miRNA display CGI


Results 1 - 20 of 26 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
7208 3' -55.1 NC_001900.1 + 20902 0.66 0.665184
Target:  5'- uCUGGCU--GGGGCAcCGAGACcGCCu- -3'
miRNA:   3'- -GACCGGuuCCUCGU-GUUCUGcUGGuu -5'
7208 3' -55.1 NC_001900.1 + 24633 0.66 0.665184
Target:  5'- -gGGCCAAGGcGGCuucgGCGGuuccuggguGACGGCCAc -3'
miRNA:   3'- gaCCGGUUCC-UCG----UGUU---------CUGCUGGUu -5'
7208 3' -55.1 NC_001900.1 + 22006 0.66 0.664056
Target:  5'- aCUGGCUccGGGAGCugGcugaugaGGACGGCa-- -3'
miRNA:   3'- -GACCGGu-UCCUCGugU-------UCUGCUGguu -5'
7208 3' -55.1 NC_001900.1 + 23586 0.66 0.662928
Target:  5'- -gGGCCGuGGGAGCcacgcugGCGGcucaggccggugcGACGACCAAg -3'
miRNA:   3'- gaCCGGU-UCCUCG-------UGUU-------------CUGCUGGUU- -5'
7208 3' -55.1 NC_001900.1 + 7899 0.66 0.653892
Target:  5'- -cGaCCGucuGGAcGCACAAGGCGAUCGAc -3'
miRNA:   3'- gaCcGGUu--CCU-CGUGUUCUGCUGGUU- -5'
7208 3' -55.1 NC_001900.1 + 1446 0.66 0.642579
Target:  5'- -gGGCCGuGGGAGCAguuggAGGACGACg-- -3'
miRNA:   3'- gaCCGGU-UCCUCGUg----UUCUGCUGguu -5'
7208 3' -55.1 NC_001900.1 + 9937 0.66 0.631255
Target:  5'- -cGGCCGuccaggucaucgGGGAGCGCAuaGCG-CCGAu -3'
miRNA:   3'- gaCCGGU------------UCCUCGUGUucUGCuGGUU- -5'
7208 3' -55.1 NC_001900.1 + 34773 0.66 0.630123
Target:  5'- uCUGGCCAGGuugguucGAGCACGGcggguGACG-CCGu -3'
miRNA:   3'- -GACCGGUUC-------CUCGUGUU-----CUGCuGGUu -5'
7208 3' -55.1 NC_001900.1 + 31197 0.66 0.623328
Target:  5'- uCUGGCCGAacgcuuccccgaucuGGGGCagguacgggccgaGCGAGGUGACCAGc -3'
miRNA:   3'- -GACCGGUU---------------CCUCG-------------UGUUCUGCUGGUU- -5'
7208 3' -55.1 NC_001900.1 + 7664 0.66 0.619932
Target:  5'- -gGGUUggGG-GCGCAGGGCGucACCGu -3'
miRNA:   3'- gaCCGGuuCCuCGUGUUCUGC--UGGUu -5'
7208 3' -55.1 NC_001900.1 + 39533 0.66 0.608621
Target:  5'- -aGGUCGAucuGGGGguCAGGGCGGCUGAu -3'
miRNA:   3'- gaCCGGUU---CCUCguGUUCUGCUGGUU- -5'
7208 3' -55.1 NC_001900.1 + 33679 0.66 0.605231
Target:  5'- gUGGCCAAGGcGCAUGucgccgucuucgaucACGACCAGg -3'
miRNA:   3'- gACCGGUUCCuCGUGUuc-------------UGCUGGUU- -5'
7208 3' -55.1 NC_001900.1 + 6404 0.67 0.597331
Target:  5'- -aGGUCAccAGGGGCGuCGAGcaggugcucGCGGCCAAg -3'
miRNA:   3'- gaCCGGU--UCCUCGU-GUUC---------UGCUGGUU- -5'
7208 3' -55.1 NC_001900.1 + 23393 0.67 0.574855
Target:  5'- -cGGCCAucaGGC-CGAGugGACCGAc -3'
miRNA:   3'- gaCCGGUuccUCGuGUUCugCUGGUU- -5'
7208 3' -55.1 NC_001900.1 + 18650 0.67 0.563687
Target:  5'- ---cCCAAGGAGgACAAGGcCGGCCGu -3'
miRNA:   3'- gaccGGUUCCUCgUGUUCU-GCUGGUu -5'
7208 3' -55.1 NC_001900.1 + 1016 0.68 0.542636
Target:  5'- -aGGUCAAGGAGUACccgaccuacugggacAGACGACgAAa -3'
miRNA:   3'- gaCCGGUUCCUCGUGu--------------UCUGCUGgUU- -5'
7208 3' -55.1 NC_001900.1 + 8478 0.68 0.534945
Target:  5'- -cGGCCGAGGAcuccuggcugucaccGCAgGAGugGaACCGc -3'
miRNA:   3'- gaCCGGUUCCU---------------CGUgUUCugC-UGGUu -5'
7208 3' -55.1 NC_001900.1 + 4039 0.68 0.498182
Target:  5'- cCUGucGCCGAGGAGauuCugAAGGcCGACCAGg -3'
miRNA:   3'- -GAC--CGGUUCCUC---GugUUCU-GCUGGUU- -5'
7208 3' -55.1 NC_001900.1 + 33340 0.69 0.466711
Target:  5'- gCUGGgCAGGGGGauccCAGGGCGACuCAGu -3'
miRNA:   3'- -GACCgGUUCCUCgu--GUUCUGCUG-GUU- -5'
7208 3' -55.1 NC_001900.1 + 24041 0.69 0.436298
Target:  5'- cCUGGCCAcGG-GCAcCGGGAccacCGGCCAAa -3'
miRNA:   3'- -GACCGGUuCCuCGU-GUUCU----GCUGGUU- -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.