miRNA display CGI


Results 1 - 20 of 23 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
16281 5' -61.1 NC_004084.1 + 34567 0.66 0.447943
Target:  5'- aUCGCGAggGCGCUgGCGgCgAcUGCCu -3'
miRNA:   3'- cGGCGCUgaCGCGAgCGCgGgU-ACGG- -5'
16281 5' -61.1 NC_004084.1 + 56347 0.66 0.447943
Target:  5'- uGCCGUucucgaGGCUGUGCUUcuUGCCCGUcaucggaagGCCa -3'
miRNA:   3'- -CGGCG------CUGACGCGAGc-GCGGGUA---------CGG- -5'
16281 5' -61.1 NC_004084.1 + 29064 0.66 0.447943
Target:  5'- gGCCGCGACcGCccGCUCGgggGCgUCGUcGCCg -3'
miRNA:   3'- -CGGCGCUGaCG--CGAGCg--CG-GGUA-CGG- -5'
16281 5' -61.1 NC_004084.1 + 39452 0.66 0.447005
Target:  5'- cGCCGgcCGACUgGCGCgaGCGCCgAUcgaggagGCCa -3'
miRNA:   3'- -CGGC--GCUGA-CGCGagCGCGGgUA-------CGG- -5'
16281 5' -61.1 NC_004084.1 + 36270 0.66 0.445134
Target:  5'- cGCCGag---GCGCUCGCGgucagucaucgcuuCCCA-GCCg -3'
miRNA:   3'- -CGGCgcugaCGCGAGCGC--------------GGGUaCGG- -5'
16281 5' -61.1 NC_004084.1 + 18945 0.66 0.420306
Target:  5'- gGCCuuguUGGCcuccucaucgGCGCUCGCGCCagucgGCCg -3'
miRNA:   3'- -CGGc---GCUGa---------CGCGAGCGCGGgua--CGG- -5'
16281 5' -61.1 NC_004084.1 + 34659 0.67 0.393726
Target:  5'- uGCCGUcuGGgaGuCGCUcacCGCGUCCAUuGCCg -3'
miRNA:   3'- -CGGCG--CUgaC-GCGA---GCGCGGGUA-CGG- -5'
16281 5' -61.1 NC_004084.1 + 14631 0.67 0.385111
Target:  5'- cGCCGCcgGACUcuccgccgGCGa--GCGCCCAgucgaUGCCc -3'
miRNA:   3'- -CGGCG--CUGA--------CGCgagCGCGGGU-----ACGG- -5'
16281 5' -61.1 NC_004084.1 + 34814 0.67 0.376622
Target:  5'- uCUGCGAC-GUGCUcacCGCGUCCAUcGCg -3'
miRNA:   3'- cGGCGCUGaCGCGA---GCGCGGGUA-CGg -5'
16281 5' -61.1 NC_004084.1 + 34719 0.67 0.36826
Target:  5'- cGCCGUcuGGgaGaCGCUcacCGCGUCCAUuGCCg -3'
miRNA:   3'- -CGGCG--CUgaC-GCGA---GCGCGGGUA-CGG- -5'
16281 5' -61.1 NC_004084.1 + 34597 0.69 0.306046
Target:  5'- aUCGCGACgguggaGaCGCUcacCGCGUCCAUuGCCg -3'
miRNA:   3'- cGGCGCUGa-----C-GCGA---GCGCGGGUA-CGG- -5'
16281 5' -61.1 NC_004084.1 + 26925 0.69 0.306046
Target:  5'- gGCgGCGACUGCcuccaucgcgcgGCggaCGCGCUCAccgcauccauUGCCc -3'
miRNA:   3'- -CGgCGCUGACG------------CGa--GCGCGGGU----------ACGG- -5'
16281 5' -61.1 NC_004084.1 + 30041 0.69 0.298861
Target:  5'- cUCGCGGggGcCGCUCGCGUCguuGUGCCa -3'
miRNA:   3'- cGGCGCUgaC-GCGAGCGCGGg--UACGG- -5'
16281 5' -61.1 NC_004084.1 + 41638 0.69 0.284884
Target:  5'- cGCCGCGGCgaacgGUGCgaggaGCGCCaucaccgggaGUGUCa -3'
miRNA:   3'- -CGGCGCUGa----CGCGag---CGCGGg---------UACGG- -5'
16281 5' -61.1 NC_004084.1 + 41686 0.7 0.252209
Target:  5'- gGCCGCGAUgcagaccgGCGagCGCGUCCcgGUCu -3'
miRNA:   3'- -CGGCGCUGa-------CGCgaGCGCGGGuaCGG- -5'
16281 5' -61.1 NC_004084.1 + 17027 0.7 0.246056
Target:  5'- uCCGCGACcgaGCGUcUGCGCCCGucgaUGCg -3'
miRNA:   3'- cGGCGCUGa--CGCGaGCGCGGGU----ACGg -5'
16281 5' -61.1 NC_004084.1 + 29342 0.7 0.240625
Target:  5'- cGCgGCGACgacgcccccgagcggGCGgUCGCGgCC-UGCCa -3'
miRNA:   3'- -CGgCGCUGa--------------CGCgAGCGCgGGuACGG- -5'
16281 5' -61.1 NC_004084.1 + 40755 0.71 0.217142
Target:  5'- cGUCGCc-CUGUGCUCGgguguCGCCCAgGCCu -3'
miRNA:   3'- -CGGCGcuGACGCGAGC-----GCGGGUaCGG- -5'
16281 5' -61.1 NC_004084.1 + 52969 0.71 0.201225
Target:  5'- cGUCGCGAgUGCGCUgGuCGCCgAUcGCg -3'
miRNA:   3'- -CGGCGCUgACGCGAgC-GCGGgUA-CGg -5'
16281 5' -61.1 NC_004084.1 + 23603 0.72 0.17695
Target:  5'- cGCCGgGaACUGCGCUCgaaGCGUCag-GCCc -3'
miRNA:   3'- -CGGCgC-UGACGCGAG---CGCGGguaCGG- -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.