miRNA display CGI


Results 1 - 20 of 50 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
16209 3' -61.2 NC_004065.1 + 110764 0.66 0.840006
Target:  5'- -gCCGCCugacauauagGCGcGCGG-CCCGUUUC-GGa -3'
miRNA:   3'- gaGGCGG----------UGC-CGCCaGGGCAGAGaCC- -5'
16209 3' -61.2 NC_004065.1 + 99397 0.66 0.840006
Target:  5'- -gCUGCCugGCGGCGGgCgCGUUgCUGGa -3'
miRNA:   3'- gaGGCGG--UGCCGCCaGgGCAGaGACC- -5'
16209 3' -61.2 NC_004065.1 + 115155 0.66 0.83314
Target:  5'- -aCCGCCGgcCGGCGG-CaCCGUCgucgccaggauggccCUGGa -3'
miRNA:   3'- gaGGCGGU--GCCGCCaG-GGCAGa--------------GACC- -5'
16209 3' -61.2 NC_004065.1 + 203079 0.66 0.832369
Target:  5'- -cCCGCCGCGGCcgccGGagCgGUCUCUu- -3'
miRNA:   3'- gaGGCGGUGCCG----CCagGgCAGAGAcc -5'
16209 3' -61.2 NC_004065.1 + 90443 0.66 0.824576
Target:  5'- -aUCGCCGCGGCcaccUCCCGagugCUCUGc -3'
miRNA:   3'- gaGGCGGUGCCGcc--AGGGCa---GAGACc -5'
16209 3' -61.2 NC_004065.1 + 58620 0.66 0.824576
Target:  5'- --aCGCgCGCGGCGGagucgCCgGUCUCgcGGa -3'
miRNA:   3'- gagGCG-GUGCCGCCa----GGgCAGAGa-CC- -5'
16209 3' -61.2 NC_004065.1 + 139880 0.66 0.824576
Target:  5'- gUCCGUgACGGUGGUCCgGg-UgaGGg -3'
miRNA:   3'- gAGGCGgUGCCGCCAGGgCagAgaCC- -5'
16209 3' -61.2 NC_004065.1 + 120634 0.66 0.824576
Target:  5'- gUCCGCCGCGGCcgacGGgCuuGUCUUc-- -3'
miRNA:   3'- gAGGCGGUGCCG----CCaGggCAGAGacc -5'
16209 3' -61.2 NC_004065.1 + 32021 0.66 0.816633
Target:  5'- cCUCCgagGCCAUcGCGcaguGUCCCGUCcugcccacUCUGGa -3'
miRNA:   3'- -GAGG---CGGUGcCGC----CAGGGCAG--------AGACC- -5'
16209 3' -61.2 NC_004065.1 + 184038 0.66 0.816633
Target:  5'- -gCCGCCACGGCgcccaGGUCgCCGUUa---- -3'
miRNA:   3'- gaGGCGGUGCCG-----CCAG-GGCAGagacc -5'
16209 3' -61.2 NC_004065.1 + 56710 0.66 0.808546
Target:  5'- uCUCCGCCgcagcggcggcgGCGGCGGcagcagCUGUCUCUc- -3'
miRNA:   3'- -GAGGCGG------------UGCCGCCag----GGCAGAGAcc -5'
16209 3' -61.2 NC_004065.1 + 109886 0.66 0.800322
Target:  5'- -gUCGCCGCGGCcgcgucggggGGUCCCGgCUCn-- -3'
miRNA:   3'- gaGGCGGUGCCG----------CCAGGGCaGAGacc -5'
16209 3' -61.2 NC_004065.1 + 26951 0.66 0.800322
Target:  5'- gCUCCggcgGCCGCGGCGGgCuCCGgagCUCg-- -3'
miRNA:   3'- -GAGG----CGGUGCCGCCaG-GGCa--GAGacc -5'
16209 3' -61.2 NC_004065.1 + 13183 0.66 0.800322
Target:  5'- -aCCGUacaGCGGCG--UCCGUCUCUGu -3'
miRNA:   3'- gaGGCGg--UGCCGCcaGGGCAGAGACc -5'
16209 3' -61.2 NC_004065.1 + 201178 0.66 0.800322
Target:  5'- --gCGCCgacaccaaGCGGCGcGUCCCGgCUCgGGc -3'
miRNA:   3'- gagGCGG--------UGCCGC-CAGGGCaGAGaCC- -5'
16209 3' -61.2 NC_004065.1 + 136627 0.66 0.791968
Target:  5'- gUCCGagGCGGCGGUCCgGagcggcguggaUC-CUGGu -3'
miRNA:   3'- gAGGCggUGCCGCCAGGgC-----------AGaGACC- -5'
16209 3' -61.2 NC_004065.1 + 95167 0.67 0.78349
Target:  5'- -gCCGCCGcCGuGCaGGguccagggCCCGUCUCcGGg -3'
miRNA:   3'- gaGGCGGU-GC-CG-CCa-------GGGCAGAGaCC- -5'
16209 3' -61.2 NC_004065.1 + 99556 0.67 0.774895
Target:  5'- --nCGCCGCGGCGGacggCCGUggugcgucaggUUCUGGg -3'
miRNA:   3'- gagGCGGUGCCGCCag--GGCA-----------GAGACC- -5'
16209 3' -61.2 NC_004065.1 + 107170 0.67 0.774895
Target:  5'- gCUCUGCCGCcagagGGCGGUCgagacgggagCCGUCgaCUGa -3'
miRNA:   3'- -GAGGCGGUG-----CCGCCAG----------GGCAGa-GACc -5'
16209 3' -61.2 NC_004065.1 + 116269 0.67 0.76619
Target:  5'- -gCCGCCGCGGCuGUCCCucggccucCUCgccGGa -3'
miRNA:   3'- gaGGCGGUGCCGcCAGGGca------GAGa--CC- -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.