miRNA display CGI


Results 1 - 19 of 19 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
16343 3' -52.8 NC_004084.1 + 5489 0.66 0.817921
Target:  5'- gGUCgugacGCGcUCGGCguaugccucgACCUCCUGCuuGGCCu -3'
miRNA:   3'- gUAGa----CGU-AGUUG----------UGGAGGACG--UCGG- -5'
16343 3' -52.8 NC_004084.1 + 18525 0.66 0.808307
Target:  5'- cCGUCgugggGUccugGUCGAUACCgcaCUGCAGCUc -3'
miRNA:   3'- -GUAGa----CG----UAGUUGUGGag-GACGUCGG- -5'
16343 3' -52.8 NC_004084.1 + 48852 0.67 0.798499
Target:  5'- -uUCgGCGacucCggUACCUCCUcGUAGCCg -3'
miRNA:   3'- guAGaCGUa---GuuGUGGAGGA-CGUCGG- -5'
16343 3' -52.8 NC_004084.1 + 43527 0.67 0.78243
Target:  5'- aCGUCUuCAUCGcgcugacgaagcacgGCACCgagaCCgGCGGCCg -3'
miRNA:   3'- -GUAGAcGUAGU---------------UGUGGa---GGaCGUCGG- -5'
16343 3' -52.8 NC_004084.1 + 17305 0.67 0.778346
Target:  5'- cCAUCacGCAUCAACcuccUCUCCcGCGGCg -3'
miRNA:   3'- -GUAGa-CGUAGUUGu---GGAGGaCGUCGg -5'
16343 3' -52.8 NC_004084.1 + 16287 0.67 0.757556
Target:  5'- --cCUGCAaCAGuCACCUCaacgGCAGCg -3'
miRNA:   3'- guaGACGUaGUU-GUGGAGga--CGUCGg -5'
16343 3' -52.8 NC_004084.1 + 43425 0.67 0.757556
Target:  5'- gCAUCUuCGUCAACucgaugagcgACCuguUCCUGCcGCCa -3'
miRNA:   3'- -GUAGAcGUAGUUG----------UGG---AGGACGuCGG- -5'
16343 3' -52.8 NC_004084.1 + 56139 0.67 0.756501
Target:  5'- uCGUCgGCGUCGACcagccccAUCUCCUcCAGCUu -3'
miRNA:   3'- -GUAGaCGUAGUUG-------UGGAGGAcGUCGG- -5'
16343 3' -52.8 NC_004084.1 + 10421 0.67 0.746953
Target:  5'- cCAUCUcGCAgUCGACGuCCUCgUGCAuCCc -3'
miRNA:   3'- -GUAGA-CGU-AGUUGU-GGAGgACGUcGG- -5'
16343 3' -52.8 NC_004084.1 + 2440 0.68 0.725392
Target:  5'- cCAUCgGCgAUCAGCcCCUCC-GCGucGCCg -3'
miRNA:   3'- -GUAGaCG-UAGUUGuGGAGGaCGU--CGG- -5'
16343 3' -52.8 NC_004084.1 + 37291 0.68 0.714459
Target:  5'- -uUCUGCGUCGACGuagaucguuaucUCUUCUGCccGGUCg -3'
miRNA:   3'- guAGACGUAGUUGU------------GGAGGACG--UCGG- -5'
16343 3' -52.8 NC_004084.1 + 5611 0.68 0.70344
Target:  5'- gGUCaGcCAUCggUcggaACCUCCUgaaGCAGCCg -3'
miRNA:   3'- gUAGaC-GUAGuuG----UGGAGGA---CGUCGG- -5'
16343 3' -52.8 NC_004084.1 + 46873 0.69 0.681195
Target:  5'- gCGUUUGCGUCGgcugccgccACGCC-CCgGCGGCg -3'
miRNA:   3'- -GUAGACGUAGU---------UGUGGaGGaCGUCGg -5'
16343 3' -52.8 NC_004084.1 + 36732 0.69 0.681195
Target:  5'- aCGUCagcugUGCucgCAACGCaaCCUGCAGUCg -3'
miRNA:   3'- -GUAG-----ACGua-GUUGUGgaGGACGUCGG- -5'
16343 3' -52.8 NC_004084.1 + 38437 0.69 0.669994
Target:  5'- aUcgCUGgGUCG--GCC-CCUGCGGCCu -3'
miRNA:   3'- -GuaGACgUAGUugUGGaGGACGUCGG- -5'
16343 3' -52.8 NC_004084.1 + 30177 0.7 0.579957
Target:  5'- cCGUCUGUuuucAUCGuuuuAgGCCUCCUGCAGgUg -3'
miRNA:   3'- -GUAGACG----UAGU----UgUGGAGGACGUCgG- -5'
16343 3' -52.8 NC_004084.1 + 33308 0.71 0.568805
Target:  5'- cCGUUgaGCGUCAACACCUgCcGCcGCCg -3'
miRNA:   3'- -GUAGa-CGUAGUUGUGGAgGaCGuCGG- -5'
16343 3' -52.8 NC_004084.1 + 45545 0.74 0.402459
Target:  5'- aCGUCcgGCGUCGACACgCUC-UGUAGCUg -3'
miRNA:   3'- -GUAGa-CGUAGUUGUG-GAGgACGUCGG- -5'
16343 3' -52.8 NC_004084.1 + 11512 1.13 0.000899
Target:  5'- gCAUCUGCAUCAACACCUCCUGCAGCCg -3'
miRNA:   3'- -GUAGACGUAGUUGUGGAGGACGUCGG- -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.