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 + 20636 0.67 0.630058
Target:  5'- gGCCUACCAACA-CAACAaCU-CGGGc -3'
miRNA:   3'- aCGGGUGGUUGUgGUUGUgGAuGCUC- -5'
11893 3' -53.7 NC_003266.2 + 18506 0.68 0.516565
Target:  5'- gUGCUgGaCAugGCCAGCACCUACu-- -3'
miRNA:   3'- -ACGGgUgGUugUGGUUGUGGAUGcuc -5'
11893 3' -53.7 NC_003266.2 + 16249 0.68 0.516565
Target:  5'- cGUCCGgugcugagacCCGGCACCAcggugguuuucGCGCCUgGCGAGc -3'
miRNA:   3'- aCGGGU----------GGUUGUGGU-----------UGUGGA-UGCUC- -5'
11893 3' -53.7 NC_003266.2 + 25053 0.68 0.527625
Target:  5'- cUGgCCugCAACccCCAGCugCUgaGCGAGa -3'
miRNA:   3'- -ACgGGugGUUGu-GGUUGugGA--UGCUC- -5'
11893 3' -53.7 NC_003266.2 + 15482 0.68 0.527625
Target:  5'- cGCUCGCCAACGCuccacgCAACACCccgUGCGc- -3'
miRNA:   3'- aCGGGUGGUUGUG------GUUGUGG---AUGCuc -5'
11893 3' -53.7 NC_003266.2 + 30452 0.68 0.538771
Target:  5'- cGCCUACCuGCGCCAcCACCcccaguaccGCGAc -3'
miRNA:   3'- aCGGGUGGuUGUGGUuGUGGa--------UGCUc -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 + 17879 0.67 0.572654
Target:  5'- cUGCCCACCAcgcgucccauuGCGCCucUAgCUACcGGGg -3'
miRNA:   3'- -ACGGGUGGU-----------UGUGGuuGUgGAUG-CUC- -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 + 20677 0.69 0.483978
Target:  5'- cGCCCACUAuGCGCCAGgGCCaGCc-- -3'
miRNA:   3'- aCGGGUGGU-UGUGGUUgUGGaUGcuc -5'
11893 3' -53.7 NC_003266.2 + 20371 0.69 0.46281
Target:  5'- gGCCCGgCAACgACCGGCuCCUgacgcccaACGAGu -3'
miRNA:   3'- aCGGGUgGUUG-UGGUUGuGGA--------UGCUC- -5'
11893 3' -53.7 NC_003266.2 + 19897 0.7 0.442139
Target:  5'- cUGCuCCugcCCGGguCCuACACCUACGAGu -3'
miRNA:   3'- -ACG-GGu--GGUUguGGuUGUGGAUGCUC- -5'
11893 3' -53.7 NC_003266.2 + 23738 0.82 0.073266
Target:  5'- gUGCCCcCCaAGCGCCAgcccaacgGCACCUGCGAGc -3'
miRNA:   3'- -ACGGGuGG-UUGUGGU--------UGUGGAUGCUC- -5'
11893 3' -53.7 NC_003266.2 + 12627 0.73 0.275114
Target:  5'- aGCCUGCUGACGCCGaacucGCGCCUGCu-- -3'
miRNA:   3'- aCGGGUGGUUGUGGU-----UGUGGAUGcuc -5'
11893 3' -53.7 NC_003266.2 + 23678 0.72 0.346404
Target:  5'- gUGCCCcUCAGCguggaggagcucaGCC-GCGCCUACGAGc -3'
miRNA:   3'- -ACGGGuGGUUG-------------UGGuUGUGGAUGCUC- -5'
11893 3' -53.7 NC_003266.2 + 12400 0.71 0.356082
Target:  5'- aGCCCGCCAACGugccCCGGgGCC-AgGAGg -3'
miRNA:   3'- aCGGGUGGUUGU----GGUUgUGGaUgCUC- -5'
11893 3' -53.7 NC_003266.2 + 16742 0.71 0.380634
Target:  5'- aGCCCaucACCAGCACCAugGaggugcagacggauCCUugGAu -3'
miRNA:   3'- aCGGG---UGGUUGUGGUugU--------------GGAugCUc -5'
11893 3' -53.7 NC_003266.2 + 15725 0.7 0.402422
Target:  5'- cGCCCGgCGGCACCGuaGCACCaccgccaugcgUGCGGc -3'
miRNA:   3'- aCGGGUgGUUGUGGU--UGUGG-----------AUGCUc -5'
11893 3' -53.7 NC_003266.2 + 18318 0.7 0.412139
Target:  5'- aGUUCGCCcGCGCCAcagACACCUACu-- -3'
miRNA:   3'- aCGGGUGGuUGUGGU---UGUGGAUGcuc -5'
11893 3' -53.7 NC_003266.2 + 3761 0.7 0.432001
Target:  5'- gGCCCagcucgagGCCuuGAC-CCAGCGCCUggGCGAGc -3'
miRNA:   3'- aCGGG--------UGG--UUGuGGUUGUGGA--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.