miRNA display CGI


Results 1 - 20 of 32 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
18055 3' -51.2 NC_004680.1 + 20888 0.66 0.930122
Target:  5'- aACG-CGCCGGCAgCGUCGAGgaaguuCGGg- -3'
miRNA:   3'- -UGCuGCGGUCGU-GCAGUUUau----GCUga -5'
18055 3' -51.2 NC_004680.1 + 23150 0.66 0.926654
Target:  5'- aGCGGCGCCAGUgugaacacugauccaGuCGcCAAGaGCGGCg -3'
miRNA:   3'- -UGCUGCGGUCG---------------U-GCaGUUUaUGCUGa -5'
18055 3' -51.2 NC_004680.1 + 34648 0.66 0.926654
Target:  5'- gGCGACGgCacccacaacaugggcGGCGCaGaCGGAUACGACUg -3'
miRNA:   3'- -UGCUGCgG---------------UCGUG-CaGUUUAUGCUGA- -5'
18055 3' -51.2 NC_004680.1 + 51099 0.66 0.924284
Target:  5'- cCGACGagaAGCGCGUCAAGUuccCGcACg -3'
miRNA:   3'- uGCUGCgg-UCGUGCAGUUUAu--GC-UGa -5'
18055 3' -51.2 NC_004680.1 + 3993 0.66 0.915625
Target:  5'- uACGGCGCUgaccGGCACGgagugccgcUGCGACg -3'
miRNA:   3'- -UGCUGCGG----UCGUGCaguuu----AUGCUGa -5'
18055 3' -51.2 NC_004680.1 + 56231 0.66 0.912396
Target:  5'- gACGACcCCAGcCGCGUCGAAguucucauccucacCGACa -3'
miRNA:   3'- -UGCUGcGGUC-GUGCAGUUUau------------GCUGa -5'
18055 3' -51.2 NC_004680.1 + 41443 0.66 0.911741
Target:  5'- -aGACuGUCAGCuucaGCGUguGGUGCGGCg -3'
miRNA:   3'- ugCUG-CGGUCG----UGCAguUUAUGCUGa -5'
18055 3' -51.2 NC_004680.1 + 18377 0.66 0.905039
Target:  5'- aACGugcCGCCAGUAgCGUCuuccgugACGACg -3'
miRNA:   3'- -UGCu--GCGGUCGU-GCAGuuua---UGCUGa -5'
18055 3' -51.2 NC_004680.1 + 25643 0.66 0.905039
Target:  5'- cCGACGCC-GCACc-CAAAcacUGCGACa -3'
miRNA:   3'- uGCUGCGGuCGUGcaGUUU---AUGCUGa -5'
18055 3' -51.2 NC_004680.1 + 43513 0.66 0.904353
Target:  5'- cACGACGCCuccuccgcgaccuAGUGCGUUg---ACGACg -3'
miRNA:   3'- -UGCUGCGG-------------UCGUGCAGuuuaUGCUGa -5'
18055 3' -51.2 NC_004680.1 + 28340 0.66 0.897339
Target:  5'- gACGGCGCgGGCggugucgGCGUCGGGgcCGAUc -3'
miRNA:   3'- -UGCUGCGgUCG-------UGCAGUUUauGCUGa -5'
18055 3' -51.2 NC_004680.1 + 57239 0.67 0.874639
Target:  5'- gGCGGCGCCGGgGaauccgugccauuCGUCGAAcACGAg- -3'
miRNA:   3'- -UGCUGCGGUCgU-------------GCAGUUUaUGCUga -5'
18055 3' -51.2 NC_004680.1 + 41818 0.67 0.85903
Target:  5'- aACGAgGCCGGCGUGUgGG--GCGGCUu -3'
miRNA:   3'- -UGCUgCGGUCGUGCAgUUuaUGCUGA- -5'
18055 3' -51.2 NC_004680.1 + 41853 0.67 0.858183
Target:  5'- cAUGGCGCUuggacggGGCAgGUCcagcAGAUGCGGCg -3'
miRNA:   3'- -UGCUGCGG-------UCGUgCAG----UUUAUGCUGa -5'
18055 3' -51.2 NC_004680.1 + 27667 0.68 0.823314
Target:  5'- -aGAUGCCGGgGCGgccauUCAcGUACGGCg -3'
miRNA:   3'- ugCUGCGGUCgUGC-----AGUuUAUGCUGa -5'
18055 3' -51.2 NC_004680.1 + 28845 0.68 0.813834
Target:  5'- -gGACGCCGGCAUGUUcuucGCGAa- -3'
miRNA:   3'- ugCUGCGGUCGUGCAGuuuaUGCUga -5'
18055 3' -51.2 NC_004680.1 + 11418 0.69 0.801212
Target:  5'- gGCGGCGCgGGCACGcuucuccgccagUuuguggcgggcaucCAGAUACGACg -3'
miRNA:   3'- -UGCUGCGgUCGUGC------------A--------------GUUUAUGCUGa -5'
18055 3' -51.2 NC_004680.1 + 4949 0.69 0.774028
Target:  5'- cCGACGUCGGCACGgccg--ACGAUg -3'
miRNA:   3'- uGCUGCGGUCGUGCaguuuaUGCUGa -5'
18055 3' -51.2 NC_004680.1 + 25339 0.69 0.763663
Target:  5'- gACGAgggcCGCCAGUucgGCGUCAAGcuCGGCg -3'
miRNA:   3'- -UGCU----GCGGUCG---UGCAGUUUauGCUGa -5'
18055 3' -51.2 NC_004680.1 + 43531 0.69 0.763663
Target:  5'- uGCGACGCCGcCACGuUCGAccaggGCGGCc -3'
miRNA:   3'- -UGCUGCGGUcGUGC-AGUUua---UGCUGa -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.