miRNA display CGI


Results 1 - 16 of 16 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
10228 3' -59.2 NC_002665.1 + 963 0.66 0.6879
Target:  5'- cCAugGGCUCCCUU--GCCCCAAUg- -3'
miRNA:   3'- uGUugUCGAGGGGGggUGGGGUUGuc -5'
10228 3' -59.2 NC_002665.1 + 5097 0.7 0.447812
Target:  5'- ---uCAGUUCCUCauaCCCACCCaCAGCAGa -3'
miRNA:   3'- uguuGUCGAGGGG---GGGUGGG-GUUGUC- -5'
10228 3' -59.2 NC_002665.1 + 15128 0.66 0.657141
Target:  5'- gACAGuuuGCUCUgagUCCCCGCCCCAaaACAu -3'
miRNA:   3'- -UGUUgu-CGAGG---GGGGGUGGGGU--UGUc -5'
10228 3' -59.2 NC_002665.1 + 17270 0.66 0.6879
Target:  5'- cACAACAGC-CaugaCUUCCACCCUggUGGa -3'
miRNA:   3'- -UGUUGUCGaGg---GGGGGUGGGGuuGUC- -5'
10228 3' -59.2 NC_002665.1 + 17700 0.71 0.40318
Target:  5'- uCAACAGCgCCCCCagaaaccauaCCcCCCCAGCAc -3'
miRNA:   3'- uGUUGUCGaGGGGG----------GGuGGGGUUGUc -5'
10228 3' -59.2 NC_002665.1 + 23919 0.67 0.636519
Target:  5'- ---cCAGC-CCCCCCaacCCCCAcCAGa -3'
miRNA:   3'- uguuGUCGaGGGGGGgu-GGGGUuGUC- -5'
10228 3' -59.2 NC_002665.1 + 25916 0.66 0.6879
Target:  5'- -gGACgcguGGC-CCCCCCCguACCCCAcACAc -3'
miRNA:   3'- ugUUG----UCGaGGGGGGG--UGGGGU-UGUc -5'
10228 3' -59.2 NC_002665.1 + 66088 0.67 0.635486
Target:  5'- uACAGCAGUUUCCucaacugaguCCCCaaacaccacuuuaACCUCAACAGc -3'
miRNA:   3'- -UGUUGUCGAGGG----------GGGG-------------UGGGGUUGUC- -5'
10228 3' -59.2 NC_002665.1 + 67274 0.7 0.411881
Target:  5'- -uGACAGaUUUCCCCCCACCCUAu--- -3'
miRNA:   3'- ugUUGUC-GAGGGGGGGUGGGGUuguc -5'
10228 3' -59.2 NC_002665.1 + 80397 1.07 0.001238
Target:  5'- cACAACAGCUCCCCCCCACCCCAACAGc -3'
miRNA:   3'- -UGUUGUCGAGGGGGGGUGGGGUUGUC- -5'
10228 3' -59.2 NC_002665.1 + 83745 0.7 0.438665
Target:  5'- -uGAUgaUUCCCUCCCACCCCAAUAu -3'
miRNA:   3'- ugUUGucGAGGGGGGGUGGGGUUGUc -5'
10228 3' -59.2 NC_002665.1 + 86451 0.68 0.554505
Target:  5'- aACAAaAGacaCCCCCUUACCCCAAcCAGa -3'
miRNA:   3'- -UGUUgUCga-GGGGGGGUGGGGUU-GUC- -5'
10228 3' -59.2 NC_002665.1 + 90131 0.7 0.411881
Target:  5'- --uACAGCcccaUCCCCCCCaaACCCCAAa-- -3'
miRNA:   3'- uguUGUCG----AGGGGGGG--UGGGGUUguc -5'
10228 3' -59.2 NC_002665.1 + 100212 0.69 0.514578
Target:  5'- aGCGAC--CUCCaaCCCCACCCCAGgAGu -3'
miRNA:   3'- -UGUUGucGAGGg-GGGGUGGGGUUgUC- -5'
10228 3' -59.2 NC_002665.1 + 105007 0.77 0.167055
Target:  5'- aGCAAUGGCagacCCCCCUCACCCCAugAa -3'
miRNA:   3'- -UGUUGUCGa---GGGGGGGUGGGGUugUc -5'
10228 3' -59.2 NC_002665.1 + 108713 0.73 0.280696
Target:  5'- cACAGCc-CUCgUCCCCCACCCCAcACAGu -3'
miRNA:   3'- -UGUUGucGAG-GGGGGGUGGGGU-UGUC- -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.