miRNA display CGI


Results 1 - 20 of 20 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
23161 3' -59.6 NC_005178.1 + 11436 0.66 0.37646
Target:  5'- uAGCCGUcuUGGcGuUGuuGGCCgACGCu -3'
miRNA:   3'- uUCGGCGauACC-C-ACggCUGGgUGCG- -5'
23161 3' -59.6 NC_005178.1 + 22942 0.66 0.37646
Target:  5'- -uGCCGCUGgcccagugccUGuGGUGCUGAagCGCGUa -3'
miRNA:   3'- uuCGGCGAU----------AC-CCACGGCUggGUGCG- -5'
23161 3' -59.6 NC_005178.1 + 12806 0.66 0.356382
Target:  5'- aGGGCCGCgugGUGGGUgaGCUGcucuucgaaggucaGCUCGCGg -3'
miRNA:   3'- -UUCGGCGa--UACCCA--CGGC--------------UGGGUGCg -5'
23161 3' -59.6 NC_005178.1 + 11711 0.66 0.35382
Target:  5'- -cGCuCGCU--GGGcGCCGuccaacgagaacgacACCCGCGCa -3'
miRNA:   3'- uuCG-GCGAuaCCCaCGGC---------------UGGGUGCG- -5'
23161 3' -59.6 NC_005178.1 + 33781 0.66 0.342033
Target:  5'- cAGCgGC-AUG-GUGCCGcCCUugGCg -3'
miRNA:   3'- uUCGgCGaUACcCACGGCuGGGugCG- -5'
23161 3' -59.6 NC_005178.1 + 7391 0.66 0.338718
Target:  5'- uGGCCGCccguauaGCCGACgCCACGCu -3'
miRNA:   3'- uUCGGCGauacccaCGGCUG-GGUGCG- -5'
23161 3' -59.6 NC_005178.1 + 9366 0.66 0.333789
Target:  5'- cAGUCGCca-GGGcGCCGGCCgAgGCg -3'
miRNA:   3'- uUCGGCGauaCCCaCGGCUGGgUgCG- -5'
23161 3' -59.6 NC_005178.1 + 10794 0.66 0.332973
Target:  5'- cAGgCGUUccucGGGUGucuccguCCGGCCCACGCc -3'
miRNA:   3'- uUCgGCGAua--CCCAC-------GGCUGGGUGCG- -5'
23161 3' -59.6 NC_005178.1 + 34192 0.67 0.302281
Target:  5'- cGGCCGUgcaucGGGUGCUGgACCUcgGCGUc -3'
miRNA:   3'- uUCGGCGaua--CCCACGGC-UGGG--UGCG- -5'
23161 3' -59.6 NC_005178.1 + 8559 0.67 0.302281
Target:  5'- uAGauGCUAUcGGUGCCG-CCCAgGCc -3'
miRNA:   3'- uUCggCGAUAcCCACGGCuGGGUgCG- -5'
23161 3' -59.6 NC_005178.1 + 9426 0.68 0.280188
Target:  5'- -cGCCGCcAUcGGUGCCaccGCCCAgGCc -3'
miRNA:   3'- uuCGGCGaUAcCCACGGc--UGGGUgCG- -5'
23161 3' -59.6 NC_005178.1 + 16831 0.68 0.273115
Target:  5'- aGGGCgGCgAUGGGcuugGCCuGGCCCAgGUa -3'
miRNA:   3'- -UUCGgCGaUACCCa---CGG-CUGGGUgCG- -5'
23161 3' -59.6 NC_005178.1 + 16536 0.68 0.246249
Target:  5'- cAGGCCGgUGgcGGUGCUGccGCCCACGg -3'
miRNA:   3'- -UUCGGCgAUacCCACGGC--UGGGUGCg -5'
23161 3' -59.6 NC_005178.1 + 28560 0.68 0.246249
Target:  5'- -cGCCGCgccaccgGGGgcgucGCCGGcauuCCCGCGCc -3'
miRNA:   3'- uuCGGCGaua----CCCa----CGGCU----GGGUGCG- -5'
23161 3' -59.6 NC_005178.1 + 5106 0.69 0.233657
Target:  5'- uGGCCGCgugcugagcUGGGUuCCGGCCCA-GCc -3'
miRNA:   3'- uUCGGCGau-------ACCCAcGGCUGGGUgCG- -5'
23161 3' -59.6 NC_005178.1 + 7058 0.7 0.199105
Target:  5'- uGAGCCGCauUGaGUGcCCGGCCCugGg -3'
miRNA:   3'- -UUCGGCGauACcCAC-GGCUGGGugCg -5'
23161 3' -59.6 NC_005178.1 + 30721 0.7 0.188616
Target:  5'- aAAGCCGgUGgagGGGaucguUGCCGGCaUCACGCc -3'
miRNA:   3'- -UUCGGCgAUa--CCC-----ACGGCUG-GGUGCG- -5'
23161 3' -59.6 NC_005178.1 + 2306 0.71 0.151392
Target:  5'- cAGCCGCgcgcgaGGGUGaCCGugCCGCugGCg -3'
miRNA:   3'- uUCGGCGaua---CCCAC-GGCugGGUG--CG- -5'
23161 3' -59.6 NC_005178.1 + 26191 0.73 0.117585
Target:  5'- uGGCCGCUGcGGGcguggcGCUGGCUCugGCg -3'
miRNA:   3'- uUCGGCGAUaCCCa-----CGGCUGGGugCG- -5'
23161 3' -59.6 NC_005178.1 + 32003 1.08 0.000234
Target:  5'- gAAGCCGCUAUGGGUGCCGACCCACGCc -3'
miRNA:   3'- -UUCGGCGAUACCCACGGCUGGGUGCG- -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.