miRNA display CGI


Results 1 - 20 of 41 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
12129 3' -56.2 NC_003309.1 + 1359 0.68 0.522182
Target:  5'- uGCCGGCGCUUGuCGaagcACGGCCCcucgauguucgcGCCc -3'
miRNA:   3'- -CGGUCGUGGAC-GCaua-UGCUGGG------------CGG- -5'
12129 3' -56.2 NC_003309.1 + 3579 0.67 0.626444
Target:  5'- aGCCAGCcccacuggcgcccgACCgcguaggcgGCGUAUcgcgACGACUgauCGCCg -3'
miRNA:   3'- -CGGUCG--------------UGGa--------CGCAUA----UGCUGG---GCGG- -5'
12129 3' -56.2 NC_003309.1 + 4877 0.69 0.469992
Target:  5'- uGCCAGCGCUUGC-------ACCCGCUg -3'
miRNA:   3'- -CGGUCGUGGACGcauaugcUGGGCGG- -5'
12129 3' -56.2 NC_003309.1 + 5235 0.7 0.430984
Target:  5'- cGCCAGCACCcgGCGaaaggGUguuaagcgacaucGCGACUucuuCGCCg -3'
miRNA:   3'- -CGGUCGUGGa-CGCa----UA-------------UGCUGG----GCGG- -5'
12129 3' -56.2 NC_003309.1 + 5397 0.71 0.359867
Target:  5'- uGUCAGCACCgaUGUAgccgACGAUCgCGCCa -3'
miRNA:   3'- -CGGUCGUGGacGCAUa---UGCUGG-GCGG- -5'
12129 3' -56.2 NC_003309.1 + 6556 0.68 0.564623
Target:  5'- uCCAcguagcGCGCCuUGCGUAUcGCGGCgCCaGCCu -3'
miRNA:   3'- cGGU------CGUGG-ACGCAUA-UGCUG-GG-CGG- -5'
12129 3' -56.2 NC_003309.1 + 7761 0.72 0.311587
Target:  5'- cGCCGGCGCCUuCGccgGUGCGACgCCGa- -3'
miRNA:   3'- -CGGUCGUGGAcGCa--UAUGCUG-GGCgg -5'
12129 3' -56.2 NC_003309.1 + 8831 0.69 0.490159
Target:  5'- aGCCGcGCauucGCUUGCGUGUGCGcgucgucGCUCGCa -3'
miRNA:   3'- -CGGU-CG----UGGACGCAUAUGC-------UGGGCGg -5'
12129 3' -56.2 NC_003309.1 + 9470 0.7 0.431936
Target:  5'- cGCC-GCAUC-GC-UGUGCG-CCCGCCg -3'
miRNA:   3'- -CGGuCGUGGaCGcAUAUGCuGGGCGG- -5'
12129 3' -56.2 NC_003309.1 + 10085 0.66 0.694855
Target:  5'- cGUCuGCAUUUucucgaacaGCGUAUcCGugCCGCCc -3'
miRNA:   3'- -CGGuCGUGGA---------CGCAUAuGCugGGCGG- -5'
12129 3' -56.2 NC_003309.1 + 10301 0.66 0.641716
Target:  5'- uGUCGcCGCCUGCGUcgccgcgacugcggAUugcccaaaguacacgGCGAUCCGCCc -3'
miRNA:   3'- -CGGUcGUGGACGCA--------------UA---------------UGCUGGGCGG- -5'
12129 3' -56.2 NC_003309.1 + 10866 0.7 0.422471
Target:  5'- cGCuCGcGCGCCUGCGUGgcaagcGCGACaucaCGCUc -3'
miRNA:   3'- -CG-GU-CGUGGACGCAUa-----UGCUGg---GCGG- -5'
12129 3' -56.2 NC_003309.1 + 12630 0.68 0.543266
Target:  5'- aGCC-GCGCUcGCGc--GCGACCUGCUc -3'
miRNA:   3'- -CGGuCGUGGaCGCauaUGCUGGGCGG- -5'
12129 3' -56.2 NC_003309.1 + 12667 0.77 0.154344
Target:  5'- cGCCAGUcgGCCUGCa-AUGCGAgCCGCUg -3'
miRNA:   3'- -CGGUCG--UGGACGcaUAUGCUgGGCGG- -5'
12129 3' -56.2 NC_003309.1 + 14529 0.67 0.629716
Target:  5'- uCCuGCGCCUGCGUGaACGucuucuucguCCCGaCg -3'
miRNA:   3'- cGGuCGUGGACGCAUaUGCu---------GGGCgG- -5'
12129 3' -56.2 NC_003309.1 + 16036 0.66 0.640626
Target:  5'- cGCCAGCAUCUuccgcggcgGCGUAgucaucggaUGCGAgcgcgaauuggUCCGUCg -3'
miRNA:   3'- -CGGUCGUGGA---------CGCAU---------AUGCU-----------GGGCGG- -5'
12129 3' -56.2 NC_003309.1 + 16383 0.68 0.529527
Target:  5'- aCCGGCGuCCUGauaGUGguugagguagagguuCGAUCCGCCg -3'
miRNA:   3'- cGGUCGU-GGACg--CAUau-------------GCUGGGCGG- -5'
12129 3' -56.2 NC_003309.1 + 17681 1.14 0.000362
Target:  5'- gGCCAGCACCUGCGUAUACGACCCGCCg -3'
miRNA:   3'- -CGGUCGUGGACGCAUAUGCUGGGCGG- -5'
12129 3' -56.2 NC_003309.1 + 18544 0.75 0.230154
Target:  5'- cGCCuGCGCCUGCGacGUGCaGCCgaaCGCCg -3'
miRNA:   3'- -CGGuCGUGGACGCa-UAUGcUGG---GCGG- -5'
12129 3' -56.2 NC_003309.1 + 18713 0.77 0.167433
Target:  5'- cGCCGGCugCgGCGcggAUACGG-CCGCCg -3'
miRNA:   3'- -CGGUCGugGaCGCa--UAUGCUgGGCGG- -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.