miRNA display CGI


Results 1 - 11 of 11 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
12258 3' -51.8 NC_003309.1 + 50253 0.72 0.609869
Target:  5'- cGCG-AAAGCuGA-UCGUCGCGcGCGCg -3'
miRNA:   3'- -UGCuUUUCGcCUgAGCAGCGCaUGCG- -5'
12258 3' -51.8 NC_003309.1 + 38494 0.69 0.763037
Target:  5'- gGCGGAAcGCcucGAC-CGUaaaGCGUGCGCa -3'
miRNA:   3'- -UGCUUUuCGc--CUGaGCAg--CGCAUGCG- -5'
12258 3' -51.8 NC_003309.1 + 31663 0.69 0.773325
Target:  5'- cGCGAcauuccGAAGCuG-CUCGcagugcccgcUCGCGUGCGCu -3'
miRNA:   3'- -UGCU------UUUCGcCuGAGC----------AGCGCAUGCG- -5'
12258 3' -51.8 NC_003309.1 + 45279 0.68 0.797381
Target:  5'- cCGGuacAGCGGAUUuggucgaaugccggcCGcCGCGUGCGCc -3'
miRNA:   3'- uGCUuu-UCGCCUGA---------------GCaGCGCAUGCG- -5'
12258 3' -51.8 NC_003309.1 + 9716 0.68 0.803242
Target:  5'- cGCGucGAGCGGuuGCcgugUGUCGCGcgcgaUGCGCa -3'
miRNA:   3'- -UGCuuUUCGCC--UGa---GCAGCGC-----AUGCG- -5'
12258 3' -51.8 NC_003309.1 + 11796 0.67 0.857817
Target:  5'- gGCGAucgccuuuucGAGC-GACUUGUaCGCGUcgGCGCg -3'
miRNA:   3'- -UGCUu---------UUCGcCUGAGCA-GCGCA--UGCG- -5'
12258 3' -51.8 NC_003309.1 + 47945 0.66 0.873368
Target:  5'- gGCGAAGcuGCGaccGAUaguucggUCGUCGCGcACGCg -3'
miRNA:   3'- -UGCUUUu-CGC---CUG-------AGCAGCGCaUGCG- -5'
12258 3' -51.8 NC_003309.1 + 11507 0.66 0.874161
Target:  5'- uGCGAc--GCGaGGCUCGcCGUGUcgaucGCGCc -3'
miRNA:   3'- -UGCUuuuCGC-CUGAGCaGCGCA-----UGCG- -5'
12258 3' -51.8 NC_003309.1 + 48725 0.66 0.889476
Target:  5'- aGCGAAucaucAGGUcGACUgccaaUGcCGCGUGCGCg -3'
miRNA:   3'- -UGCUU-----UUCGcCUGA-----GCaGCGCAUGCG- -5'
12258 3' -51.8 NC_003309.1 + 10678 0.66 0.889476
Target:  5'- gGCGGccgucucGCGGGCgaugaUCGcCGCGUACGg -3'
miRNA:   3'- -UGCUuuu----CGCCUG-----AGCaGCGCAUGCg -5'
12258 3' -51.8 NC_003309.1 + 17816 0.66 0.903712
Target:  5'- cGCGuc-GGCGa--UCGUCGCcguGUGCGCg -3'
miRNA:   3'- -UGCuuuUCGCcugAGCAGCG---CAUGCG- -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.