miRNA display CGI


Results 1 - 16 of 16 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
12710 5' -60.7 NC_003349.1 + 61079 0.67 0.66965
Target:  5'- uCGAAgGuaucauaUCUACGGggacggGCCGCCGCUGUa -3'
miRNA:   3'- -GCUUgC-------AGAUGCCgg----CGGCGGCGGCG- -5'
12710 5' -60.7 NC_003349.1 + 82104 0.67 0.631197
Target:  5'- aGAACuUCUucguCGucuuCCGCCGCCGCCa- -3'
miRNA:   3'- gCUUGcAGAu---GCc---GGCGGCGGCGGcg -5'
12710 5' -60.7 NC_003349.1 + 117033 0.67 0.631197
Target:  5'- aGAAUGUacgaUACGGCUaauGuuGUCGCCGa -3'
miRNA:   3'- gCUUGCAg---AUGCCGG---CggCGGCGGCg -5'
12710 5' -60.7 NC_003349.1 + 82386 0.67 0.631197
Target:  5'- -cGACGcUCagGCGGCgGCgGCgGCCGUa -3'
miRNA:   3'- gcUUGC-AGa-UGCCGgCGgCGgCGGCG- -5'
12710 5' -60.7 NC_003349.1 + 116599 0.68 0.591768
Target:  5'- aCGucauCGUCUucgGCGGCgGUgGCgGCUGCa -3'
miRNA:   3'- -GCuu--GCAGA---UGCCGgCGgCGgCGGCG- -5'
12710 5' -60.7 NC_003349.1 + 107427 0.68 0.580984
Target:  5'- uGAGCGcCggaauCGGUCGCagaccaaUGCCGCUGCu -3'
miRNA:   3'- gCUUGCaGau---GCCGGCG-------GCGGCGGCG- -5'
12710 5' -60.7 NC_003349.1 + 59031 0.69 0.552773
Target:  5'- gCGggUGUC-AC-GCCGUcuCGCCGCCGa -3'
miRNA:   3'- -GCuuGCAGaUGcCGGCG--GCGGCGGCg -5'
12710 5' -60.7 NC_003349.1 + 16772 0.69 0.512701
Target:  5'- uCGGGCGUUUGuauuucauuuuCGGCaccgucgcgcaCCGCCGCCGCc -3'
miRNA:   3'- -GCUUGCAGAU-----------GCCGgc---------GGCGGCGGCG- -5'
12710 5' -60.7 NC_003349.1 + 59126 0.7 0.459475
Target:  5'- -cGACGcaaccaUCUGC-GCCGCCaCCGCCGCc -3'
miRNA:   3'- gcUUGC------AGAUGcCGGCGGcGGCGGCG- -5'
12710 5' -60.7 NC_003349.1 + 126261 0.72 0.367385
Target:  5'- aCGAAUGUa-ACGGCacauauuGUCGUCGCCGCa -3'
miRNA:   3'- -GCUUGCAgaUGCCGg------CGGCGGCGGCG- -5'
12710 5' -60.7 NC_003349.1 + 82040 0.74 0.293384
Target:  5'- uCGAACGUCUGCGaccaCCGcCCGaacgccugcgaccuCCGCCGCc -3'
miRNA:   3'- -GCUUGCAGAUGCc---GGC-GGC--------------GGCGGCG- -5'
12710 5' -60.7 NC_003349.1 + 82248 0.74 0.269794
Target:  5'- uGAGCGUCgccuuccaccACcGCUGCCGCUGCUGCu -3'
miRNA:   3'- gCUUGCAGa---------UGcCGGCGGCGGCGGCG- -5'
12710 5' -60.7 NC_003349.1 + 116770 0.75 0.251808
Target:  5'- -cAACGUugCUGCaGCCGCCaCCGCCGCc -3'
miRNA:   3'- gcUUGCA--GAUGcCGGCGGcGGCGGCG- -5'
12710 5' -60.7 NC_003349.1 + 26156 0.75 0.240374
Target:  5'- gGGAUGUauuuguaACGGCUGCUGCUGCUGCg -3'
miRNA:   3'- gCUUGCAga-----UGCCGGCGGCGGCGGCG- -5'
12710 5' -60.7 NC_003349.1 + 26059 0.77 0.194195
Target:  5'- --uGCGUaauuuGCCGCCGCCGCCGCa -3'
miRNA:   3'- gcuUGCAgaugcCGGCGGCGGCGGCG- -5'
12710 5' -60.7 NC_003349.1 + 82220 1.1 0.000927
Target:  5'- cCGAACGUCUACGGCCGCCGCCGCCGCc -3'
miRNA:   3'- -GCUUGCAGAUGCCGGCGGCGGCGGCG- -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.