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
12185 3' -55.1 NC_003309.1 + 48190 1.12 0.000691
Target:  5'- cGAACUCCACCUGACGCCGAAGACCGCu -3'
miRNA:   3'- -CUUGAGGUGGACUGCGGCUUCUGGCG- -5'
12185 3' -55.1 NC_003309.1 + 46577 0.74 0.301116
Target:  5'- cGAAUUCCGCaaUGGCGUCGAucgacGGAUCGCa -3'
miRNA:   3'- -CUUGAGGUGg-ACUGCGGCU-----UCUGGCG- -5'
12185 3' -55.1 NC_003309.1 + 12887 0.72 0.363044
Target:  5'- -cGCUCCgaacACCUGagacaucgccgcgcGCGCCGAAaACCGCg -3'
miRNA:   3'- cuUGAGG----UGGAC--------------UGCGGCUUcUGGCG- -5'
12185 3' -55.1 NC_003309.1 + 10694 0.72 0.392161
Target:  5'- cGAGCUCCugCUG-CGC-GgcGGCCGUc -3'
miRNA:   3'- -CUUGAGGugGACuGCGgCuuCUGGCG- -5'
12185 3' -55.1 NC_003309.1 + 16195 0.7 0.489012
Target:  5'- cGAACUCgCACCagucgucGACGCCGAucGAuCCGUc -3'
miRNA:   3'- -CUUGAG-GUGGa------CUGCGGCUu-CU-GGCG- -5'
12185 3' -55.1 NC_003309.1 + 53027 0.69 0.562979
Target:  5'- cGGACuUCCACUUGACGgCCuc-GugCGCa -3'
miRNA:   3'- -CUUG-AGGUGGACUGC-GGcuuCugGCG- -5'
12185 3' -55.1 NC_003309.1 + 43421 0.68 0.573826
Target:  5'- uGAACagCACCUGugcgUGCUGgAAGAUCGCg -3'
miRNA:   3'- -CUUGagGUGGACu---GCGGC-UUCUGGCG- -5'
12185 3' -55.1 NC_003309.1 + 503 0.68 0.58472
Target:  5'- cGAGCcCCAgCauuGCGCCGAAG-CCGCc -3'
miRNA:   3'- -CUUGaGGUgGac-UGCGGCUUCuGGCG- -5'
12185 3' -55.1 NC_003309.1 + 37325 0.68 0.595653
Target:  5'- cGGGCgUCUACCUG-CGCgCGAucGugCGCg -3'
miRNA:   3'- -CUUG-AGGUGGACuGCG-GCUu-CugGCG- -5'
12185 3' -55.1 NC_003309.1 + 4929 0.68 0.625303
Target:  5'- cGAAUUCgGCCUGuugcucgaccgacaGCGCCGu--ACCGCc -3'
miRNA:   3'- -CUUGAGgUGGAC--------------UGCGGCuucUGGCG- -5'
12185 3' -55.1 NC_003309.1 + 41286 0.68 0.628604
Target:  5'- gGAACg--GCUUGACGCUGgcGGCCGg -3'
miRNA:   3'- -CUUGaggUGGACUGCGGCuuCUGGCg -5'
12185 3' -55.1 NC_003309.1 + 3576 0.67 0.650601
Target:  5'- cAGCcCCA-CUGGCGCCc--GACCGCg -3'
miRNA:   3'- cUUGaGGUgGACUGCGGcuuCUGGCG- -5'
12185 3' -55.1 NC_003309.1 + 19896 0.67 0.672531
Target:  5'- cGAGCUCgaucgCugCUG-CGCCGc-GACCGUg -3'
miRNA:   3'- -CUUGAG-----GugGACuGCGGCuuCUGGCG- -5'
12185 3' -55.1 NC_003309.1 + 16811 0.67 0.683444
Target:  5'- cGAGCUCguCCU--CGCCGA-GAUUGCg -3'
miRNA:   3'- -CUUGAGguGGAcuGCGGCUuCUGGCG- -5'
12185 3' -55.1 NC_003309.1 + 10304 0.67 0.683444
Target:  5'- -cGCUgucgCCGCCUGcguCGCCGc-GACUGCg -3'
miRNA:   3'- cuUGA----GGUGGACu--GCGGCuuCUGGCG- -5'
12185 3' -55.1 NC_003309.1 + 10946 0.66 0.705113
Target:  5'- cGAGCgCCGUCUG-CGCCGuc-GCCGCg -3'
miRNA:   3'- -CUUGaGGUGGACuGCGGCuucUGGCG- -5'
12185 3' -55.1 NC_003309.1 + 10227 0.66 0.715845
Target:  5'- cGAGCUUCACgaUGcCGUCGAGGugcuCUGCg -3'
miRNA:   3'- -CUUGAGGUGg-ACuGCGGCUUCu---GGCG- -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.