miRNA display CGI


Results 1 - 20 of 49 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
28018 3' -58.7 NC_005887.1 + 41993 0.66 0.444196
Target:  5'- --aGCaGCaCGGCCUGCgGCccacgucgaguGUCGCCg -3'
miRNA:   3'- ccaCGaCGaGCCGGACGgUG-----------CAGUGG- -5'
28018 3' -58.7 NC_005887.1 + 41608 0.72 0.192458
Target:  5'- aGGUGCgGCggccggcgCGGCCcgugaggaucUGCUGCGUCugCg -3'
miRNA:   3'- -CCACGaCGa-------GCCGG----------ACGGUGCAGugG- -5'
28018 3' -58.7 NC_005887.1 + 41454 0.71 0.237499
Target:  5'- --cGCUGCUCGGCaC-GCCGCGcgaggaucugcUCAUCa -3'
miRNA:   3'- ccaCGACGAGCCG-GaCGGUGC-----------AGUGG- -5'
28018 3' -58.7 NC_005887.1 + 40849 0.66 0.453959
Target:  5'- cGUGUUccGCaCGGCCgcGCCGCGcgagCGCCg -3'
miRNA:   3'- cCACGA--CGaGCCGGa-CGGUGCa---GUGG- -5'
28018 3' -58.7 NC_005887.1 + 39985 0.67 0.406365
Target:  5'- cGUGUcuucGUcgUCGGCCUGCgagcgCugGUCGCCc -3'
miRNA:   3'- cCACGa---CG--AGCCGGACG-----GugCAGUGG- -5'
28018 3' -58.7 NC_005887.1 + 39649 0.67 0.382886
Target:  5'- --cGCgGCUCGGCCgcuUGCCgcccguacgcuucacGCG-CACCa -3'
miRNA:   3'- ccaCGaCGAGCCGG---ACGG---------------UGCaGUGG- -5'
28018 3' -58.7 NC_005887.1 + 38158 0.73 0.172871
Target:  5'- --cGCUGCagcacuUCGGUCgcgGUCAUGUCGCCg -3'
miRNA:   3'- ccaCGACG------AGCCGGa--CGGUGCAGUGG- -5'
28018 3' -58.7 NC_005887.1 + 37687 0.68 0.362029
Target:  5'- cGU-CUGCgcagCGGUCUG-CGCGUCGCUg -3'
miRNA:   3'- cCAcGACGa---GCCGGACgGUGCAGUGG- -5'
28018 3' -58.7 NC_005887.1 + 36872 0.75 0.111264
Target:  5'- cGGUGCUGCgccaUCGGCCUGCguCGUgGu- -3'
miRNA:   3'- -CCACGACG----AGCCGGACGguGCAgUgg -5'
28018 3' -58.7 NC_005887.1 + 36833 0.67 0.388223
Target:  5'- cGUGcCUGCUgCGGCCggUGCUGCG--GCCg -3'
miRNA:   3'- cCAC-GACGA-GCCGG--ACGGUGCagUGG- -5'
28018 3' -58.7 NC_005887.1 + 35724 0.66 0.434551
Target:  5'- cGUGCaGCUCGGUC-GCgGuCGUgGCCc -3'
miRNA:   3'- cCACGaCGAGCCGGaCGgU-GCAgUGG- -5'
28018 3' -58.7 NC_005887.1 + 35337 0.66 0.483925
Target:  5'- --cGCcGCggCGGCCgGCCACGagcuUCACg -3'
miRNA:   3'- ccaCGaCGa-GCCGGaCGGUGC----AGUGg -5'
28018 3' -58.7 NC_005887.1 + 33948 0.66 0.473828
Target:  5'- --gGC-GCUCGGCgaG-CACGUCGCg -3'
miRNA:   3'- ccaCGaCGAGCCGgaCgGUGCAGUGg -5'
28018 3' -58.7 NC_005887.1 + 33944 0.7 0.283858
Target:  5'- uGGUcgUGCUCGGCCcacgcGCCuuGUCGCUu -3'
miRNA:   3'- -CCAcgACGAGCCGGa----CGGugCAGUGG- -5'
28018 3' -58.7 NC_005887.1 + 33044 0.71 0.237499
Target:  5'- uGUGCgucgGCguuUCGGugcccguaaCCUGCgGCGUCGCCg -3'
miRNA:   3'- cCACGa---CG---AGCC---------GGACGgUGCAGUGG- -5'
28018 3' -58.7 NC_005887.1 + 32850 0.68 0.370622
Target:  5'- cGGUGUucggcagcaUGCcggggUCGGCCggGUCGuuCGUCGCCa -3'
miRNA:   3'- -CCACG---------ACG-----AGCCGGa-CGGU--GCAGUGG- -5'
28018 3' -58.7 NC_005887.1 + 30732 0.67 0.425029
Target:  5'- --cGCUGCgUGGCCUucGCgACuUCGCCg -3'
miRNA:   3'- ccaCGACGaGCCGGA--CGgUGcAGUGG- -5'
28018 3' -58.7 NC_005887.1 + 30522 0.76 0.101986
Target:  5'- cGUGCUGCUCGagaacaggccgccGCCUGCCuuaGCGUacgaACCg -3'
miRNA:   3'- cCACGACGAGC-------------CGGACGG---UGCAg---UGG- -5'
28018 3' -58.7 NC_005887.1 + 30159 0.69 0.313422
Target:  5'- cGGcGCUGUccuucgCGGUCUgcauguucugcaGCCACGUCACg -3'
miRNA:   3'- -CCaCGACGa-----GCCGGA------------CGGUGCAGUGg -5'
28018 3' -58.7 NC_005887.1 + 29984 1.14 0.000138
Target:  5'- cGGUGCUGCUCGGCCUGCCACGUCACCg -3'
miRNA:   3'- -CCACGACGAGCCGGACGGUGCAGUGG- -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.