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
18205 3' -53.9 NC_004680.1 + 52274 0.66 0.847037
Target:  5'- aCGGgUGUGGAccUGacuCGUCUUGCUGAGGc -3'
miRNA:   3'- gGCUgACAUUU--AC---GCGGGACGGCUCC- -5'
18205 3' -53.9 NC_004680.1 + 8772 0.66 0.838391
Target:  5'- gCGACggcaacgAGAUG-GUCCUGCCGGcGGa -3'
miRNA:   3'- gGCUGaca----UUUACgCGGGACGGCU-CC- -5'
18205 3' -53.9 NC_004680.1 + 14961 0.66 0.820464
Target:  5'- cCCGcGCgGUucGUGCGaUCCUGuuGGGGu -3'
miRNA:   3'- -GGC-UGaCAuuUACGC-GGGACggCUCC- -5'
18205 3' -53.9 NC_004680.1 + 30691 0.66 0.820464
Target:  5'- gCGACUGUGAGgccgGcCGaUCCUGuCCGGGc -3'
miRNA:   3'- gGCUGACAUUUa---C-GC-GGGAC-GGCUCc -5'
18205 3' -53.9 NC_004680.1 + 22033 0.66 0.811203
Target:  5'- gCGACUGUGGGccacgGCGgCCaUGCCcaccucgggaguGAGGg -3'
miRNA:   3'- gGCUGACAUUUa----CGCgGG-ACGG------------CUCC- -5'
18205 3' -53.9 NC_004680.1 + 29109 0.66 0.811203
Target:  5'- gUGGCgaGUAGGUcaaccGCGCCCgcGCCGAGu -3'
miRNA:   3'- gGCUGa-CAUUUA-----CGCGGGa-CGGCUCc -5'
18205 3' -53.9 NC_004680.1 + 43672 0.66 0.810267
Target:  5'- aUGACgcgcGGUGUGCCCUGCaugaguugcugucUGAGGg -3'
miRNA:   3'- gGCUGacauUUACGCGGGACG-------------GCUCC- -5'
18205 3' -53.9 NC_004680.1 + 13610 0.67 0.791164
Target:  5'- gCCGugUagucGUAGGUGCGCCagaacccugaauCUGCCcgcaaacGAGGc -3'
miRNA:   3'- -GGCugA----CAUUUACGCGG------------GACGG-------CUCC- -5'
18205 3' -53.9 NC_004680.1 + 21658 0.67 0.782349
Target:  5'- aCCGGCUGacuGUGCGCggUGCCGuuGc -3'
miRNA:   3'- -GGCUGACauuUACGCGggACGGCucC- -5'
18205 3' -53.9 NC_004680.1 + 4935 0.67 0.772409
Target:  5'- aCCGGCUGaguAUGCGgCgCUGCCGc-- -3'
miRNA:   3'- -GGCUGACauuUACGCgG-GACGGCucc -5'
18205 3' -53.9 NC_004680.1 + 12999 0.67 0.762326
Target:  5'- uUGACcGUGAuauucGUGuCGCCCUGCUuGGGc -3'
miRNA:   3'- gGCUGaCAUU-----UAC-GCGGGACGGcUCC- -5'
18205 3' -53.9 NC_004680.1 + 15821 0.68 0.741775
Target:  5'- aCGGCgUGUuuuAUGCGCCC-GCgGuGGg -3'
miRNA:   3'- gGCUG-ACAuu-UACGCGGGaCGgCuCC- -5'
18205 3' -53.9 NC_004680.1 + 33670 0.68 0.720788
Target:  5'- gUCGAC-GUAGGgccaGCGCag-GCCGAGGa -3'
miRNA:   3'- -GGCUGaCAUUUa---CGCGggaCGGCUCC- -5'
18205 3' -53.9 NC_004680.1 + 8404 0.68 0.710158
Target:  5'- aCGGCagcuagccgGUGAAU-CGUCCUGCCGGGu -3'
miRNA:   3'- gGCUGa--------CAUUUAcGCGGGACGGCUCc -5'
18205 3' -53.9 NC_004680.1 + 5326 0.68 0.710158
Target:  5'- aUCGACgccgGUGucggaAAUcGCGUCC-GCCGAGGu -3'
miRNA:   3'- -GGCUGa---CAU-----UUA-CGCGGGaCGGCUCC- -5'
18205 3' -53.9 NC_004680.1 + 30642 0.69 0.656094
Target:  5'- uCCGGCUcgauggacagucGUGAAUGCGCCCcGCaguuGGu -3'
miRNA:   3'- -GGCUGA------------CAUUUACGCGGGaCGgcu-CC- -5'
18205 3' -53.9 NC_004680.1 + 14644 0.69 0.634242
Target:  5'- cCCGACagGUAcuuauagaAGU-UGCCCUGCgGAGGa -3'
miRNA:   3'- -GGCUGa-CAU--------UUAcGCGGGACGgCUCC- -5'
18205 3' -53.9 NC_004680.1 + 23573 0.71 0.568934
Target:  5'- gUGACggGUAuucGUGCCUggUGCCGAGGg -3'
miRNA:   3'- gGCUGa-CAUuuaCGCGGG--ACGGCUCC- -5'
18205 3' -53.9 NC_004680.1 + 23464 0.71 0.515811
Target:  5'- gUGACUgGUGGAUGgGagaucaCUGCCGAGGg -3'
miRNA:   3'- gGCUGA-CAUUUACgCgg----GACGGCUCC- -5'
18205 3' -53.9 NC_004680.1 + 44791 0.73 0.435484
Target:  5'- -aGGCUGU---UGUGCCgaUGCCGGGGg -3'
miRNA:   3'- ggCUGACAuuuACGCGGg-ACGGCUCC- -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.