miRNA display CGI


Results 1 - 20 of 64 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
19442 3' -61.3 NC_004685.1 + 54227 0.66 0.503003
Target:  5'- -gGAGCCgAuAGgCCGAGGCcGA-CCCa -3'
miRNA:   3'- ggCUCGGgU-UCgGGCUCCGaCUcGGG- -5'
19442 3' -61.3 NC_004685.1 + 2455 0.66 0.493255
Target:  5'- gCCGAacGCU--GGCCCGGGGU---GCCCa -3'
miRNA:   3'- -GGCU--CGGguUCGGGCUCCGacuCGGG- -5'
19442 3' -61.3 NC_004685.1 + 44242 0.66 0.493255
Target:  5'- gCCGcagcAGCCC-GGCCCGAucUUGGcGCCCg -3'
miRNA:   3'- -GGC----UCGGGuUCGGGCUccGACU-CGGG- -5'
19442 3' -61.3 NC_004685.1 + 15708 0.66 0.483596
Target:  5'- cCCGAGuCCUggGCCaccccgaguUGGGGCUcGGCgCa -3'
miRNA:   3'- -GGCUC-GGGuuCGG---------GCUCCGAcUCGgG- -5'
19442 3' -61.3 NC_004685.1 + 16846 0.66 0.483596
Target:  5'- gCC-AGCCUGuGGCCgGaAGGCUuAGCCCu -3'
miRNA:   3'- -GGcUCGGGU-UCGGgC-UCCGAcUCGGG- -5'
19442 3' -61.3 NC_004685.1 + 2093 0.66 0.483596
Target:  5'- aUCGGGuCCCAuucGGCCCaGGGUUGAucggauguugGCUCg -3'
miRNA:   3'- -GGCUC-GGGU---UCGGGcUCCGACU----------CGGG- -5'
19442 3' -61.3 NC_004685.1 + 398 0.66 0.477844
Target:  5'- cUCGAGCUgcucguaggcggcggCGAGCUCGGGGCUaAGCa- -3'
miRNA:   3'- -GGCUCGG---------------GUUCGGGCUCCGAcUCGgg -5'
19442 3' -61.3 NC_004685.1 + 16327 0.66 0.474027
Target:  5'- gCUGAGCCUgcGUUCGAcGCcGAGCCa -3'
miRNA:   3'- -GGCUCGGGuuCGGGCUcCGaCUCGGg -5'
19442 3' -61.3 NC_004685.1 + 15645 0.66 0.455183
Target:  5'- cCCGAGgagGAGCCCGAGGCUcgcgcguuGCCg -3'
miRNA:   3'- -GGCUCgggUUCGGGCUCCGAcu------CGGg -5'
19442 3' -61.3 NC_004685.1 + 53024 0.66 0.455183
Target:  5'- aCCGAGCagcuGUCCGAGGCgaucacuGCCa -3'
miRNA:   3'- -GGCUCGgguuCGGGCUCCGacu----CGGg -5'
19442 3' -61.3 NC_004685.1 + 3347 0.66 0.455183
Target:  5'- aCCGAaCCCAaaccGGCgCCGAuGGUccGGCCCg -3'
miRNA:   3'- -GGCUcGGGU----UCG-GGCU-CCGacUCGGG- -5'
19442 3' -61.3 NC_004685.1 + 43760 0.67 0.445913
Target:  5'- gCCGAGCgCGGGCCgGAGaacguCUucGAGCCa -3'
miRNA:   3'- -GGCUCGgGUUCGGgCUCc----GA--CUCGGg -5'
19442 3' -61.3 NC_004685.1 + 8827 0.67 0.445913
Target:  5'- gUCGAGCUCGGGgaugCCGAuGGuCUG-GCCCu -3'
miRNA:   3'- -GGCUCGGGUUCg---GGCU-CC-GACuCGGG- -5'
19442 3' -61.3 NC_004685.1 + 26414 0.67 0.445913
Target:  5'- gCUGAGCaucCCGAGgUCGGGGUgcggGGGCaCCa -3'
miRNA:   3'- -GGCUCG---GGUUCgGGCUCCGa---CUCG-GG- -5'
19442 3' -61.3 NC_004685.1 + 35572 0.67 0.445913
Target:  5'- aUCGcGCCCGAGCCgGGGGagaaGGGCa- -3'
miRNA:   3'- -GGCuCGGGUUCGGgCUCCga--CUCGgg -5'
19442 3' -61.3 NC_004685.1 + 30459 0.67 0.43675
Target:  5'- gCCGAGCCUugucGGCgUCGgucAGGUUGGGCUUa -3'
miRNA:   3'- -GGCUCGGGu---UCG-GGC---UCCGACUCGGG- -5'
19442 3' -61.3 NC_004685.1 + 65598 0.67 0.43675
Target:  5'- gCCGAGCCU--GCCCGAcGGUUa--CCCg -3'
miRNA:   3'- -GGCUCGGGuuCGGGCU-CCGAcucGGG- -5'
19442 3' -61.3 NC_004685.1 + 52811 0.67 0.43675
Target:  5'- cCCGAcuGCCC-GGCCggCGAGGgUGGGCa- -3'
miRNA:   3'- -GGCU--CGGGuUCGG--GCUCCgACUCGgg -5'
19442 3' -61.3 NC_004685.1 + 68374 0.67 0.43675
Target:  5'- uCCGAGugugcgugcgcCCCGGGUCCGAGuGUgc-GCCCc -3'
miRNA:   3'- -GGCUC-----------GGGUUCGGGCUC-CGacuCGGG- -5'
19442 3' -61.3 NC_004685.1 + 36788 0.67 0.43675
Target:  5'- gCG-GCCCGAGCCgCaGGGCUGGuGCg- -3'
miRNA:   3'- gGCuCGGGUUCGG-GcUCCGACU-CGgg -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.