miRNA display CGI


Results 1 - 20 of 21 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
12685 3' -55.5 NC_003345.1 + 30415 0.66 0.783549
Target:  5'- cAGAaGuGGACAacCCA-CCUCGAUGUGg -3'
miRNA:   3'- -UCUaCuCCUGU--GGUgGGAGCUACGCa -5'
12685 3' -55.5 NC_003345.1 + 45960 0.66 0.773782
Target:  5'- cGGAUGGGGAaGCCACcggcccaauCCUCGGggucaagccccgUGCGa -3'
miRNA:   3'- -UCUACUCCUgUGGUG---------GGAGCU------------ACGCa -5'
12685 3' -55.5 NC_003345.1 + 24114 0.66 0.763876
Target:  5'- ---cGAacGGA-ACCgaACCCUCGAUGCGUg -3'
miRNA:   3'- ucuaCU--CCUgUGG--UGGGAGCUACGCA- -5'
12685 3' -55.5 NC_003345.1 + 18753 0.67 0.753841
Target:  5'- cGGGUGAGGuACuuCAgCC-CGGUGCGa -3'
miRNA:   3'- -UCUACUCC-UGugGUgGGaGCUACGCa -5'
12685 3' -55.5 NC_003345.1 + 5317 0.67 0.723065
Target:  5'- uGGAUGAGGAgAaCAaaCUUGAUGCGa -3'
miRNA:   3'- -UCUACUCCUgUgGUggGAGCUACGCa -5'
12685 3' -55.5 NC_003345.1 + 51547 0.67 0.702097
Target:  5'- aAGcgGAGcaaAUcCCAcCCCUCGAUGCGUg -3'
miRNA:   3'- -UCuaCUCc--UGuGGU-GGGAGCUACGCA- -5'
12685 3' -55.5 NC_003345.1 + 30943 0.68 0.69151
Target:  5'- cGAcuUGAGGACGuuuuCCAUCgaacgCUCGAUGCGg -3'
miRNA:   3'- uCU--ACUCCUGU----GGUGG-----GAGCUACGCa -5'
12685 3' -55.5 NC_003345.1 + 32451 0.68 0.670183
Target:  5'- --uUGGGGAacgcuuccccgaCGCCGaCCUCGAUGCGg -3'
miRNA:   3'- ucuACUCCU------------GUGGUgGGAGCUACGCa -5'
12685 3' -55.5 NC_003345.1 + 35764 0.68 0.670183
Target:  5'- ---gGAGGACGCCACCauaucCGGUGgGa -3'
miRNA:   3'- ucuaCUCCUGUGGUGGga---GCUACgCa -5'
12685 3' -55.5 NC_003345.1 + 21854 0.68 0.659463
Target:  5'- uGGUGAagucgGuGACGCCGaguacgaCCUCGAUGCGg -3'
miRNA:   3'- uCUACU-----C-CUGUGGUg------GGAGCUACGCa -5'
12685 3' -55.5 NC_003345.1 + 57636 0.68 0.658389
Target:  5'- gAGGUcGGGACGCucagcaaCACCCUCcAUGCGg -3'
miRNA:   3'- -UCUAcUCCUGUG-------GUGGGAGcUACGCa -5'
12685 3' -55.5 NC_003345.1 + 42196 0.69 0.627196
Target:  5'- aGGAUucGGGGACAacaUCAgCCUCGAUGCc- -3'
miRNA:   3'- -UCUA--CUCCUGU---GGUgGGAGCUACGca -5'
12685 3' -55.5 NC_003345.1 + 26906 0.69 0.626119
Target:  5'- ---cGGGGGCACUcaagcugaguaacGCCCUCGAUgaGCGg -3'
miRNA:   3'- ucuaCUCCUGUGG-------------UGGGAGCUA--CGCa -5'
12685 3' -55.5 NC_003345.1 + 55917 0.7 0.563002
Target:  5'- cGgcGAGGACuCCACCUUCGGUGa-- -3'
miRNA:   3'- uCuaCUCCUGuGGUGGGAGCUACgca -5'
12685 3' -55.5 NC_003345.1 + 54553 0.7 0.541947
Target:  5'- --cUGAGGAgGaaAUCCUCGAUGCGa -3'
miRNA:   3'- ucuACUCCUgUggUGGGAGCUACGCa -5'
12685 3' -55.5 NC_003345.1 + 63552 0.73 0.366857
Target:  5'- cGGUGAGGACAgCCcgcucacucgcaacAUCCUCGAUGCu- -3'
miRNA:   3'- uCUACUCCUGU-GG--------------UGGGAGCUACGca -5'
12685 3' -55.5 NC_003345.1 + 41346 0.74 0.360963
Target:  5'- aGGccGAGGuGCGCCACCgagUUCGAUGCGUu -3'
miRNA:   3'- -UCuaCUCC-UGUGGUGG---GAGCUACGCA- -5'
12685 3' -55.5 NC_003345.1 + 38422 0.81 0.133285
Target:  5'- ---gGAGGugGCCgaaACCCUCGAUGCGUc -3'
miRNA:   3'- ucuaCUCCugUGG---UGGGAGCUACGCA- -5'
12685 3' -55.5 NC_003345.1 + 74110 0.81 0.122467
Target:  5'- gAGAUGGcguucuuGGaagaccagaGCGCCACCCUCGAUGCGUa -3'
miRNA:   3'- -UCUACU-------CC---------UGUGGUGGGAGCUACGCA- -5'
12685 3' -55.5 NC_003345.1 + 70512 0.81 0.116246
Target:  5'- uGAUGAGGACgaaGCCAaccCCCUCGAUGUGg -3'
miRNA:   3'- uCUACUCCUG---UGGU---GGGAGCUACGCa -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.