miRNA display CGI


Results 1 - 14 of 14 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
18652 3' -55.3 NC_004682.1 + 23887 0.66 0.727723
Target:  5'- uGCCcaGGCCGCuGGUCAucuGGGUCcaccAGUCc -3'
miRNA:   3'- -CGGcaCCGGUG-CUAGU---UCCAGc---UCAG- -5'
18652 3' -55.3 NC_004682.1 + 13548 0.66 0.727723
Target:  5'- cGCCuUGGCCGggaugcCGGUCuuggauGGG-CGGGUCu -3'
miRNA:   3'- -CGGcACCGGU------GCUAGu-----UCCaGCUCAG- -5'
18652 3' -55.3 NC_004682.1 + 44738 0.66 0.706317
Target:  5'- cGCCgGUGGCCACGuacUCcccguGGUCacgaAGUCu -3'
miRNA:   3'- -CGG-CACCGGUGCu--AGuu---CCAGc---UCAG- -5'
18652 3' -55.3 NC_004682.1 + 30613 0.66 0.6955
Target:  5'- cGCCGUccuugaacGCCugGAUCAucGUCcGGUCg -3'
miRNA:   3'- -CGGCAc-------CGGugCUAGUucCAGcUCAG- -5'
18652 3' -55.3 NC_004682.1 + 46189 0.67 0.64071
Target:  5'- uGCCGacgcGGCCACGAagu-GGaUCGAGUa -3'
miRNA:   3'- -CGGCa---CCGGUGCUaguuCC-AGCUCAg -5'
18652 3' -55.3 NC_004682.1 + 27126 0.67 0.629687
Target:  5'- aCCGUGGCCGaGAcaUCGAGGUCu---- -3'
miRNA:   3'- cGGCACCGGUgCU--AGUUCCAGcucag -5'
18652 3' -55.3 NC_004682.1 + 44358 0.67 0.629687
Target:  5'- -aCGUGGCCgaccucuugcaGCGGUCAcGGGUUGGGc- -3'
miRNA:   3'- cgGCACCGG-----------UGCUAGU-UCCAGCUCag -5'
18652 3' -55.3 NC_004682.1 + 32039 0.67 0.618665
Target:  5'- gGCCGUcGCCuucaugGCGAgcugggacUCGcuGGUCGAGUCg -3'
miRNA:   3'- -CGGCAcCGG------UGCU--------AGUu-CCAGCUCAG- -5'
18652 3' -55.3 NC_004682.1 + 33757 0.68 0.562835
Target:  5'- -aCGUGGUCgcucccaGCGAgggCAAGGUCGuGUUg -3'
miRNA:   3'- cgGCACCGG-------UGCUa--GUUCCAGCuCAG- -5'
18652 3' -55.3 NC_004682.1 + 27235 0.68 0.553103
Target:  5'- cGCCGagcagGGCCacACGGUC---GUCGGGUCg -3'
miRNA:   3'- -CGGCa----CCGG--UGCUAGuucCAGCUCAG- -5'
18652 3' -55.3 NC_004682.1 + 26615 0.69 0.542349
Target:  5'- cCCGUGGaccgucaaCACGGUCA---UCGAGUCg -3'
miRNA:   3'- cGGCACCg-------GUGCUAGUuccAGCUCAG- -5'
18652 3' -55.3 NC_004682.1 + 12042 0.71 0.392651
Target:  5'- aCC-UGGCCgagACGAcCAAGGUCGuGUCg -3'
miRNA:   3'- cGGcACCGG---UGCUaGUUCCAGCuCAG- -5'
18652 3' -55.3 NC_004682.1 + 17758 0.71 0.383644
Target:  5'- cGCCGUGGUCAgcgucgugcCGAUCAuGGUCGcuacgggcGUCa -3'
miRNA:   3'- -CGGCACCGGU---------GCUAGUuCCAGCu-------CAG- -5'
18652 3' -55.3 NC_004682.1 + 1550 1.12 0.000588
Target:  5'- gGCCGUGGCCACGAUCAAGGUCGAGUCg -3'
miRNA:   3'- -CGGCACCGGUGCUAGUUCCAGCUCAG- -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.