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
20763 3' -49.7 NC_004689.1 + 25750 0.66 0.974545
Target:  5'- cGCGUgccagccccaUGAGAACGucuccggcgucuGgCAGGUCCAccGCa -3'
miRNA:   3'- -UGCA----------ACUCUUGC------------CgGUUCAGGUuuCG- -5'
20763 3' -49.7 NC_004689.1 + 13728 0.66 0.974545
Target:  5'- ----cGAGAGCGaGCUugucGUUCAAAGCa -3'
miRNA:   3'- ugcaaCUCUUGC-CGGuu--CAGGUUUCG- -5'
20763 3' -49.7 NC_004689.1 + 9496 0.66 0.971565
Target:  5'- uCGUgGGGcAAUGGCCGGGUCau-AGUa -3'
miRNA:   3'- uGCAaCUC-UUGCCGGUUCAGguuUCG- -5'
20763 3' -49.7 NC_004689.1 + 4139 0.67 0.957132
Target:  5'- ----cGAGGACGGCgAAcGUCUuguGAGGCa -3'
miRNA:   3'- ugcaaCUCUUGCCGgUU-CAGG---UUUCG- -5'
20763 3' -49.7 NC_004689.1 + 21009 0.67 0.95286
Target:  5'- cGCGagcUUGAGAcCGGCCAgcuucguuguggAGUCUccGGCu -3'
miRNA:   3'- -UGC---AACUCUuGCCGGU------------UCAGGuuUCG- -5'
20763 3' -49.7 NC_004689.1 + 35935 0.68 0.938361
Target:  5'- uCG-UGGGGuCGGCCAaauuacuugAGUCCcAAGCu -3'
miRNA:   3'- uGCaACUCUuGCCGGU---------UCAGGuUUCG- -5'
20763 3' -49.7 NC_004689.1 + 11659 0.68 0.921279
Target:  5'- cCGUUGGGAugGGCguAGuaguucguUCCGGcAGCc -3'
miRNA:   3'- uGCAACUCUugCCGguUC--------AGGUU-UCG- -5'
20763 3' -49.7 NC_004689.1 + 47737 0.68 0.915006
Target:  5'- gACGUUGGGGgucaccggAUGGCCG-GUaCCGAAGa -3'
miRNA:   3'- -UGCAACUCU--------UGCCGGUuCA-GGUUUCg -5'
20763 3' -49.7 NC_004689.1 + 35447 0.69 0.894471
Target:  5'- ---aUGcGAACaGGCCGGGUCCGcuGCa -3'
miRNA:   3'- ugcaACuCUUG-CCGGUUCAGGUuuCG- -5'
20763 3' -49.7 NC_004689.1 + 11134 0.69 0.879385
Target:  5'- cGCGUcGGGGuUGGCCGGGggagCCGGAGg -3'
miRNA:   3'- -UGCAaCUCUuGCCGGUUCa---GGUUUCg -5'
20763 3' -49.7 NC_004689.1 + 50876 0.7 0.863233
Target:  5'- cGCGUUGAccacGAACGccaGCCAcaugcaGGUCCAGGGa -3'
miRNA:   3'- -UGCAACU----CUUGC---CGGU------UCAGGUUUCg -5'
20763 3' -49.7 NC_004689.1 + 6855 1.14 0.002503
Target:  5'- gACGUUGAGAACGGCCAAGUCCAAAGCg -3'
miRNA:   3'- -UGCAACUCUUGCCGGUUCAGGUUUCG- -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.