miRNA display CGI


Results 1 - 15 of 15 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
11953 3' -55.4 NC_003278.1 + 4295 0.66 0.592031
Target:  5'- aCUGaGGGGCGAGGGuGggCGGCAg--- -3'
miRNA:   3'- -GACgUCCCGCUCUU-CuaGCCGUagcc -5'
11953 3' -55.4 NC_003278.1 + 19046 0.66 0.569638
Target:  5'- -cGCAG-GCaAGGAGGUCGGC--CGGg -3'
miRNA:   3'- gaCGUCcCGcUCUUCUAGCCGuaGCC- -5'
11953 3' -55.4 NC_003278.1 + 3269 0.66 0.562958
Target:  5'- gCUGCAGGGCGucauGAcuuAcgucgaucuugaugcGAUCGGCGgcCGGc -3'
miRNA:   3'- -GACGUCCCGCu---CU---U---------------CUAGCCGUa-GCC- -5'
11953 3' -55.4 NC_003278.1 + 12862 0.67 0.536469
Target:  5'- aCUcCAGGGCGAGgcGggCGGCGa--- -3'
miRNA:   3'- -GAcGUCCCGCUCuuCuaGCCGUagcc -5'
11953 3' -55.4 NC_003278.1 + 11980 0.67 0.525559
Target:  5'- cCUGCucguucAGGGUGGGGGcguuccauucgcGGUCGGCGcCGGc -3'
miRNA:   3'- -GACG------UCCCGCUCUU------------CUAGCCGUaGCC- -5'
11953 3' -55.4 NC_003278.1 + 29510 0.67 0.522302
Target:  5'- gCUGCAGGGUcuucaggcgcaGcuucuggaacucgaAGAAGucuUCGGCGUUGGc -3'
miRNA:   3'- -GACGUCCCG-----------C--------------UCUUCu--AGCCGUAGCC- -5'
11953 3' -55.4 NC_003278.1 + 18815 0.68 0.481783
Target:  5'- uCUGCAGGucaGCGGGAGucuguucGGUUuucaugGGCGUCGGu -3'
miRNA:   3'- -GACGUCC---CGCUCUU-------CUAG------CCGUAGCC- -5'
11953 3' -55.4 NC_003278.1 + 21628 0.69 0.422108
Target:  5'- -cGCAGGGCGGGAGccUCGGgaaacucccCGUCGa -3'
miRNA:   3'- gaCGUCCCGCUCUUcuAGCC---------GUAGCc -5'
11953 3' -55.4 NC_003278.1 + 22404 0.69 0.402908
Target:  5'- -cGC-GGGCGAGGg---CGGCAUCGa -3'
miRNA:   3'- gaCGuCCCGCUCUucuaGCCGUAGCc -5'
11953 3' -55.4 NC_003278.1 + 12081 0.7 0.375169
Target:  5'- aUGCAGGGCGucgcGGUCGcCGUUGGg -3'
miRNA:   3'- gACGUCCCGCucuuCUAGCcGUAGCC- -5'
11953 3' -55.4 NC_003278.1 + 33177 0.7 0.357407
Target:  5'- -aGCGacuGGcGCGAGcGGAUCGGCAaugCGGu -3'
miRNA:   3'- gaCGU---CC-CGCUCuUCUAGCCGUa--GCC- -5'
11953 3' -55.4 NC_003278.1 + 13315 0.71 0.299988
Target:  5'- -cGaCGGGGCGAc--GGUCGGCGUCGu -3'
miRNA:   3'- gaC-GUCCCGCUcuuCUAGCCGUAGCc -5'
11953 3' -55.4 NC_003278.1 + 5892 0.73 0.243408
Target:  5'- --cCAGGGCGucGAGGuucuuguaGUCGGCGUCGGc -3'
miRNA:   3'- gacGUCCCGCu-CUUC--------UAGCCGUAGCC- -5'
11953 3' -55.4 NC_003278.1 + 31948 0.79 0.093466
Target:  5'- uUGCAGGGCGAGcuGAUgaacaCGGCAUCcGGu -3'
miRNA:   3'- gACGUCCCGCUCuuCUA-----GCCGUAG-CC- -5'
11953 3' -55.4 NC_003278.1 + 5416 1.1 0.000529
Target:  5'- gCUGCAGGGCGAGAAGAUCGGCAUCGGc -3'
miRNA:   3'- -GACGUCCCGCUCUUCUAGCCGUAGCC- -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.