miRNA:   3'- accuuuUGACGGC---------UGCGCUgGUAGCG- -5'
33168 5' -52.8 NC_007497.1 + 32214 0.66 0.799653
Target:  5'- cGGAAuauucAGCUGCaguGcCGCG-CUAUCGCc -3'
miRNA:   3'- aCCUU-----UUGACGg--CuGCGCuGGUAGCG- -5'
33168 5' -52.8 NC_007497.1 + 26074 0.66 0.799653
Target:  5'- cGGgcGACgccaccauguaUGCCGGCGUG-UgGUCGCu -3'
miRNA:   3'- aCCuuUUG-----------ACGGCUGCGCuGgUAGCG- -5'
33168 5' -52.8 NC_007497.1 + 37872 0.66 0.79368
Target:  5'- cGGAcgcaaucgGAAUUGUCGggggcgccaaaggcuACGUGuCCGUCGCg -3'
miRNA:   3'- aCCU--------UUUGACGGC---------------UGCGCuGGUAGCG- -5'
33168 5' -52.8 NC_007497.1 + 42910 0.66 0.789662
Target:  5'- cGGAAccgcGCUGCCG-CGaGugCGUCGa -3'
miRNA:   3'- aCCUUu---UGACGGCuGCgCugGUAGCg -5'
33168 5' -52.8 NC_007497.1 + 13622 0.66 0.789662
Target:  5'- aGGaAGAGCggGCCGcCGCaugGGCCGcCGCa -3'
miRNA:   3'- aCC-UUUUGa-CGGCuGCG---CUGGUaGCG- -5'
33168 5' -52.8 NC_007497.1 + 17669 0.66 0.789662
Target:  5'- aGGAGAcaacauAgaGUaCGGCGCGAgcUCAUCGCg -3'
miRNA:   3'- aCCUUU------UgaCG-GCUGCGCU--GGUAGCG- -5'
33168 5' -52.8 NC_007497.1 + 20760 0.66 0.779497
Target:  5'- aUGGGAaguucgagcAugUGCCcgaGCGCGugC-UCGCg -3'
miRNA:   3'- -ACCUU---------UugACGGc--UGCGCugGuAGCG- -5'
33168 5' -52.8 NC_007497.1 + 34195 0.66 0.779497
Target:  5'- aGGAaaagucgcgcGAGCUugcgcgacucGUCGACGUGuuCGUCGCg -3'
miRNA:   3'- aCCU----------UUUGA----------CGGCUGCGCugGUAGCG- -5'
33168 5' -52.8 NC_007497.1 + 28852 0.67 0.76917
Target:  5'- cGGuu-GCUcaaacacgaaGCCGACGaCGGCCAgUGCu -3'
miRNA:   3'- aCCuuuUGA----------CGGCUGC-GCUGGUaGCG- -5'
33168 5' -52.8 NC_007497.1 + 34772 0.67 0.76917
Target:  5'- uUGGccgcGGCgGCCuccaACGCGACgCGUCGCu -3'
miRNA:   3'- -ACCuu--UUGaCGGc---UGCGCUG-GUAGCG- -5'
33168 5' -52.8 NC_007497.1 + 6653 0.67 0.76917
Target:  5'- -cGAAGGcCUGcCCGGCGCGuuucuaauCCAcUCGCg -3'
miRNA:   3'- acCUUUU-GAC-GGCUGCGCu-------GGU-AGCG- -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.