miRNA display CGI


Results 1 - 20 of 68 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
13227 3' -61.6 NC_003401.1 + 21832 0.68 0.541166
Target:  5'- cGGgGCCGaCCACagGC-GCGGCCCGGc- -3'
miRNA:   3'- -CCgCGGC-GGUGg-CGaCGUUGGGCUcc -5'
13227 3' -61.6 NC_003401.1 + 132440 0.68 0.502431
Target:  5'- cGGgGCCGCCcccggguGCCGCUccGCcgGGCCCGGc- -3'
miRNA:   3'- -CCgCGGCGG-------UGGCGA--CG--UUGGGCUcc -5'
13227 3' -61.6 NC_003401.1 + 132652 0.68 0.503362
Target:  5'- cGCGCCGCCGggagggggGCcGgGGCCCGGGGc -3'
miRNA:   3'- cCGCGGCGGUgg------CGaCgUUGGGCUCC- -5'
13227 3' -61.6 NC_003401.1 + 51613 0.68 0.512712
Target:  5'- cGCGCaGCCAUCGCU-CGuCUCGGGGa -3'
miRNA:   3'- cCGCGgCGGUGGCGAcGUuGGGCUCC- -5'
13227 3' -61.6 NC_003401.1 + 125735 0.68 0.522132
Target:  5'- gGGUGaccaaggCGCCACUGCUgGCGGCCuCGAcGGc -3'
miRNA:   3'- -CCGCg------GCGGUGGCGA-CGUUGG-GCU-CC- -5'
13227 3' -61.6 NC_003401.1 + 80019 0.68 0.522132
Target:  5'- -cUGCCGCUACCcCaGaGGCCCGAGGg -3'
miRNA:   3'- ccGCGGCGGUGGcGaCgUUGGGCUCC- -5'
13227 3' -61.6 NC_003401.1 + 117729 0.68 0.522132
Target:  5'- uGGCGCggUGCCACCGCcGCcgAACCCc--- -3'
miRNA:   3'- -CCGCG--GCGGUGGCGaCG--UUGGGcucc -5'
13227 3' -61.6 NC_003401.1 + 118197 0.68 0.522132
Target:  5'- cGGCGgCGgCACCGCggGCG-CUgGGGGu -3'
miRNA:   3'- -CCGCgGCgGUGGCGa-CGUuGGgCUCC- -5'
13227 3' -61.6 NC_003401.1 + 79562 0.68 0.540209
Target:  5'- aGGCGCCGggggcaaCCACaacuGaaGCGGCCCGGGa -3'
miRNA:   3'- -CCGCGGC-------GGUGg---CgaCGUUGGGCUCc -5'
13227 3' -61.6 NC_003401.1 + 124314 0.69 0.484892
Target:  5'- uGGCGCUGgCGCUGuCUGCcAACgCGAGc -3'
miRNA:   3'- -CCGCGGCgGUGGC-GACG-UUGgGCUCc -5'
13227 3' -61.6 NC_003401.1 + 28216 0.69 0.484892
Target:  5'- uGGauaCGCCGCCGUUGCcGGCaUCGAGGg -3'
miRNA:   3'- -CCgcgGCGGUGGCGACG-UUG-GGCUCC- -5'
13227 3' -61.6 NC_003401.1 + 8756 0.69 0.448968
Target:  5'- cGGuCGCCGCCACagggCGcCUGCGuCCCGuGa -3'
miRNA:   3'- -CC-GCGGCGGUG----GC-GACGUuGGGCuCc -5'
13227 3' -61.6 NC_003401.1 + 132230 0.82 0.067322
Target:  5'- cGGCGCCGCCGCCggGCcGCGgccgccaucuugcGCCCGGGGc -3'
miRNA:   3'- -CCGCGGCGGUGG--CGaCGU-------------UGGGCUCC- -5'
13227 3' -61.6 NC_003401.1 + 88259 0.71 0.372348
Target:  5'- uGGCGCCGgcaacaggcgaaCGCCGUuggGCGACCCGAc- -3'
miRNA:   3'- -CCGCGGCg-----------GUGGCGa--CGUUGGGCUcc -5'
13227 3' -61.6 NC_003401.1 + 9309 0.7 0.397979
Target:  5'- aGCGacgauaUCGCCACCGCUuccugucaGCccCCCGAGGa -3'
miRNA:   3'- cCGC------GGCGGUGGCGA--------CGuuGGGCUCC- -5'
13227 3' -61.6 NC_003401.1 + 770 0.7 0.414563
Target:  5'- gGGCuGCCgGCCAgCUGCgUGCGAgggcgUCCGAGGg -3'
miRNA:   3'- -CCG-CGG-CGGU-GGCG-ACGUU-----GGGCUCC- -5'
13227 3' -61.6 NC_003401.1 + 133485 0.7 0.414563
Target:  5'- gGGCuGCCgGCCAgCUGCgUGCGAgggcgUCCGAGGg -3'
miRNA:   3'- -CCG-CGG-CGGU-GGCG-ACGUU-----GGGCUCC- -5'
13227 3' -61.6 NC_003401.1 + 18298 0.7 0.440218
Target:  5'- --gGCCGCCGCCGCgcccUGC--CCCGuGGu -3'
miRNA:   3'- ccgCGGCGGUGGCG----ACGuuGGGCuCC- -5'
13227 3' -61.6 NC_003401.1 + 132513 0.7 0.440218
Target:  5'- cGGCGCCGCgCcCCGaC-GCcccccgGGCCCGGGGc -3'
miRNA:   3'- -CCGCGGCG-GuGGC-GaCG------UUGGGCUCC- -5'
13227 3' -61.6 NC_003401.1 + 118657 0.69 0.448968
Target:  5'- aGGUGUCGCCgguggGCCGUaugacccccGCAACgCGAGGg -3'
miRNA:   3'- -CCGCGGCGG-----UGGCGa--------CGUUGgGCUCC- -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.