miRNA display CGI


Results 21 - 37 of 37 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
12803 3' -57.7 NC_003387.1 + 18697 0.69 0.389024
Target:  5'- aCCAGGUGcggguCGCgCAGCGCCaGGGc -3'
miRNA:   3'- cGGUCCACuuu--GCG-GUCGUGGcCCUa -5'
12803 3' -57.7 NC_003387.1 + 22176 0.69 0.362708
Target:  5'- cCCAGGcgGggGCGgCGGUAUCGGGu- -3'
miRNA:   3'- cGGUCCa-CuuUGCgGUCGUGGCCCua -5'
12803 3' -57.7 NC_003387.1 + 39218 0.69 0.354215
Target:  5'- gGUCGGGcagugGGAGCGgguaCCGGCGCCGGGc- -3'
miRNA:   3'- -CGGUCCa----CUUUGC----GGUCGUGGCCCua -5'
12803 3' -57.7 NC_003387.1 + 33063 0.7 0.345863
Target:  5'- aCCGGGUGc-GCGCCaAGCGCCGcGAg -3'
miRNA:   3'- cGGUCCACuuUGCGG-UCGUGGCcCUa -5'
12803 3' -57.7 NC_003387.1 + 39099 0.7 0.329586
Target:  5'- gGCCGGGUuGAACucacccgguGCCAGCGCgGGGc- -3'
miRNA:   3'- -CGGUCCAcUUUG---------CGGUCGUGgCCCua -5'
12803 3' -57.7 NC_003387.1 + 50958 0.71 0.277122
Target:  5'- cGCCAGcGcGAAGCGCCcccgagccgauAGCGgCCGGGGg -3'
miRNA:   3'- -CGGUC-CaCUUUGCGG-----------UCGU-GGCCCUa -5'
12803 3' -57.7 NC_003387.1 + 24658 0.71 0.270196
Target:  5'- cGCgAGGU----CGCCAGCGCCGaGGGUg -3'
miRNA:   3'- -CGgUCCAcuuuGCGGUCGUGGC-CCUA- -5'
12803 3' -57.7 NC_003387.1 + 44408 0.71 0.263409
Target:  5'- gGCCGGGccguagUGAuGCGCC-GCGCCGGuGAUc -3'
miRNA:   3'- -CGGUCC------ACUuUGCGGuCGUGGCC-CUA- -5'
12803 3' -57.7 NC_003387.1 + 50977 0.71 0.263409
Target:  5'- cGCCGGGcucaUGcuguCGaUCAGCACCGGGAUg -3'
miRNA:   3'- -CGGUCC----ACuuu-GC-GGUCGUGGCCCUA- -5'
12803 3' -57.7 NC_003387.1 + 37049 0.72 0.235798
Target:  5'- cGCCGGGauucaucaccugcgUGGgcAACGCCAGCAgCGGGu- -3'
miRNA:   3'- -CGGUCC--------------ACU--UUGCGGUCGUgGCCCua -5'
12803 3' -57.7 NC_003387.1 + 3667 0.72 0.223804
Target:  5'- uGCCcGGUG-AGCGCCAGCagcgcaaccgucgaGCCGGuGAUg -3'
miRNA:   3'- -CGGuCCACuUUGCGGUCG--------------UGGCC-CUA- -5'
12803 3' -57.7 NC_003387.1 + 45953 0.73 0.202983
Target:  5'- gGCCAGGuUGAucugguucuCGCCGGUGCCGaGGGUg -3'
miRNA:   3'- -CGGUCC-ACUuu-------GCGGUCGUGGC-CCUA- -5'
12803 3' -57.7 NC_003387.1 + 30247 0.75 0.154958
Target:  5'- gGCCGGGUcGucGGgGUCGGCGCCGGGGUc -3'
miRNA:   3'- -CGGUCCA-Cu-UUgCGGUCGUGGCCCUA- -5'
12803 3' -57.7 NC_003387.1 + 30487 0.75 0.154958
Target:  5'- uGCCcguuauAGGUGAAAuUGCCGGgGCCGGGGc -3'
miRNA:   3'- -CGG------UCCACUUU-GCGGUCgUGGCCCUa -5'
12803 3' -57.7 NC_003387.1 + 43714 0.76 0.135014
Target:  5'- cGCCAGGUGcucGACGgCGGCAUgCGGGAg -3'
miRNA:   3'- -CGGUCCACu--UUGCgGUCGUG-GCCCUa -5'
12803 3' -57.7 NC_003387.1 + 30368 0.76 0.125602
Target:  5'- cGCCGGGU---GCGCCugggccagccccaccGGCGCCGGGAg -3'
miRNA:   3'- -CGGUCCAcuuUGCGG---------------UCGUGGCCCUa -5'
12803 3' -57.7 NC_003387.1 + 35760 1.07 0.000656
Target:  5'- cGCCAGGUGAAACGCCAGCACCGGGAUc -3'
miRNA:   3'- -CGGUCCACUUUGCGGUCGUGGCCCUA- -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.