miRNA display CGI


Results 1 - 20 of 41 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
5535 3' -58.5 NC_001806.1 + 148575 1.1 0.001431
Target:  5'- aCCCGCUGGGCGUCACGCCCACUAUCAg -3'
miRNA:   3'- -GGGCGACCCGCAGUGCGGGUGAUAGU- -5'
5535 3' -58.5 NC_001806.1 + 146497 0.7 0.567009
Target:  5'- aCCCGCUGGuGUGUgGUGCCCG-UGUCu -3'
miRNA:   3'- -GGGCGACC-CGCAgUGCGGGUgAUAGu -5'
5535 3' -58.5 NC_001806.1 + 144350 0.67 0.787483
Target:  5'- cCCCGCgccgguccauuaaGGGCGcgCGUGCCCGCgagaUAUCAa -3'
miRNA:   3'- -GGGCGa------------CCCGCa-GUGCGGGUG----AUAGU- -5'
5535 3' -58.5 NC_001806.1 + 136035 0.67 0.782082
Target:  5'- aCCCGCgcggcaccGGCcacccCGCGCUCGCUGUCGc -3'
miRNA:   3'- -GGGCGac------CCGca---GUGCGGGUGAUAGU- -5'
5535 3' -58.5 NC_001806.1 + 135652 0.66 0.808585
Target:  5'- uCCUGCaauUGGGuCGcCAgGCCCGCguugGUCu -3'
miRNA:   3'- -GGGCG---ACCC-GCaGUgCGGGUGa---UAGu -5'
5535 3' -58.5 NC_001806.1 + 135540 0.67 0.763755
Target:  5'- cCCCGCaGGGCGgcugcCGCaUCCACcgGUCAc -3'
miRNA:   3'- -GGGCGaCCCGCa----GUGcGGGUGa-UAGU- -5'
5535 3' -58.5 NC_001806.1 + 130707 0.69 0.626777
Target:  5'- -aCGCcacGGGCGUCAUcCCCACgAUCAa -3'
miRNA:   3'- ggGCGa--CCCGCAGUGcGGGUGaUAGU- -5'
5535 3' -58.5 NC_001806.1 + 119856 0.67 0.763755
Target:  5'- cUCCGUggcgugGGGCGggcgaCGCGCCCgcccuccgcuGCUGUCc -3'
miRNA:   3'- -GGGCGa-----CCCGCa----GUGCGGG----------UGAUAGu -5'
5535 3' -58.5 NC_001806.1 + 108540 0.67 0.791056
Target:  5'- gCCCGCgUGcGGCugGcCGCGCCCGCcgcuccgcgGUCAa -3'
miRNA:   3'- -GGGCG-AC-CCG--CaGUGCGGGUGa--------UAGU- -5'
5535 3' -58.5 NC_001806.1 + 106992 0.68 0.716132
Target:  5'- aCCUGCUaGGCuuUUugGCCCACUcgCGc -3'
miRNA:   3'- -GGGCGAcCCGc-AGugCGGGUGAuaGU- -5'
5535 3' -58.5 NC_001806.1 + 94207 0.66 0.83371
Target:  5'- gCCCagGCcgGGGCcuuucUCAC-CCCGCUGUCGg -3'
miRNA:   3'- -GGG--CGa-CCCGc----AGUGcGGGUGAUAGU- -5'
5535 3' -58.5 NC_001806.1 + 93015 0.66 0.83371
Target:  5'- aCCUGCUGcggcccgucauGGCGgCGCGCcCCAUgGUCGu -3'
miRNA:   3'- -GGGCGAC-----------CCGCaGUGCG-GGUGaUAGU- -5'
5535 3' -58.5 NC_001806.1 + 88950 0.66 0.799893
Target:  5'- cCCCGCcgGGGCGUggucCACGCcgccCCACa---- -3'
miRNA:   3'- -GGGCGa-CCCGCA----GUGCG----GGUGauagu -5'
5535 3' -58.5 NC_001806.1 + 82551 0.66 0.825501
Target:  5'- gCCCGCgaugGGaGCGUgCGUGCCCGCg---- -3'
miRNA:   3'- -GGGCGa---CC-CGCA-GUGCGGGUGauagu -5'
5535 3' -58.5 NC_001806.1 + 80026 0.69 0.636793
Target:  5'- gCCGCaGcGGCGccuuaCGCGcCCCGCUGUCGc -3'
miRNA:   3'- gGGCGaC-CCGCa----GUGC-GGGUGAUAGU- -5'
5535 3' -58.5 NC_001806.1 + 77444 0.7 0.576898
Target:  5'- gCCCGCgcccGGGCGUC-CGcCCCACc---- -3'
miRNA:   3'- -GGGCGa---CCCGCAGuGC-GGGUGauagu -5'
5535 3' -58.5 NC_001806.1 + 74004 0.7 0.606764
Target:  5'- cCCCGCaggGGGCucCGCGCCCACc---- -3'
miRNA:   3'- -GGGCGa--CCCGcaGUGCGGGUGauagu -5'
5535 3' -58.5 NC_001806.1 + 72140 0.69 0.626777
Target:  5'- gCCCG-UGGGCccUGCGCCCcCUGUCGu -3'
miRNA:   3'- -GGGCgACCCGcaGUGCGGGuGAUAGU- -5'
5535 3' -58.5 NC_001806.1 + 70820 0.7 0.616765
Target:  5'- gCgCGCUGgcGGCGUCuguCgGCCUGCUAUCAa -3'
miRNA:   3'- -GgGCGAC--CCGCAGu--G-CGGGUGAUAGU- -5'
5535 3' -58.5 NC_001806.1 + 69358 0.68 0.735448
Target:  5'- -aCGCUGGGU-UCACGCCCucgcACUG-CAc -3'
miRNA:   3'- ggGCGACCCGcAGUGCGGG----UGAUaGU- -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.