miRNA display CGI


Results 1 - 20 of 42 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
31829 3' -56.3 NC_006938.1 + 23393 1.09 0.001058
Target:  5'- aACGACACAACCGUCAAGCUCGCCCCGa -3'
miRNA:   3'- -UGCUGUGUUGGCAGUUCGAGCGGGGC- -5'
31829 3' -56.3 NC_006938.1 + 23699 0.78 0.163827
Target:  5'- gGCGGCAUGGCCGagaugcUCGAGCgCGCCCUGa -3'
miRNA:   3'- -UGCUGUGUUGGC------AGUUCGaGCGGGGC- -5'
31829 3' -56.3 NC_006938.1 + 24227 0.76 0.218856
Target:  5'- cCGugGCAAUCGUgAAGCUCGgCaCCCGg -3'
miRNA:   3'- uGCugUGUUGGCAgUUCGAGC-G-GGGC- -5'
31829 3' -56.3 NC_006938.1 + 50954 0.71 0.396505
Target:  5'- cCGugAUcucuCCGUCGgugccgagcuggcggAGCUCGCCCCGc -3'
miRNA:   3'- uGCugUGuu--GGCAGU---------------UCGAGCGGGGC- -5'
31829 3' -56.3 NC_006938.1 + 55405 0.71 0.420165
Target:  5'- uCGGCGCGcucGCCG-CAGGCggccugggcuucUCGCCCCa -3'
miRNA:   3'- uGCUGUGU---UGGCaGUUCG------------AGCGGGGc -5'
31829 3' -56.3 NC_006938.1 + 21667 0.7 0.477855
Target:  5'- cGCGGgucCAGCUGUCGGGCaaccUGCCCCGg -3'
miRNA:   3'- -UGCUgu-GUUGGCAGUUCGa---GCGGGGC- -5'
31829 3' -56.3 NC_006938.1 + 43164 0.7 0.487851
Target:  5'- aACGuC-CAGCUGU--AGCUCGUCCCGg -3'
miRNA:   3'- -UGCuGuGUUGGCAguUCGAGCGGGGC- -5'
31829 3' -56.3 NC_006938.1 + 62553 0.69 0.497944
Target:  5'- cGCGACGCGucggcgGCCGagGAGUuccgucucaUCGUCCCGa -3'
miRNA:   3'- -UGCUGUGU------UGGCagUUCG---------AGCGGGGC- -5'
31829 3' -56.3 NC_006938.1 + 46541 0.69 0.547579
Target:  5'- -gGACACGACCG-CGAGUgacuccacgaaGCCCUGg -3'
miRNA:   3'- ugCUGUGUUGGCaGUUCGag---------CGGGGC- -5'
31829 3' -56.3 NC_006938.1 + 18457 0.69 0.549685
Target:  5'- uGCaGCAgCAGCCGUCccgcgacgAGGacaUCGCCCCGa -3'
miRNA:   3'- -UGcUGU-GUUGGCAG--------UUCg--AGCGGGGC- -5'
31829 3' -56.3 NC_006938.1 + 20223 0.69 0.553902
Target:  5'- aGCGAgGCAGgcuucuggagcagcuCCGUCAAGC-CaGCCCUGu -3'
miRNA:   3'- -UGCUgUGUU---------------GGCAGUUCGaG-CGGGGC- -5'
31829 3' -56.3 NC_006938.1 + 62190 0.68 0.560245
Target:  5'- cACGGCACGGCgCGcuaCAcAGCgaacuUCGCCCCGc -3'
miRNA:   3'- -UGCUGUGUUG-GCa--GU-UCG-----AGCGGGGC- -5'
31829 3' -56.3 NC_006938.1 + 2137 0.68 0.560245
Target:  5'- -gGugGCAGCCGUCAacuggGGCgacgugcaCGCCuCCGa -3'
miRNA:   3'- ugCugUGUUGGCAGU-----UCGa-------GCGG-GGC- -5'
31829 3' -56.3 NC_006938.1 + 38505 0.68 0.581526
Target:  5'- cACGACGgGACguugaagGUCAGGC-CGCCaCCGg -3'
miRNA:   3'- -UGCUGUgUUGg------CAGUUCGaGCGG-GGC- -5'
31829 3' -56.3 NC_006938.1 + 12755 0.68 0.581526
Target:  5'- cACGAcCACAGgacuCCGUCGAGCUUGUUCa- -3'
miRNA:   3'- -UGCU-GUGUU----GGCAGUUCGAGCGGGgc -5'
31829 3' -56.3 NC_006938.1 + 34829 0.68 0.59223
Target:  5'- cGCGACGCGcACgGUCAGuGcCUCGCCUg- -3'
miRNA:   3'- -UGCUGUGU-UGgCAGUU-C-GAGCGGGgc -5'
31829 3' -56.3 NC_006938.1 + 28650 0.68 0.601893
Target:  5'- cACGACACGuggcuggagcuCCGUCGcggcugggaguggGGCUCGUUCCu -3'
miRNA:   3'- -UGCUGUGUu----------GGCAGU-------------UCGAGCGGGGc -5'
31829 3' -56.3 NC_006938.1 + 23084 0.68 0.613729
Target:  5'- cGCGAC-CAGCCGUCcuccGGGUUUaugacguaGCCCCu -3'
miRNA:   3'- -UGCUGuGUUGGCAG----UUCGAG--------CGGGGc -5'
31829 3' -56.3 NC_006938.1 + 10803 0.68 0.618038
Target:  5'- gGCGAugacCACGcccgacACCGUCAGGCgcucgguggcgaggaUUGCCCCu -3'
miRNA:   3'- -UGCU----GUGU------UGGCAGUUCG---------------AGCGGGGc -5'
31829 3' -56.3 NC_006938.1 + 24397 0.67 0.624505
Target:  5'- -gGAUGCGGCCGUCGAGCa--CCUCGu -3'
miRNA:   3'- ugCUGUGUUGGCAGUUCGagcGGGGC- -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.