miRNA display CGI


Results 1 - 17 of 17 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
1610 5' -59.1 NC_001347.2 + 210005 0.66 0.89813
Target:  5'- cGCCGGGUcGCG-GUccGCCggugUUG-GGACCg -3'
miRNA:   3'- -CGGCCCAcCGCuCA--UGG----GACaCCUGG- -5'
1610 5' -59.1 NC_001347.2 + 7835 0.66 0.885515
Target:  5'- aGCUGguacGGUGGCGgcggacugucaGGUAUCCgcGUGGACg -3'
miRNA:   3'- -CGGC----CCACCGC-----------UCAUGGGa-CACCUGg -5'
1610 5' -59.1 NC_001347.2 + 1036 0.66 0.884863
Target:  5'- cGCCGGGccacGGCGuccaccgGGUagaACCCcGcGGGCCg -3'
miRNA:   3'- -CGGCCCa---CCGC-------UCA---UGGGaCaCCUGG- -5'
1610 5' -59.1 NC_001347.2 + 165973 0.67 0.857929
Target:  5'- gGCCaGGUGuGCGGGUucguagcgcgcACCCa--GGACCu -3'
miRNA:   3'- -CGGcCCAC-CGCUCA-----------UGGGacaCCUGG- -5'
1610 5' -59.1 NC_001347.2 + 59 0.67 0.857201
Target:  5'- gGCCGGGUgGGUGuGUGCCggGUgugucgcGGGCg -3'
miRNA:   3'- -CGGCCCA-CCGCuCAUGGgaCA-------CCUGg -5'
1610 5' -59.1 NC_001347.2 + 134886 0.68 0.818604
Target:  5'- cGCCGGGUGGgacGGUcguggucuccucgGCCCgUGccgGGACCc -3'
miRNA:   3'- -CGGCCCACCgc-UCA-------------UGGG-ACa--CCUGG- -5'
1610 5' -59.1 NC_001347.2 + 30614 0.68 0.794443
Target:  5'- gGCCGcGGUgccGGCGGcuaugAUCCUGUGGuCCc -3'
miRNA:   3'- -CGGC-CCA---CCGCUca---UGGGACACCuGG- -5'
1610 5' -59.1 NC_001347.2 + 190462 0.68 0.791878
Target:  5'- cUCGGuaauuugauacaacGUGGCGAuggggGUGCCCUGcgGGAUCa -3'
miRNA:   3'- cGGCC--------------CACCGCU-----CAUGGGACa-CCUGG- -5'
1610 5' -59.1 NC_001347.2 + 147906 0.68 0.785848
Target:  5'- gGCCguGGGUGGCGcGGUGgCCUccGUGGucgaaggcguuGCCa -3'
miRNA:   3'- -CGG--CCCACCGC-UCAUgGGA--CACC-----------UGG- -5'
1610 5' -59.1 NC_001347.2 + 156960 0.69 0.731967
Target:  5'- aUCGuGGUGGCGAGcGCgCUccGGGCCa -3'
miRNA:   3'- cGGC-CCACCGCUCaUGgGAcaCCUGG- -5'
1610 5' -59.1 NC_001347.2 + 201648 0.7 0.703884
Target:  5'- cCUGGGcgccucgGGCGccauGUA-CCUGUGGACCg -3'
miRNA:   3'- cGGCCCa------CCGCu---CAUgGGACACCUGG- -5'
1610 5' -59.1 NC_001347.2 + 29144 0.7 0.694405
Target:  5'- aUCGGGcGGuCGAcuGgagGCUCUGUGGACCc -3'
miRNA:   3'- cGGCCCaCC-GCU--Ca--UGGGACACCUGG- -5'
1610 5' -59.1 NC_001347.2 + 37058 0.7 0.68488
Target:  5'- gGCCGcGGaggugcUGGCGGccGUGgCCUGUGGcCCg -3'
miRNA:   3'- -CGGC-CC------ACCGCU--CAUgGGACACCuGG- -5'
1610 5' -59.1 NC_001347.2 + 40669 0.71 0.646465
Target:  5'- gGCCGGGgacGG-GGGUugCgCUG-GGGCCg -3'
miRNA:   3'- -CGGCCCa--CCgCUCAugG-GACaCCUGG- -5'
1610 5' -59.1 NC_001347.2 + 78383 0.72 0.579097
Target:  5'- cGCCGuGGUGG-GAGgACCCgc-GGGCCa -3'
miRNA:   3'- -CGGC-CCACCgCUCaUGGGacaCCUGG- -5'
1610 5' -59.1 NC_001347.2 + 40096 0.82 0.160282
Target:  5'- cCCGGG-GGCGAGggacgacgGCCCUGgGGACCg -3'
miRNA:   3'- cGGCCCaCCGCUCa-------UGGGACaCCUGG- -5'
1610 5' -59.1 NC_001347.2 + 150787 1.12 0.001771
Target:  5'- uGCCGGGUGGCGAGUACCCUGUGGACCc -3'
miRNA:   3'- -CGGCCCACCGCUCAUGGGACACCUGG- -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.