miRNA display CGI


Results 1 - 20 of 48 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
11893 3' -53.7 NC_003266.2 + 13909 0.66 0.687494
Target:  5'- cGUgCCACCGcggUACCuGGCGCCUACGGa -3'
miRNA:   3'- aCG-GGUGGUu--GUGG-UUGUGGAUGCUc -5'
11893 3' -53.7 NC_003266.2 + 21240 0.66 0.687494
Target:  5'- cGCCUggaACCcGCGCUcgAACACCUGCu-- -3'
miRNA:   3'- aCGGG---UGGuUGUGG--UUGUGGAUGcuc -5'
11893 3' -53.7 NC_003266.2 + 12257 0.66 0.687494
Target:  5'- gGCCCGCU-ACAaCAGCACCaACGuGc -3'
miRNA:   3'- aCGGGUGGuUGUgGUUGUGGaUGCuC- -5'
11893 3' -53.7 NC_003266.2 + 18601 0.66 0.687494
Target:  5'- gGCUC-CCAagggaGCGcCCAACACCUGCcAGu -3'
miRNA:   3'- aCGGGuGGU-----UGU-GGUUGUGGAUGcUC- -5'
11893 3' -53.7 NC_003266.2 + 17301 0.66 0.686355
Target:  5'- gGCCUcUCAGCGCCAcugagacACACaCUugGAa -3'
miRNA:   3'- aCGGGuGGUUGUGGU-------UGUG-GAugCUc -5'
11893 3' -53.7 NC_003266.2 + 10235 0.66 0.680648
Target:  5'- cG-CCGCCGGCAUCAccuggaugucaagguACAUCUACGGc -3'
miRNA:   3'- aCgGGUGGUUGUGGU---------------UGUGGAUGCUc -5'
11893 3' -53.7 NC_003266.2 + 2991 0.66 0.680648
Target:  5'- -uCCCACCGGCGCagguCAGCAUCUGguagccgcgcucgucCGAGg -3'
miRNA:   3'- acGGGUGGUUGUG----GUUGUGGAU---------------GCUC- -5'
11893 3' -53.7 NC_003266.2 + 11773 0.66 0.664608
Target:  5'- gGCCCugACCGGgGCCGGgACCgaggGgGAGa -3'
miRNA:   3'- aCGGG--UGGUUgUGGUUgUGGa---UgCUC- -5'
11893 3' -53.7 NC_003266.2 + 7850 0.66 0.641588
Target:  5'- gGCUCGCauccucGCACCGAaaggcucuuccuCACCUACGAu -3'
miRNA:   3'- aCGGGUGgu----UGUGGUU------------GUGGAUGCUc -5'
11893 3' -53.7 NC_003266.2 + 5181 0.66 0.641588
Target:  5'- gUGCgCGCCGGgcUgGGCGCUUGCGAGg -3'
miRNA:   3'- -ACGgGUGGUUguGgUUGUGGAUGCUC- -5'
11893 3' -53.7 NC_003266.2 + 22033 0.66 0.640435
Target:  5'- cGCUCGCCAGCACCGuaGCGucggugaucccguCCacguCGAGg -3'
miRNA:   3'- aCGGGUGGUUGUGGU--UGU-------------GGau--GCUC- -5'
11893 3' -53.7 NC_003266.2 + 14840 0.67 0.630058
Target:  5'- aGCCUugGCCGcCGCC-ACugCUGCGGc -3'
miRNA:   3'- aCGGG--UGGUuGUGGuUGugGAUGCUc -5'
11893 3' -53.7 NC_003266.2 + 17710 0.67 0.630058
Target:  5'- gGUCCACCAcccCGuuGAUGCCUgagGCGAGg -3'
miRNA:   3'- aCGGGUGGUu--GUggUUGUGGA---UGCUC- -5'
11893 3' -53.7 NC_003266.2 + 20636 0.67 0.630058
Target:  5'- gGCCUACCAACA-CAACAaCU-CGGGc -3'
miRNA:   3'- aCGGGUGGUUGUgGUUGUgGAuGCUC- -5'
11893 3' -53.7 NC_003266.2 + 24313 0.67 0.61853
Target:  5'- gGUCCcaGCCAccGCGCCAGCugCUcgucgcugaccACGGGc -3'
miRNA:   3'- aCGGG--UGGU--UGUGGUUGugGA-----------UGCUC- -5'
11893 3' -53.7 NC_003266.2 + 16560 0.67 0.607015
Target:  5'- aGCCCcgACgCGGCGCCGcgcucggcaGCACCUGCu-- -3'
miRNA:   3'- aCGGG--UG-GUUGUGGU---------UGUGGAUGcuc -5'
11893 3' -53.7 NC_003266.2 + 22232 0.67 0.584067
Target:  5'- aGCCU-CCAGCugCuuaAACGCCUGCuGGGc -3'
miRNA:   3'- aCGGGuGGUUGugG---UUGUGGAUG-CUC- -5'
11893 3' -53.7 NC_003266.2 + 17879 0.67 0.572654
Target:  5'- cUGCCCACCAcgcgucccauuGCGCCucUAgCUACcGGGg -3'
miRNA:   3'- -ACGGGUGGU-----------UGUGGuuGUgGAUG-CUC- -5'
11893 3' -53.7 NC_003266.2 + 29805 0.68 0.561295
Target:  5'- aGCCCACCGcCACCAcaACAgCa--GAGg -3'
miRNA:   3'- aCGGGUGGUuGUGGU--UGUgGaugCUC- -5'
11893 3' -53.7 NC_003266.2 + 30452 0.68 0.538771
Target:  5'- cGCCUACCuGCGCCAcCACCcccaguaccGCGAc -3'
miRNA:   3'- aCGGGUGGuUGUGGUuGUGGa--------UGCUc -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.