miRNA display CGI


Results 1 - 20 of 82 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
11500 3' -56.3 NC_003085.1 + 8249 1.12 0.000421
Target:  5'- gUCACCGUGCCAGAGCAGUCCAACGCCu -3'
miRNA:   3'- -AGUGGCACGGUCUCGUCAGGUUGCGG- -5'
11500 3' -56.3 NC_003085.1 + 48396 0.79 0.098819
Target:  5'- cCACCGUcccauucagcggaGCCAcgcGGGCAGUUCGGCGCCu -3'
miRNA:   3'- aGUGGCA-------------CGGU---CUCGUCAGGUUGCGG- -5'
11500 3' -56.3 NC_003085.1 + 26139 0.76 0.177815
Target:  5'- -gGCCG-GCCAGAGCGGcgucaagcaucUCCAGCGgCa -3'
miRNA:   3'- agUGGCaCGGUCUCGUC-----------AGGUUGCgG- -5'
11500 3' -56.3 NC_003085.1 + 6816 0.75 0.198058
Target:  5'- gUCACCGUcgacccacccaGCCAGAGgAGUCCuccAUGUCg -3'
miRNA:   3'- -AGUGGCA-----------CGGUCUCgUCAGGu--UGCGG- -5'
11500 3' -56.3 NC_003085.1 + 965 0.74 0.214533
Target:  5'- -gGCCGcUGCCGGGGCAGgac-ACGCCg -3'
miRNA:   3'- agUGGC-ACGGUCUCGUCagguUGCGG- -5'
11500 3' -56.3 NC_003085.1 + 47153 0.74 0.238315
Target:  5'- -gGCCGgugGCgAG-GCAGgCCAGCGCCg -3'
miRNA:   3'- agUGGCa--CGgUCuCGUCaGGUUGCGG- -5'
11500 3' -56.3 NC_003085.1 + 7107 0.73 0.251013
Target:  5'- cUCGCCG-GCCGGaAGaCGGUCacGCGCCg -3'
miRNA:   3'- -AGUGGCaCGGUC-UC-GUCAGguUGCGG- -5'
11500 3' -56.3 NC_003085.1 + 38775 0.72 0.292456
Target:  5'- -gGCCGcGCgCAGGGCugguguGUCCAgcACGCCg -3'
miRNA:   3'- agUGGCaCG-GUCUCGu-----CAGGU--UGCGG- -5'
11500 3' -56.3 NC_003085.1 + 8916 0.72 0.315107
Target:  5'- gUCACCGUGCCgucguuguuGGGGaCAGUggugacugugCCAGuCGCCu -3'
miRNA:   3'- -AGUGGCACGG---------UCUC-GUCA----------GGUU-GCGG- -5'
11500 3' -56.3 NC_003085.1 + 17440 0.71 0.322946
Target:  5'- aUCACCGcGCCGGuacGCAcgaguuGUCCAagggaggcaGCGCCa -3'
miRNA:   3'- -AGUGGCaCGGUCu--CGU------CAGGU---------UGCGG- -5'
11500 3' -56.3 NC_003085.1 + 35130 0.71 0.347329
Target:  5'- -gGCCGUGCCAuuGUGGgCCGGCuGCCg -3'
miRNA:   3'- agUGGCACGGUcuCGUCaGGUUG-CGG- -5'
11500 3' -56.3 NC_003085.1 + 45908 0.71 0.364302
Target:  5'- uUCGCCGUGugcgcCCAGAgagGCAG-CCAGaguCGCCa -3'
miRNA:   3'- -AGUGGCAC-----GGUCU---CGUCaGGUU---GCGG- -5'
11500 3' -56.3 NC_003085.1 + 11611 0.7 0.373001
Target:  5'- -gGCCG-GCCAGcGCAGg-CAGCGCUa -3'
miRNA:   3'- agUGGCaCGGUCuCGUCagGUUGCGG- -5'
11500 3' -56.3 NC_003085.1 + 708 0.7 0.373001
Target:  5'- -gGCgCG-GCCuGAGCAgGUCCAcccGCGCCu -3'
miRNA:   3'- agUG-GCaCGGuCUCGU-CAGGU---UGCGG- -5'
11500 3' -56.3 NC_003085.1 + 27896 0.7 0.38095
Target:  5'- gUCACCugGUG-CAGGGC-GUCCAcgagcucGCGCCg -3'
miRNA:   3'- -AGUGG--CACgGUCUCGuCAGGU-------UGCGG- -5'
11500 3' -56.3 NC_003085.1 + 1035 0.7 0.381841
Target:  5'- cUCGCCGU-CCAu-GCGGaggaagCCAGCGCCg -3'
miRNA:   3'- -AGUGGCAcGGUcuCGUCa-----GGUUGCGG- -5'
11500 3' -56.3 NC_003085.1 + 34056 0.7 0.381841
Target:  5'- cUCACCGcUGCCGGuuuGGCucuGuUCCGcCGCCg -3'
miRNA:   3'- -AGUGGC-ACGGUC---UCGu--C-AGGUuGCGG- -5'
11500 3' -56.3 NC_003085.1 + 1490 0.7 0.390818
Target:  5'- gUCACCGUcGCCAGccuCGG-CCGguGCGCCu -3'
miRNA:   3'- -AGUGGCA-CGGUCuc-GUCaGGU--UGCGG- -5'
11500 3' -56.3 NC_003085.1 + 5687 0.7 0.399933
Target:  5'- aCGCUG-GCCGGuGUugAGUCCAagcccGCGCCc -3'
miRNA:   3'- aGUGGCaCGGUCuCG--UCAGGU-----UGCGG- -5'
11500 3' -56.3 NC_003085.1 + 25885 0.7 0.399933
Target:  5'- cCGCCGUGCCGGAcGCGcuucUCCAGaagauuggGCCg -3'
miRNA:   3'- aGUGGCACGGUCU-CGUc---AGGUUg-------CGG- -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.