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
12467 3' -61.2 NC_003324.1 + 42392 0.67 0.392388
Target:  5'- uGUCACcGGCGCcCGgcaCGUGGCaGGCGg -3'
miRNA:   3'- -CGGUGcCCGCGaGCa--GCACCGcUCGU- -5'
12467 3' -61.2 NC_003324.1 + 22695 0.67 0.366982
Target:  5'- cGUCGCGGG-GCUCGgcaaCGcGGCaGGCAg -3'
miRNA:   3'- -CGGUGCCCgCGAGCa---GCaCCGcUCGU- -5'
12467 3' -61.2 NC_003324.1 + 57266 0.7 0.251257
Target:  5'- aCCAC-GGCGCUUGUCuGUGaGCG-GCAg -3'
miRNA:   3'- cGGUGcCCGCGAGCAG-CAC-CGCuCGU- -5'
12467 3' -61.2 NC_003324.1 + 31624 0.74 0.139198
Target:  5'- aCCGCGGGCGCg---CGUGGCG-GCc -3'
miRNA:   3'- cGGUGCCCGCGagcaGCACCGCuCGu -5'
12467 3' -61.2 NC_003324.1 + 20606 0.74 0.118611
Target:  5'- cGCUgAUGGGCGCUUG-CGgucGGCGGGCAc -3'
miRNA:   3'- -CGG-UGCCCGCGAGCaGCa--CCGCUCGU- -5'
12467 3' -61.2 NC_003324.1 + 41486 1.1 0.000262
Target:  5'- aGCCACGGGCGCUCGUCGUGGCGAGCAa -3'
miRNA:   3'- -CGGUGCCCGCGAGCAGCACCGCUCGU- -5'
12467 3' -61.2 NC_003324.1 + 50424 0.69 0.270416
Target:  5'- uGCCGCaaGGCGCUgGgCGUGGUGcAGCu -3'
miRNA:   3'- -CGGUGc-CCGCGAgCaGCACCGC-UCGu -5'
12467 3' -61.2 NC_003324.1 + 21089 0.68 0.307835
Target:  5'- cGCCGCGGcGCGUgcugCGUCGgcuuccacgucgggcUGGCGcuuGCGc -3'
miRNA:   3'- -CGGUGCC-CGCGa---GCAGC---------------ACCGCu--CGU- -5'
12467 3' -61.2 NC_003324.1 + 41636 0.67 0.366982
Target:  5'- uGCCACGGcucgccCGCUC-UCGUcGGCGGcGCGa -3'
miRNA:   3'- -CGGUGCCc-----GCGAGcAGCA-CCGCU-CGU- -5'
12467 3' -61.2 NC_003324.1 + 28637 0.67 0.383793
Target:  5'- cGUUGCGGGCcgccuugucGCgCGUCGUGGUGccaucGGCAu -3'
miRNA:   3'- -CGGUGCCCG---------CGaGCAGCACCGC-----UCGU- -5'
12467 3' -61.2 NC_003324.1 + 15656 0.67 0.392388
Target:  5'- gGCCcCGGcGCGCUCGaugacgCGaucaaGGCGGGCc -3'
miRNA:   3'- -CGGuGCC-CGCGAGCa-----GCa----CCGCUCGu -5'
12467 3' -61.2 NC_003324.1 + 27060 0.66 0.409949
Target:  5'- cGCgACGcGGCGUUacCGUUGUGGCcGGUg -3'
miRNA:   3'- -CGgUGC-CCGCGA--GCAGCACCGcUCGu -5'
12467 3' -61.2 NC_003324.1 + 29481 0.66 0.42799
Target:  5'- gGCUGCGGGCGC--GUCG-GGCGcaucucGGUAa -3'
miRNA:   3'- -CGGUGCCCGCGagCAGCaCCGC------UCGU- -5'
12467 3' -61.2 NC_003324.1 + 23944 0.66 0.436261
Target:  5'- uUCACGcGGCGaagUCGUUcaagacgGUGGCGAGUg -3'
miRNA:   3'- cGGUGC-CCGCg--AGCAG-------CACCGCUCGu -5'
12467 3' -61.2 NC_003324.1 + 8325 0.66 0.437185
Target:  5'- cGCCGucGGCGCUCGUuacggugacCGUcGGCGGGgAg -3'
miRNA:   3'- -CGGUgcCCGCGAGCA---------GCA-CCGCUCgU- -5'
12467 3' -61.2 NC_003324.1 + 50189 0.66 0.45591
Target:  5'- cGCCAUGGGCaucaGCgacaaGUC--GGCGAGCc -3'
miRNA:   3'- -CGGUGCCCG----CGag---CAGcaCCGCUCGu -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.