miRNA display CGI


Results 1 - 20 of 28 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
12029 3' -54.9 NC_003278.1 + 19782 0.66 0.646558
Target:  5'- cGCGGcAG-CGCUCugGAUgccGCGGCu- -3'
miRNA:   3'- -CGCCuUUgGUGAGugCUGa--CGCCGcu -5'
12029 3' -54.9 NC_003278.1 + 10024 0.66 0.646558
Target:  5'- gGCGGucGCCGuuguuccugagUUC-CGGCacgGCGGCGAg -3'
miRNA:   3'- -CGCCuuUGGU-----------GAGuGCUGa--CGCCGCU- -5'
12029 3' -54.9 NC_003278.1 + 15745 0.66 0.63525
Target:  5'- aGCGGAcccaggcuGACCACUCccgcuuggACGAaucggucgUUGCGGgGGa -3'
miRNA:   3'- -CGCCU--------UUGGUGAG--------UGCU--------GACGCCgCU- -5'
12029 3' -54.9 NC_003278.1 + 17461 0.66 0.623939
Target:  5'- gGCGGAGACauaaGCgaaggCGCGcaguuGCUG-GGCGAu -3'
miRNA:   3'- -CGCCUUUGg---UGa----GUGC-----UGACgCCGCU- -5'
12029 3' -54.9 NC_003278.1 + 21068 0.66 0.612635
Target:  5'- gGCGGccAGGCCccacagcgcgauGCUCACGACgcGCagGGCGGu -3'
miRNA:   3'- -CGCC--UUUGG------------UGAGUGCUGa-CG--CCGCU- -5'
12029 3' -54.9 NC_003278.1 + 12122 0.66 0.60135
Target:  5'- gGCGGu-ACCACcgaacucaUCAgCGACgGCGGCa- -3'
miRNA:   3'- -CGCCuuUGGUG--------AGU-GCUGaCGCCGcu -5'
12029 3' -54.9 NC_003278.1 + 29692 0.66 0.60135
Target:  5'- uGUGGAAGCUGCU--CGGCcggGCGGaCGAg -3'
miRNA:   3'- -CGCCUUUGGUGAguGCUGa--CGCC-GCU- -5'
12029 3' -54.9 NC_003278.1 + 9815 0.67 0.590092
Target:  5'- gGCGGGAcaGCCACUgAUGGuaaGCGGCc- -3'
miRNA:   3'- -CGCCUU--UGGUGAgUGCUga-CGCCGcu -5'
12029 3' -54.9 NC_003278.1 + 20133 0.67 0.590092
Target:  5'- -aGGugGCCGacgUACuGACUGCGGCGu -3'
miRNA:   3'- cgCCuuUGGUga-GUG-CUGACGCCGCu -5'
12029 3' -54.9 NC_003278.1 + 11967 0.67 0.578872
Target:  5'- gGUGGggGcguuCCAUUCGCGGucggcgccggcCcGCGGCGAu -3'
miRNA:   3'- -CGCCuuU----GGUGAGUGCU-----------GaCGCCGCU- -5'
12029 3' -54.9 NC_003278.1 + 17540 0.67 0.578872
Target:  5'- cCGGccAGAUCAC-CAUGGCUucgcgcGCGGCGAa -3'
miRNA:   3'- cGCC--UUUGGUGaGUGCUGA------CGCCGCU- -5'
12029 3' -54.9 NC_003278.1 + 3085 0.67 0.55658
Target:  5'- uCGGAggacuacaAGCCGUUCGCG-CUGCGGCc- -3'
miRNA:   3'- cGCCU--------UUGGUGAGUGCuGACGCCGcu -5'
12029 3' -54.9 NC_003278.1 + 1659 0.67 0.545525
Target:  5'- cGCGacGACCACUCGcCGGCcUGCGGg-- -3'
miRNA:   3'- -CGCcuUUGGUGAGU-GCUG-ACGCCgcu -5'
12029 3' -54.9 NC_003278.1 + 2414 0.67 0.544423
Target:  5'- gGCGGAcuggacuguaacuGGCUGCUgGCGGCgGUGGCu- -3'
miRNA:   3'- -CGCCU-------------UUGGUGAgUGCUGaCGCCGcu -5'
12029 3' -54.9 NC_003278.1 + 33203 0.67 0.534542
Target:  5'- uGCGGuu-CCGC---CGGCUGCGGcCGAg -3'
miRNA:   3'- -CGCCuuuGGUGaguGCUGACGCC-GCU- -5'
12029 3' -54.9 NC_003278.1 + 6291 0.68 0.51282
Target:  5'- cGCGuGAccGCCGCUCAagaGGCgGCGGCc- -3'
miRNA:   3'- -CGC-CUu-UGGUGAGUg--CUGaCGCCGcu -5'
12029 3' -54.9 NC_003278.1 + 16945 0.68 0.51282
Target:  5'- -aGGcuGCCGCgcgCGCGGCgaaGgGGCGAg -3'
miRNA:   3'- cgCCuuUGGUGa--GUGCUGa--CgCCGCU- -5'
12029 3' -54.9 NC_003278.1 + 23246 0.68 0.502095
Target:  5'- gGCGGuu-CCACUCgGCG-CggGCGGCGc -3'
miRNA:   3'- -CGCCuuuGGUGAG-UGCuGa-CGCCGCu -5'
12029 3' -54.9 NC_003278.1 + 6867 0.69 0.47054
Target:  5'- cGCGcGAu-CCaACUgCACGACaagUGCGGCGGg -3'
miRNA:   3'- -CGC-CUuuGG-UGA-GUGCUG---ACGCCGCU- -5'
12029 3' -54.9 NC_003278.1 + 5198 0.69 0.460246
Target:  5'- cCGGggGCCGCUgCuguUGGCUGUGGUc- -3'
miRNA:   3'- cGCCuuUGGUGA-Gu--GCUGACGCCGcu -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.