miRNA display CGI


Results 1 - 20 of 23 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
5298 3' -57 NC_001798.1 + 72224 0.66 0.885012
Target:  5'- gCCAGGggggCCG-UCGAGcagCUGCGGCc -3'
miRNA:   3'- -GGUCCaa--GGCgGGCUCua-GACGUCGu -5'
5298 3' -57 NC_001798.1 + 106102 0.66 0.878038
Target:  5'- aCCcGGcgCCGCgaCCGccGGGUCUGCGGUu -3'
miRNA:   3'- -GGuCCaaGGCG--GGC--UCUAGACGUCGu -5'
5298 3' -57 NC_001798.1 + 51668 0.66 0.878038
Target:  5'- -aAGGUguuuuUCCGCCaGAcg-CUGCAGCAg -3'
miRNA:   3'- ggUCCA-----AGGCGGgCUcuaGACGUCGU- -5'
5298 3' -57 NC_001798.1 + 63883 0.66 0.870848
Target:  5'- cCCAGGUuuUCCGUCaCcAGGUCguccGCGGCc -3'
miRNA:   3'- -GGUCCA--AGGCGG-GcUCUAGa---CGUCGu -5'
5298 3' -57 NC_001798.1 + 105896 0.66 0.870848
Target:  5'- aCUcGGUUuuGgUCCGGGGUCUGCucuuGGCGg -3'
miRNA:   3'- -GGuCCAAggC-GGGCUCUAGACG----UCGU- -5'
5298 3' -57 NC_001798.1 + 4410 0.66 0.870848
Target:  5'- gCGGGg--CGCCgGGGGUC-GCGGCGa -3'
miRNA:   3'- gGUCCaagGCGGgCUCUAGaCGUCGU- -5'
5298 3' -57 NC_001798.1 + 34854 0.66 0.855842
Target:  5'- gCCGGGcgggggacgccUUCCGCCCG-GcgCcggGCGGCu -3'
miRNA:   3'- -GGUCC-----------AAGGCGGGCuCuaGa--CGUCGu -5'
5298 3' -57 NC_001798.1 + 104586 0.67 0.848037
Target:  5'- cUCGGGgaacgUCGCCCGGGGcCgccgGUAGCAc -3'
miRNA:   3'- -GGUCCaa---GGCGGGCUCUaGa---CGUCGU- -5'
5298 3' -57 NC_001798.1 + 2253 0.67 0.848037
Target:  5'- gCGGGcgcgCCGCCgGGGggCgggGCGGCGc -3'
miRNA:   3'- gGUCCaa--GGCGGgCUCuaGa--CGUCGU- -5'
5298 3' -57 NC_001798.1 + 60081 0.67 0.84004
Target:  5'- gCCGGaGgaCCGCCCGcaugCUGCAGUc -3'
miRNA:   3'- -GGUC-CaaGGCGGGCucuaGACGUCGu -5'
5298 3' -57 NC_001798.1 + 16640 0.67 0.823494
Target:  5'- gCAGGUcuugCCGCCCGGcGUCcGCGGa- -3'
miRNA:   3'- gGUCCAa---GGCGGGCUcUAGaCGUCgu -5'
5298 3' -57 NC_001798.1 + 109360 0.67 0.814961
Target:  5'- gCCGGccuggCCGCCCGGGGa--GCAGCGg -3'
miRNA:   3'- -GGUCcaa--GGCGGGCUCUagaCGUCGU- -5'
5298 3' -57 NC_001798.1 + 105406 0.67 0.814098
Target:  5'- uCCAGGg-CCGCCgCGgccgcggugcgcuGGGcCUGCAGCAc -3'
miRNA:   3'- -GGUCCaaGGCGG-GC-------------UCUaGACGUCGU- -5'
5298 3' -57 NC_001798.1 + 141554 0.67 0.806264
Target:  5'- cCCGGGUguUCgCGUUCGcGGAggagCUGCGGCGg -3'
miRNA:   3'- -GGUCCA--AG-GCGGGC-UCUa---GACGUCGU- -5'
5298 3' -57 NC_001798.1 + 100343 0.68 0.779275
Target:  5'- aCCAGGgcCCGCUgauCGAGGg--GCAGCu -3'
miRNA:   3'- -GGUCCaaGGCGG---GCUCUagaCGUCGu -5'
5298 3' -57 NC_001798.1 + 131491 0.69 0.711187
Target:  5'- cCCGGG-UCCaCCCGAaaacaacGAUCgagcgGCAGCAa -3'
miRNA:   3'- -GGUCCaAGGcGGGCU-------CUAGa----CGUCGU- -5'
5298 3' -57 NC_001798.1 + 66747 0.69 0.702251
Target:  5'- aCCGGcGccacgUCCGCCUGGGGUgCgGCGGCGu -3'
miRNA:   3'- -GGUC-Ca----AGGCGGGCUCUA-GaCGUCGU- -5'
5298 3' -57 NC_001798.1 + 152198 0.72 0.520562
Target:  5'- cCCGGGggUCGCCCucucaccgugccgGGGGUCUGCcGCGg -3'
miRNA:   3'- -GGUCCaaGGCGGG-------------CUCUAGACGuCGU- -5'
5298 3' -57 NC_001798.1 + 41863 0.73 0.511836
Target:  5'- uUCAGGgcgCCGCggCCGGGGaucagCUGCAGCAg -3'
miRNA:   3'- -GGUCCaa-GGCG--GGCUCUa----GACGUCGU- -5'
5298 3' -57 NC_001798.1 + 152251 0.74 0.428435
Target:  5'- gCCGGGgUCCGCCCGGGAgcUCgUGCcgGGCc -3'
miRNA:   3'- -GGUCCaAGGCGGGCUCU--AG-ACG--UCGu -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.