miRNA display CGI


Results 1 - 20 of 35 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
23410 3' -61.1 NC_005259.1 + 784 0.65 0.518487
Target:  5'- gGCGGCUGcccUCGGUuggguggccaagggGcCGGGUGUCGagaccuCGCa -3'
miRNA:   3'- -CGCCGAC---AGCCG--------------C-GUCCACAGCc-----GCG- -5'
23410 3' -61.1 NC_005259.1 + 58587 0.69 0.31549
Target:  5'- cGCGGCUGccgggccggaucuuuUCGaGCGCcuGGcugaUGUCGGCGa -3'
miRNA:   3'- -CGCCGAC---------------AGC-CGCGu-CC----ACAGCCGCg -5'
23410 3' -61.1 NC_005259.1 + 39760 0.69 0.342637
Target:  5'- aGCGGCaGcagCGGCagccugcuGCuGGUGaUCGGUGCg -3'
miRNA:   3'- -CGCCGaCa--GCCG--------CGuCCAC-AGCCGCG- -5'
23410 3' -61.1 NC_005259.1 + 40940 0.69 0.342637
Target:  5'- uGCGGCUGa-GGUauGCAGaGUGauccUUGGCGCu -3'
miRNA:   3'- -CGCCGACagCCG--CGUC-CAC----AGCCGCG- -5'
23410 3' -61.1 NC_005259.1 + 11100 0.69 0.35047
Target:  5'- cGCaGGUguucuUGUUGGUGCGacGGUGaCGGUGCg -3'
miRNA:   3'- -CG-CCG-----ACAGCCGCGU--CCACaGCCGCG- -5'
23410 3' -61.1 NC_005259.1 + 39835 0.68 0.374727
Target:  5'- aGCGcGUUgGUCGGCGaCAGGaUGcCGGUGa -3'
miRNA:   3'- -CGC-CGA-CAGCCGC-GUCC-ACaGCCGCg -5'
23410 3' -61.1 NC_005259.1 + 45496 0.68 0.391517
Target:  5'- gGUGGCcuugGUCGcuguggccaccGCGCcGGUGUUGGcCGCc -3'
miRNA:   3'- -CGCCGa---CAGC-----------CGCGuCCACAGCC-GCG- -5'
23410 3' -61.1 NC_005259.1 + 66185 0.68 0.391517
Target:  5'- gGCaccGCUGcCGGUGCAGuacggGUCaGGCGCg -3'
miRNA:   3'- -CGc--CGACaGCCGCGUCca---CAG-CCGCG- -5'
23410 3' -61.1 NC_005259.1 + 61926 0.68 0.400095
Target:  5'- uCGGCagcucgGUCucucGCGCGGGUGcCGGgGCc -3'
miRNA:   3'- cGCCGa-----CAGc---CGCGUCCACaGCCgCG- -5'
23410 3' -61.1 NC_005259.1 + 49065 0.7 0.303247
Target:  5'- uCGGCgGUUGGCGCaagggaucgcucgaGGGUGUCauGGcCGCc -3'
miRNA:   3'- cGCCGaCAGCCGCG--------------UCCACAG--CC-GCG- -5'
23410 3' -61.1 NC_005259.1 + 57022 0.7 0.284559
Target:  5'- cGCGGC--UCGGCGC-GGUGg-GGuCGCa -3'
miRNA:   3'- -CGCCGacAGCCGCGuCCACagCC-GCG- -5'
23410 3' -61.1 NC_005259.1 + 58941 0.7 0.277872
Target:  5'- cGCGGUggcagcGUCGGCcuuggccaGCAGGUcgggcagcucGUCGGCGa -3'
miRNA:   3'- -CGCCGa-----CAGCCG--------CGUCCA----------CAGCCGCg -5'
23410 3' -61.1 NC_005259.1 + 53529 0.74 0.156577
Target:  5'- aGCGGCacggGcUCGGUGCccGGUGUCGGCu- -3'
miRNA:   3'- -CGCCGa---C-AGCCGCGu-CCACAGCCGcg -5'
23410 3' -61.1 NC_005259.1 + 52382 0.74 0.156577
Target:  5'- aGCGGCUGcgcagccugccUCGG-GCcaucgAGGUGUgGGCGCu -3'
miRNA:   3'- -CGCCGAC-----------AGCCgCG-----UCCACAgCCGCG- -5'
23410 3' -61.1 NC_005259.1 + 34013 0.74 0.156577
Target:  5'- cCGGCUGUaucCGGCcucgGCGGcGUgcGUCGGCGCg -3'
miRNA:   3'- cGCCGACA---GCCG----CGUC-CA--CAGCCGCG- -5'
23410 3' -61.1 NC_005259.1 + 19839 0.73 0.187316
Target:  5'- cGCGGCUGcugCcGCGCucGGUGU-GGCGCu -3'
miRNA:   3'- -CGCCGACa--GcCGCGu-CCACAgCCGCG- -5'
23410 3' -61.1 NC_005259.1 + 26810 0.73 0.192119
Target:  5'- cCGGUUGgccgguacCGGCGguGGUGcCGGgGCg -3'
miRNA:   3'- cGCCGACa-------GCCGCguCCACaGCCgCG- -5'
23410 3' -61.1 NC_005259.1 + 27392 0.72 0.228836
Target:  5'- gGCGGCggUGUCGGCaGCGGcGgcagcUCGGUGCc -3'
miRNA:   3'- -CGCCG--ACAGCCG-CGUC-Cac---AGCCGCG- -5'
23410 3' -61.1 NC_005259.1 + 27972 0.7 0.271311
Target:  5'- cGUGGCcaaUGUuccucccuugggUGGUGCGGGUGcCGGgGCg -3'
miRNA:   3'- -CGCCG---ACA------------GCCGCGUCCACaGCCgCG- -5'
23410 3' -61.1 NC_005259.1 + 27145 0.7 0.275233
Target:  5'- gGCGGCUG-CGGUGUuGGggccaacgaugccGUCGGCGa -3'
miRNA:   3'- -CGCCGACaGCCGCGuCCa------------CAGCCGCg -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.