miRNA display CGI


Results 1 - 12 of 12 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
30654 3' -47.5 NC_006549.1 + 6656 0.66 0.999752
Target:  5'- aCGGGACCcgcuGGCGAUcc-GggUCc -3'
miRNA:   3'- gGUCCUGGuuuuCCGCUAcuuCuuAG- -5'
30654 3' -47.5 NC_006549.1 + 109090 0.66 0.999497
Target:  5'- -gGGGAcCCGAAAuGGuCGuacGUGAGGAAUCc -3'
miRNA:   3'- ggUCCU-GGUUUU-CC-GC---UACUUCUUAG- -5'
30654 3' -47.5 NC_006549.1 + 16154 0.66 0.999497
Target:  5'- -gGGGAgUAGGAGGCuuggGggGggUCu -3'
miRNA:   3'- ggUCCUgGUUUUCCGcua-CuuCuuAG- -5'
30654 3' -47.5 NC_006549.1 + 61886 0.67 0.998566
Target:  5'- -gGGGGCgUAAGAuGGCGcgcgggAUGGAGAGUCg -3'
miRNA:   3'- ggUCCUG-GUUUU-CCGC------UACUUCUUAG- -5'
30654 3' -47.5 NC_006549.1 + 41141 0.68 0.996463
Target:  5'- aCGGGACCuAGGGGCccGA-GAGGAccuAUCg -3'
miRNA:   3'- gGUCCUGGuUUUCCG--CUaCUUCU---UAG- -5'
30654 3' -47.5 NC_006549.1 + 40921 0.69 0.993345
Target:  5'- -uGGGGCCGAGAGGaaacGAAGGAUUc -3'
miRNA:   3'- ggUCCUGGUUUUCCgcuaCUUCUUAG- -5'
30654 3' -47.5 NC_006549.1 + 102124 0.69 0.993345
Target:  5'- -gGGGGCCAGGAGGUccUGggGGGc- -3'
miRNA:   3'- ggUCCUGGUUUUCCGcuACuuCUUag -5'
30654 3' -47.5 NC_006549.1 + 99583 0.7 0.984925
Target:  5'- uCgGGGACCuc-GGGCGA--GGGAGUCu -3'
miRNA:   3'- -GgUCCUGGuuuUCCGCUacUUCUUAG- -5'
30654 3' -47.5 NC_006549.1 + 7726 0.73 0.946548
Target:  5'- cCCAGGGgcCCAGGGGGgcCGAUGGgccgcagGGAAUCa -3'
miRNA:   3'- -GGUCCU--GGUUUUCC--GCUACU-------UCUUAG- -5'
30654 3' -47.5 NC_006549.1 + 41501 0.74 0.91443
Target:  5'- -aAGGACCuAAGGGCGAacagGggGAcgCg -3'
miRNA:   3'- ggUCCUGGuUUUCCGCUa---CuuCUuaG- -5'
30654 3' -47.5 NC_006549.1 + 7801 0.76 0.872207
Target:  5'- -aGGGACCAAAGGGCGAaaAGGGAc- -3'
miRNA:   3'- ggUCCUGGUUUUCCGCUacUUCUUag -5'
30654 3' -47.5 NC_006549.1 + 16262 0.77 0.830276
Target:  5'- -gAGGGCUAGGAGGCGucgGAGGggUg -3'
miRNA:   3'- ggUCCUGGUUUUCCGCua-CUUCuuAg -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.