miRNA display CGI


Results 1 - 20 of 23 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
23170 3' -55.2 NC_005178.1 + 2440 0.66 0.60368
Target:  5'- cGGACCGGCcgccaGCGGcagcucgGCggCGAGUAGu -3'
miRNA:   3'- uCCUGGUCG-----CGCUua-----CGuaGCUCGUC- -5'
23170 3' -55.2 NC_005178.1 + 33284 0.66 0.60368
Target:  5'- --cGCuCGGCGCGAAUcuCGUCGAGguGa -3'
miRNA:   3'- uccUG-GUCGCGCUUAc-GUAGCUCguC- -5'
23170 3' -55.2 NC_005178.1 + 13903 0.66 0.60368
Target:  5'- cGGGCCAGCGCGGAcua--UGAGUAu -3'
miRNA:   3'- uCCUGGUCGCGCUUacguaGCUCGUc -5'
23170 3' -55.2 NC_005178.1 + 10325 0.66 0.592309
Target:  5'- gAGGGCCgGGCGCGGAggggcgaagcGCGcCGGGCu- -3'
miRNA:   3'- -UCCUGG-UCGCGCUUa---------CGUaGCUCGuc -5'
23170 3' -55.2 NC_005178.1 + 21038 0.66 0.569683
Target:  5'- cGGGG--GGCGCGGcGUGCGUCGAGg-- -3'
miRNA:   3'- -UCCUggUCGCGCU-UACGUAGCUCguc -5'
23170 3' -55.2 NC_005178.1 + 36344 0.67 0.536176
Target:  5'- cAGGuCCAGCGCGGcgGCga-GuGCAc -3'
miRNA:   3'- -UCCuGGUCGCGCUuaCGuagCuCGUc -5'
23170 3' -55.2 NC_005178.1 + 14045 0.67 0.503383
Target:  5'- cAGGAacCCAGC-CGGucaGUGCcUUGAGCAGc -3'
miRNA:   3'- -UCCU--GGUCGcGCU---UACGuAGCUCGUC- -5'
23170 3' -55.2 NC_005178.1 + 18990 0.67 0.503383
Target:  5'- cGG-UCGGCGCGggUuGUgAUCGAGCGc -3'
miRNA:   3'- uCCuGGUCGCGCuuA-CG-UAGCUCGUc -5'
23170 3' -55.2 NC_005178.1 + 35541 0.68 0.482011
Target:  5'- uGGGCgaAGCGCGAccGCAUUGGcCAGg -3'
miRNA:   3'- uCCUGg-UCGCGCUuaCGUAGCUcGUC- -5'
23170 3' -55.2 NC_005178.1 + 32122 0.68 0.471491
Target:  5'- cGGGCCGuCGCGAcauccGUAUCGAGCu- -3'
miRNA:   3'- uCCUGGUcGCGCUua---CGUAGCUCGuc -5'
23170 3' -55.2 NC_005178.1 + 20448 0.69 0.420747
Target:  5'- uGGcCCAGgaCGCGGA--CGUCGAGCAGa -3'
miRNA:   3'- uCCuGGUC--GCGCUUacGUAGCUCGUC- -5'
23170 3' -55.2 NC_005178.1 + 10091 0.69 0.410999
Target:  5'- uGGcCCGGCGC--AUGUuccagGUCGAGCGGg -3'
miRNA:   3'- uCCuGGUCGCGcuUACG-----UAGCUCGUC- -5'
23170 3' -55.2 NC_005178.1 + 31232 0.69 0.382612
Target:  5'- cGGACUGGgGCGAcaGCAucgUCGAGCGc -3'
miRNA:   3'- uCCUGGUCgCGCUuaCGU---AGCUCGUc -5'
23170 3' -55.2 NC_005178.1 + 12279 0.7 0.373444
Target:  5'- aAGG-UCAGCGCGGAUGCGcaGGGCu- -3'
miRNA:   3'- -UCCuGGUCGCGCUUACGUagCUCGuc -5'
23170 3' -55.2 NC_005178.1 + 20820 0.7 0.364426
Target:  5'- uGGGCCAGCGCagcGAUGCGagGAcCAGg -3'
miRNA:   3'- uCCUGGUCGCGc--UUACGUagCUcGUC- -5'
23170 3' -55.2 NC_005178.1 + 8220 0.7 0.338288
Target:  5'- cGGACCAGCGgGuuUGCAacgUCGccacGGUAGg -3'
miRNA:   3'- uCCUGGUCGCgCuuACGU---AGC----UCGUC- -5'
23170 3' -55.2 NC_005178.1 + 9931 0.71 0.324915
Target:  5'- gAGGGCCAGCGCauccuguuguugcugGAGcGCGUCGcuGUAGg -3'
miRNA:   3'- -UCCUGGUCGCG---------------CUUaCGUAGCu-CGUC- -5'
23170 3' -55.2 NC_005178.1 + 33887 0.71 0.321634
Target:  5'- gAGGACCAGgGCGuccUGCcgCGccuGGCGGc -3'
miRNA:   3'- -UCCUGGUCgCGCuu-ACGuaGC---UCGUC- -5'
23170 3' -55.2 NC_005178.1 + 34186 0.71 0.3056
Target:  5'- aAGGGCCGGC-CG--UGCAUCGGGUg- -3'
miRNA:   3'- -UCCUGGUCGcGCuuACGUAGCUCGuc -5'
23170 3' -55.2 NC_005178.1 + 25402 0.73 0.228337
Target:  5'- cAGGACgucgcgguaGGCGCGGgucuGUGCGUCGGcGCAGg -3'
miRNA:   3'- -UCCUGg--------UCGCGCU----UACGUAGCU-CGUC- -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.