miRNA display CGI


Results 1 - 20 of 52 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
12840 3' -62.2 NC_003387.1 + 33374 0.66 0.365183
Target:  5'- -aCCagaGCCCGCCCGgCCAgguuCUcGCCGCGc -3'
miRNA:   3'- gaGGag-CGGGCGGGU-GGU----GA-CGGUGU- -5'
12840 3' -62.2 NC_003387.1 + 49490 0.66 0.365183
Target:  5'- -gCCggugCGCCCGCCCGgCgucgACgUGUCGCAa -3'
miRNA:   3'- gaGGa---GCGGGCGGGUgG----UG-ACGGUGU- -5'
12840 3' -62.2 NC_003387.1 + 12371 0.66 0.365183
Target:  5'- -gCCgcgacgGCCCGCaauCUGCCGCUGCUGCAg -3'
miRNA:   3'- gaGGag----CGGGCG---GGUGGUGACGGUGU- -5'
12840 3' -62.2 NC_003387.1 + 11582 0.66 0.365183
Target:  5'- --aCUCGCagcggCCGUCgGCgCGCUGCCACu -3'
miRNA:   3'- gagGAGCG-----GGCGGgUG-GUGACGGUGu -5'
12840 3' -62.2 NC_003387.1 + 24340 0.66 0.356927
Target:  5'- uUCCUgCGUCagccacgaguugCGCCCGCC-CUGCgACAc -3'
miRNA:   3'- gAGGA-GCGG------------GCGGGUGGuGACGgUGU- -5'
12840 3' -62.2 NC_003387.1 + 43324 0.66 0.356927
Target:  5'- aCUCCUCggcgaucgucuuGCCCGCCUcgggggucGCCucgGCCGCc -3'
miRNA:   3'- -GAGGAG------------CGGGCGGG--------UGGugaCGGUGu -5'
12840 3' -62.2 NC_003387.1 + 4784 0.66 0.356927
Target:  5'- aCUUCaugUCGCagGCCCGCgGCgacgGCCACAa -3'
miRNA:   3'- -GAGG---AGCGggCGGGUGgUGa---CGGUGU- -5'
12840 3' -62.2 NC_003387.1 + 6006 0.66 0.348803
Target:  5'- gUCCacUCGCCCGCCUGCUugGCguccaGCgGCAc -3'
miRNA:   3'- gAGG--AGCGGGCGGGUGG--UGa----CGgUGU- -5'
12840 3' -62.2 NC_003387.1 + 51947 0.66 0.347998
Target:  5'- --gCUCGCUgagaagcUGCCCGacgUCGCUGCCGCGg -3'
miRNA:   3'- gagGAGCGG-------GCGGGU---GGUGACGGUGU- -5'
12840 3' -62.2 NC_003387.1 + 4467 0.66 0.340812
Target:  5'- -gCCgacCGCCgaGCCCGCCGCgaagGCCGa- -3'
miRNA:   3'- gaGGa--GCGGg-CGGGUGGUGa---CGGUgu -5'
12840 3' -62.2 NC_003387.1 + 47628 0.66 0.332954
Target:  5'- -aCCUCGCCCacaugGCCCGCgACUagcggGCCuCGg -3'
miRNA:   3'- gaGGAGCGGG-----CGGGUGgUGA-----CGGuGU- -5'
12840 3' -62.2 NC_003387.1 + 31499 0.66 0.332954
Target:  5'- -aCCggaUCGCCCugcGCCCGCaCGCUGuuCCACGc -3'
miRNA:   3'- gaGG---AGCGGG---CGGGUG-GUGAC--GGUGU- -5'
12840 3' -62.2 NC_003387.1 + 14225 0.66 0.332954
Target:  5'- -cCCUCGCaCGCCCACg---GCCGCu -3'
miRNA:   3'- gaGGAGCGgGCGGGUGgugaCGGUGu -5'
12840 3' -62.2 NC_003387.1 + 22632 0.66 0.332954
Target:  5'- -cCCUggcCGCCCGCCgACgACUGagCGCAu -3'
miRNA:   3'- gaGGA---GCGGGCGGgUGgUGACg-GUGU- -5'
12840 3' -62.2 NC_003387.1 + 50280 0.66 0.332176
Target:  5'- -gCCUggCGCgCGUCCAUgcgguugCGCUGCCACAu -3'
miRNA:   3'- gaGGA--GCGgGCGGGUG-------GUGACGGUGU- -5'
12840 3' -62.2 NC_003387.1 + 31143 0.66 0.32523
Target:  5'- -gCCUCGCugaugCCGCgCGCCuggGCCACGg -3'
miRNA:   3'- gaGGAGCG-----GGCGgGUGGugaCGGUGU- -5'
12840 3' -62.2 NC_003387.1 + 2289 0.66 0.32523
Target:  5'- gUCCUCGCUgGCguaCGCCGaggcgacgauCUGCCGCc -3'
miRNA:   3'- gAGGAGCGGgCGg--GUGGU----------GACGGUGu -5'
12840 3' -62.2 NC_003387.1 + 22548 0.67 0.31764
Target:  5'- gCUCCUUGCCCGaggCgAUCGCgcggGCCugGu -3'
miRNA:   3'- -GAGGAGCGGGCg--GgUGGUGa---CGGugU- -5'
12840 3' -62.2 NC_003387.1 + 41533 0.67 0.31764
Target:  5'- gUCCgacaUGCCCuugGCCCACUGCUcGaCCACAg -3'
miRNA:   3'- gAGGa---GCGGG---CGGGUGGUGA-C-GGUGU- -5'
12840 3' -62.2 NC_003387.1 + 5750 0.67 0.310183
Target:  5'- gUCgUCGCCCGCauguagcggaaCCgGCCGCgcucGCCGCGg -3'
miRNA:   3'- gAGgAGCGGGCG-----------GG-UGGUGa---CGGUGU- -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.