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 + 2991 0.66 0.680648
Target:  5'- -uCCCACCGGCGCagguCAGCAUCUGguagccgcgcucgucCGAGg -3'
miRNA:   3'- acGGGUGGUUGUG----GUUGUGGAU---------------GCUC- -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'
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 + 5480 0.79 0.114641
Target:  5'- cGCCCACUgcGGCGCgGACGCCUACGc- -3'
miRNA:   3'- aCGGGUGG--UUGUGgUUGUGGAUGCuc -5'
11893 3' -53.7 NC_003266.2 + 7507 0.73 0.290047
Target:  5'- gGCUCAgCGACcCCGACgagcucACCUACGAGg -3'
miRNA:   3'- aCGGGUgGUUGuGGUUG------UGGAUGCUC- -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 + 8526 0.69 0.494735
Target:  5'- cUGCCCGCgcgCGGCGCCGACGugccCCUGCc-- -3'
miRNA:   3'- -ACGGGUG---GUUGUGGUUGU----GGAUGcuc -5'
11893 3' -53.7 NC_003266.2 + 9363 0.71 0.383431
Target:  5'- cGCCguCACCGAgACCAugcgACGCCggcgcgGCGAGa -3'
miRNA:   3'- aCGG--GUGGUUgUGGU----UGUGGa-----UGCUC- -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 + 11773 0.66 0.664608
Target:  5'- gGCCCugACCGGgGCCGGgACCgaggGgGAGa -3'
miRNA:   3'- aCGGG--UGGUUgUGGUUgUGGa---UgCUC- -5'
11893 3' -53.7 NC_003266.2 + 12036 0.69 0.505599
Target:  5'- gGCUCugCAGCGCCGccCGCaUUGCGGGa -3'
miRNA:   3'- aCGGGugGUUGUGGUu-GUG-GAUGCUC- -5'
11893 3' -53.7 NC_003266.2 + 12221 0.69 0.505599
Target:  5'- cGUUCACgAugGCCAGCACCUucucguGCGuGg -3'
miRNA:   3'- aCGGGUGgUugUGGUUGUGGA------UGCuC- -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 + 12400 0.71 0.356082
Target:  5'- aGCCCGCCAACGugccCCGGgGCC-AgGAGg -3'
miRNA:   3'- aCGGGUGGUUGU----GGUUgUGGaUgCUC- -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 + 12708 0.72 0.347276
Target:  5'- gGCgCCACCAGCAgCAGCAgCaggcGCGAGu -3'
miRNA:   3'- aCG-GGUGGUUGUgGUUGUgGa---UGCUC- -5'
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 + 14840 0.67 0.630058
Target:  5'- aGCCUugGCCGcCGCC-ACugCUGCGGc -3'
miRNA:   3'- aCGGG--UGGUuGUGGuUGugGAUGCUc -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 + 15725 0.7 0.402422
Target:  5'- cGCCCGgCGGCACCGuaGCACCaccgccaugcgUGCGGc -3'
miRNA:   3'- aCGGGUgGUUGUGGU--UGUGG-----------AUGCUc -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.