miRNA display CGI


Results 1 - 20 of 38 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
11513 3' -51.3 NC_003085.1 + 27277 0.66 0.903422
Target:  5'- --cGGAUAccuGGACCgCUGUCGCgCAGGGg -3'
miRNA:   3'- ccaCUUGUu--CCUGG-GGUAGUG-GUUCC- -5'
11513 3' -51.3 NC_003085.1 + 13586 0.68 0.811287
Target:  5'- cGUGGGCAccggAGGcGCgCCAUgaCGCCAAGGc -3'
miRNA:   3'- cCACUUGU----UCC-UGgGGUA--GUGGUUCC- -5'
11513 3' -51.3 NC_003085.1 + 31061 0.67 0.856896
Target:  5'- cGGUGGAaucccGGACCgCGUCAUCAAc- -3'
miRNA:   3'- -CCACUUguu--CCUGGgGUAGUGGUUcc -5'
11513 3' -51.3 NC_003085.1 + 26445 0.67 0.865312
Target:  5'- cGGUGGACGucauguaccGCCUCGUCGgCGGGGa -3'
miRNA:   3'- -CCACUUGUucc------UGGGGUAGUgGUUCC- -5'
11513 3' -51.3 NC_003085.1 + 18558 0.66 0.888247
Target:  5'- aGGUGGcggGCAAGGACggccaagcgcugUCCAUCAgCAucgaccuGGGg -3'
miRNA:   3'- -CCACU---UGUUCCUG------------GGGUAGUgGU-------UCC- -5'
11513 3' -51.3 NC_003085.1 + 23924 0.66 0.888997
Target:  5'- --cGAGCAAGGACaCC-UCACgaagCGAGGg -3'
miRNA:   3'- ccaCUUGUUCCUGgGGuAGUG----GUUCC- -5'
11513 3' -51.3 NC_003085.1 + 24898 0.66 0.89635
Target:  5'- -----cCAGGGccGCCUCAUCGCCGAGu -3'
miRNA:   3'- ccacuuGUUCC--UGGGGUAGUGGUUCc -5'
11513 3' -51.3 NC_003085.1 + 2244 0.66 0.899212
Target:  5'- uGGUGcGCAaugccugcccaccggGGGGCCUCGUCGCgGAc- -3'
miRNA:   3'- -CCACuUGU---------------UCCUGGGGUAGUGgUUcc -5'
11513 3' -51.3 NC_003085.1 + 560 0.66 0.903422
Target:  5'- gGGUGGccgucgaaguGCAGGGcgaGCCCC--CGCCGcAGGg -3'
miRNA:   3'- -CCACU----------UGUUCC---UGGGGuaGUGGU-UCC- -5'
11513 3' -51.3 NC_003085.1 + 40565 0.69 0.781466
Target:  5'- cGGUGAcggccGCGGuGGACCCCAagugcagcaUUGCCGAccGGg -3'
miRNA:   3'- -CCACU-----UGUU-CCUGGGGU---------AGUGGUU--CC- -5'
11513 3' -51.3 NC_003085.1 + 33051 0.69 0.771183
Target:  5'- cGGUGggUuGGGACgCUaccuugcugCAUCGCCAGGa -3'
miRNA:   3'- -CCACuuGuUCCUG-GG---------GUAGUGGUUCc -5'
11513 3' -51.3 NC_003085.1 + 34875 0.69 0.739479
Target:  5'- cGGUGAAUGA-GACCCgCGucacauUCACCGAGa -3'
miRNA:   3'- -CCACUUGUUcCUGGG-GU------AGUGGUUCc -5'
11513 3' -51.3 NC_003085.1 + 39731 0.74 0.474715
Target:  5'- aGGUGGAUGAGGACCag--CGCCGgaAGGa -3'
miRNA:   3'- -CCACUUGUUCCUGGgguaGUGGU--UCC- -5'
11513 3' -51.3 NC_003085.1 + 31686 0.73 0.517094
Target:  5'- --cGGGCGGGGGCCCUuggcuUCGCuCAGGGu -3'
miRNA:   3'- ccaCUUGUUCCUGGGGu----AGUG-GUUCC- -5'
11513 3' -51.3 NC_003085.1 + 37950 0.71 0.62824
Target:  5'- --aGAAUcGGGGCCCCAaCGCCAucuGGu -3'
miRNA:   3'- ccaCUUGuUCCUGGGGUaGUGGUu--CC- -5'
11513 3' -51.3 NC_003085.1 + 46457 0.71 0.62824
Target:  5'- --cGAGCAcccaGAgUCCAUCACCAAGGg -3'
miRNA:   3'- ccaCUUGUuc--CUgGGGUAGUGGUUCC- -5'
11513 3' -51.3 NC_003085.1 + 27742 0.71 0.650819
Target:  5'- aGGUGGACAAGGACacguaCGUCacgGCCAAa- -3'
miRNA:   3'- -CCACUUGUUCCUGgg---GUAG---UGGUUcc -5'
11513 3' -51.3 NC_003085.1 + 16935 0.7 0.684523
Target:  5'- uGGaGGGCAAGG-CCCCGcaCACCuGGGa -3'
miRNA:   3'- -CCaCUUGUUCCuGGGGUa-GUGGuUCC- -5'
11513 3' -51.3 NC_003085.1 + 7708 0.69 0.727579
Target:  5'- gGGUGAcgucaugaagccAUGucccucguuccccGGGuACUCCGUCACCGAGGa -3'
miRNA:   3'- -CCACU------------UGU-------------UCC-UGGGGUAGUGGUUCC- -5'
11513 3' -51.3 NC_003085.1 + 11795 0.69 0.739479
Target:  5'- --cGGGCGugucGGcuGCCCCAUCGCCGGGu -3'
miRNA:   3'- ccaCUUGUu---CC--UGGGGUAGUGGUUCc -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.