miRNA display CGI


Results 1 - 20 of 39 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
22966 3' -51.8 NC_005137.2 + 25670 0.66 0.963674
Target:  5'- cGCGCg--UUGCAACgaGCGUGacgGCGcCa -3'
miRNA:   3'- -UGCGauaAACGUUG--CGCACga-CGCaG- -5'
22966 3' -51.8 NC_005137.2 + 87251 0.66 0.973214
Target:  5'- gGCGUUGUUaaCGGcCGCGUGCacgGCGUUc -3'
miRNA:   3'- -UGCGAUAAacGUU-GCGCACGa--CGCAG- -5'
22966 3' -51.8 NC_005137.2 + 26795 0.66 0.975684
Target:  5'- cGCGC----UGCGACGCGcacGCUuguacgaGCGUCa -3'
miRNA:   3'- -UGCGauaaACGUUGCGCa--CGA-------CGCAG- -5'
22966 3' -51.8 NC_005137.2 + 39962 0.66 0.975948
Target:  5'- gGCGUUuggUUGC-ACGCGUGUUGgccgccauUGUCa -3'
miRNA:   3'- -UGCGAua-AACGuUGCGCACGAC--------GCAG- -5'
22966 3' -51.8 NC_005137.2 + 32639 0.66 0.975948
Target:  5'- aAUGUUGgguuaacaaaUUGCuGGCGCGaUGCUGCGUUu -3'
miRNA:   3'- -UGCGAUa---------AACG-UUGCGC-ACGACGCAG- -5'
22966 3' -51.8 NC_005137.2 + 129994 0.66 0.978472
Target:  5'- uACGUUGUcucGCGGCGCG-GCUGaCGa- -3'
miRNA:   3'- -UGCGAUAaa-CGUUGCGCaCGAC-GCag -5'
22966 3' -51.8 NC_005137.2 + 78796 0.66 0.973214
Target:  5'- uACGUgccGUUUGCGGaGCGggaGCgGCGUCg -3'
miRNA:   3'- -UGCGa--UAAACGUUgCGCa--CGaCGCAG- -5'
22966 3' -51.8 NC_005137.2 + 115740 0.66 0.967084
Target:  5'- gACGCcaaggUGCAACGCaacGUGCgcgcgcgGCGUUu -3'
miRNA:   3'- -UGCGauaa-ACGUUGCG---CACGa------CGCAG- -5'
22966 3' -51.8 NC_005137.2 + 53914 0.66 0.963674
Target:  5'- gAUGCUAauUUUGCccuguACGUa-GCUGCGUCu -3'
miRNA:   3'- -UGCGAU--AAACGu----UGCGcaCGACGCAG- -5'
22966 3' -51.8 NC_005137.2 + 93683 0.66 0.970262
Target:  5'- gACGCaGUUuucgGcCGACGCGUGCauuUGCGcCg -3'
miRNA:   3'- -UGCGaUAAa---C-GUUGCGCACG---ACGCaG- -5'
22966 3' -51.8 NC_005137.2 + 61832 0.67 0.947581
Target:  5'- aGCGCgucUUUGCcgaGCGUGuCUGCGcCa -3'
miRNA:   3'- -UGCGau-AAACGuugCGCAC-GACGCaG- -5'
22966 3' -51.8 NC_005137.2 + 7177 0.67 0.949373
Target:  5'- cGCGCgcgUUGCAgcgcauuucgaaccgGCGCGUGC--CGUCu -3'
miRNA:   3'- -UGCGauaAACGU---------------UGCGCACGacGCAG- -5'
22966 3' -51.8 NC_005137.2 + 96421 0.67 0.956128
Target:  5'- cGCGCg----GCGACGCGcccGCcGCGUUg -3'
miRNA:   3'- -UGCGauaaaCGUUGCGCa--CGaCGCAG- -5'
22966 3' -51.8 NC_005137.2 + 55573 0.67 0.947581
Target:  5'- gACGCgg---GCGGCGcCGUGC-GCGUg -3'
miRNA:   3'- -UGCGauaaaCGUUGC-GCACGaCGCAg -5'
22966 3' -51.8 NC_005137.2 + 57742 0.67 0.947581
Target:  5'- cUGCUAUcugcUUGCGGCGCGcuggGCUcgacGCGUUc -3'
miRNA:   3'- uGCGAUA----AACGUUGCGCa---CGA----CGCAG- -5'
22966 3' -51.8 NC_005137.2 + 33777 0.68 0.915673
Target:  5'- uGCGCg----GCGGCGuUGUGCUGUGcCa -3'
miRNA:   3'- -UGCGauaaaCGUUGC-GCACGACGCaG- -5'
22966 3' -51.8 NC_005137.2 + 17315 0.68 0.927367
Target:  5'- cGCGCUG--UGCGACGU--GC-GCGUCg -3'
miRNA:   3'- -UGCGAUaaACGUUGCGcaCGaCGCAG- -5'
22966 3' -51.8 NC_005137.2 + 38306 0.68 0.916283
Target:  5'- aGCGCUGaccaauuuaaaaaaUGCAAUGCcaGUGUUGCGUUa -3'
miRNA:   3'- -UGCGAUaa------------ACGUUGCG--CACGACGCAG- -5'
22966 3' -51.8 NC_005137.2 + 96332 0.68 0.921653
Target:  5'- gACGCgg---GCAACaGCGUGCUuuuaaguacaGUGUCg -3'
miRNA:   3'- -UGCGauaaaCGUUG-CGCACGA----------CGCAG- -5'
22966 3' -51.8 NC_005137.2 + 45608 0.68 0.921653
Target:  5'- aACGCgu------GCGCGUGCUGCGcCg -3'
miRNA:   3'- -UGCGauaaacguUGCGCACGACGCaG- -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.