miRNA display CGI


Results 1 - 19 of 19 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
32178 5' -54.2 NC_007016.1 + 113803 0.66 0.943718
Target:  5'- cAGGuCCCCCgGugGggUGcaggucccccgguggGGUGCAg- -3'
miRNA:   3'- -UCCuGGGGG-CugCuuAUa--------------CCACGUag -5'
32178 5' -54.2 NC_007016.1 + 113917 0.66 0.943718
Target:  5'- cAGGuCCCCCgGugGggUGcaggucccccgguggGGUGCAg- -3'
miRNA:   3'- -UCCuGGGGG-CugCuuAUa--------------CCACGUag -5'
32178 5' -54.2 NC_007016.1 + 113690 0.66 0.943718
Target:  5'- cAGGuCCCCCgGugGggUGcaggucccccgguggGGUGCAg- -3'
miRNA:   3'- -UCCuGGGGG-CugCuuAUa--------------CCACGUag -5'
32178 5' -54.2 NC_007016.1 + 113633 0.66 0.943718
Target:  5'- cAGGuCCCCCgGugGggUGcaggucccccgguggGGUGCAg- -3'
miRNA:   3'- -UCCuGGGGG-CugCuuAUa--------------CCACGUag -5'
32178 5' -54.2 NC_007016.1 + 113576 0.66 0.943718
Target:  5'- cAGGuCCCCCgGugGggUGcaggucccccgguggGGUGCAg- -3'
miRNA:   3'- -UCCuGGGGG-CugCuuAUa--------------CCACGUag -5'
32178 5' -54.2 NC_007016.1 + 113519 0.66 0.943718
Target:  5'- cAGGuCCCCCgGugGggUGcaggucccccgguggGGUGCAg- -3'
miRNA:   3'- -UCCuGGGGG-CugCuuAUa--------------CCACGUag -5'
32178 5' -54.2 NC_007016.1 + 113974 0.66 0.943718
Target:  5'- cAGGuCCCCCgGugGggUGcaggucccccgguggGGUGCAg- -3'
miRNA:   3'- -UCCuGGGGG-CugCuuAUa--------------CCACGUag -5'
32178 5' -54.2 NC_007016.1 + 114031 0.66 0.943718
Target:  5'- cAGGuCCCCCgGugGggUGcaggucccccgguggGGUGCAg- -3'
miRNA:   3'- -UCCuGGGGG-CugCuuAUa--------------CCACGUag -5'
32178 5' -54.2 NC_007016.1 + 113860 0.66 0.943718
Target:  5'- cAGGuCCCCCgGugGggUGcaggucccccgguggGGUGCAg- -3'
miRNA:   3'- -UCCuGGGGG-CugCuuAUa--------------CCACGUag -5'
32178 5' -54.2 NC_007016.1 + 113747 0.66 0.940426
Target:  5'- cAGGuCCCCCgGugGggUGcagguccccgguggGGUGCAg- -3'
miRNA:   3'- -UCCuGGGGG-CugCuuAUa-------------CCACGUag -5'
32178 5' -54.2 NC_007016.1 + 126272 0.66 0.922696
Target:  5'- aAGGugCgCCGAcCGAGUuuccagaGGUGCAUa -3'
miRNA:   3'- -UCCugGgGGCU-GCUUAua-----CCACGUAg -5'
32178 5' -54.2 NC_007016.1 + 104971 0.67 0.898139
Target:  5'- cGGGCCCCgGugGAGgccaGcGUGCAg- -3'
miRNA:   3'- uCCUGGGGgCugCUUaua-C-CACGUag -5'
32178 5' -54.2 NC_007016.1 + 862 0.67 0.884395
Target:  5'- uGGGGCCCCgGGCucGgg-GG-GCGUCg -3'
miRNA:   3'- -UCCUGGGGgCUGcuUauaCCaCGUAG- -5'
32178 5' -54.2 NC_007016.1 + 57850 0.68 0.846027
Target:  5'- uGGGucuGCCCCCGGgagUGGAUAUGG-GCGa- -3'
miRNA:   3'- -UCC---UGGGGGCU---GCUUAUACCaCGUag -5'
32178 5' -54.2 NC_007016.1 + 26310 0.69 0.829206
Target:  5'- uGGGCCaguCUGugGggUAUGGUccggGCAUUa -3'
miRNA:   3'- uCCUGGg--GGCugCuuAUACCA----CGUAG- -5'
32178 5' -54.2 NC_007016.1 + 22977 0.69 0.829206
Target:  5'- cGGGGCaCUCCGACGGccuUGGcGCGUUg -3'
miRNA:   3'- -UCCUG-GGGGCUGCUuauACCaCGUAG- -5'
32178 5' -54.2 NC_007016.1 + 4600 0.73 0.579625
Target:  5'- uGGaACCCCCGAUGAGUAaaUGGaaaagGCAUg -3'
miRNA:   3'- uCC-UGGGGGCUGCUUAU--ACCa----CGUAg -5'
32178 5' -54.2 NC_007016.1 + 71992 0.74 0.548681
Target:  5'- cGGAgCgCCGACGGAUGaGGUGUAUUa -3'
miRNA:   3'- uCCUgGgGGCUGCUUAUaCCACGUAG- -5'
32178 5' -54.2 NC_007016.1 + 84132 1.1 0.002812
Target:  5'- cAGGACCCCCGACGAAUAUGGUGCAUCg -3'
miRNA:   3'- -UCCUGGGGGCUGCUUAUACCACGUAG- -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.