miRNA display CGI


Results 1 - 13 of 13 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
12423 3' -58.5 NC_003324.1 + 54298 0.66 0.540262
Target:  5'- gGCCUGCGucuGCGccgucuGC-ACGUCCGUGg -3'
miRNA:   3'- aCGGACGCu--CGCcc----UGuUGCAGGCAU- -5'
12423 3' -58.5 NC_003324.1 + 21760 0.66 0.519386
Target:  5'- gGCuCUGCaGGGCGaGGAacuCGUCCGg- -3'
miRNA:   3'- aCG-GACG-CUCGC-CCUguuGCAGGCau -5'
12423 3' -58.5 NC_003324.1 + 30593 0.67 0.498836
Target:  5'- uUGCC-GCGAGCGaGGAUGcCGcCCGg- -3'
miRNA:   3'- -ACGGaCGCUCGC-CCUGUuGCaGGCau -5'
12423 3' -58.5 NC_003324.1 + 46321 0.67 0.449165
Target:  5'- aGCUcGCGAGCGcGGugGGCucugCCGUGu -3'
miRNA:   3'- aCGGaCGCUCGC-CCugUUGca--GGCAU- -5'
12423 3' -58.5 NC_003324.1 + 49793 0.68 0.43007
Target:  5'- cGCCUGCagggcAGCGGGAUAA-GUgCCGUc -3'
miRNA:   3'- aCGGACGc----UCGCCCUGUUgCA-GGCAu -5'
12423 3' -58.5 NC_003324.1 + 18955 0.68 0.411462
Target:  5'- aGCCgUGCGugaucuGCGGGACGACuUCCc-- -3'
miRNA:   3'- aCGG-ACGCu-----CGCCCUGUUGcAGGcau -5'
12423 3' -58.5 NC_003324.1 + 7844 0.69 0.384505
Target:  5'- gGCUUGCGcagaauGGCGGGGCGGCaGUgaCCGUu -3'
miRNA:   3'- aCGGACGC------UCGCCCUGUUG-CA--GGCAu -5'
12423 3' -58.5 NC_003324.1 + 25260 0.69 0.375783
Target:  5'- aUGCCUgGUGAGCuGcGcGACGGCGcCCGUAu -3'
miRNA:   3'- -ACGGA-CGCUCG-C-C-CUGUUGCaGGCAU- -5'
12423 3' -58.5 NC_003324.1 + 2839 0.69 0.367196
Target:  5'- cGCCggGCGAGgGGGAgcguCAACGgCCGa- -3'
miRNA:   3'- aCGGa-CGCUCgCCCU----GUUGCaGGCau -5'
12423 3' -58.5 NC_003324.1 + 28858 0.69 0.350431
Target:  5'- cGCUUGCGAGCcGGAgcagugagcuCAACGUCCc-- -3'
miRNA:   3'- aCGGACGCUCGcCCU----------GUUGCAGGcau -5'
12423 3' -58.5 NC_003324.1 + 29961 0.7 0.303458
Target:  5'- cGuCCUGCGuAGCGGcGGCAGCcggGUCCGc- -3'
miRNA:   3'- aC-GGACGC-UCGCC-CUGUUG---CAGGCau -5'
12423 3' -58.5 NC_003324.1 + 35470 0.73 0.196921
Target:  5'- aUGUCgGCGAGCgugGGGACGGCGaucgCCGUAc -3'
miRNA:   3'- -ACGGaCGCUCG---CCCUGUUGCa---GGCAU- -5'
12423 3' -58.5 NC_003324.1 + 8261 1.07 0.000686
Target:  5'- uUGCCUGCGAGCGGGACAACGUCCGUAg -3'
miRNA:   3'- -ACGGACGCUCGCCCUGUUGCAGGCAU- -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.