miRNA display CGI


Results 1 - 20 of 52 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
32090 3' -60.9 NC_007016.1 + 130519 0.66 0.71122
Target:  5'- gUCGCGccccggGGCcggCCCCGccGAGGcgcCCCGGGCc -3'
miRNA:   3'- -AGUGCua----UCG---GGGGC--CUCU---GGGCCCG- -5'
32090 3' -60.9 NC_007016.1 + 130195 0.66 0.710253
Target:  5'- gCGCGG-GGCggCCGGgggcggcggccgcGGGCCCGGGCc -3'
miRNA:   3'- aGUGCUaUCGggGGCC-------------UCUGGGCCCG- -5'
32090 3' -60.9 NC_007016.1 + 130282 0.66 0.701528
Target:  5'- -gGCGG-GGCCCggCGGAgcggGACCCGGGg -3'
miRNA:   3'- agUGCUaUCGGGg-GCCU----CUGGGCCCg -5'
32090 3' -60.9 NC_007016.1 + 130093 0.66 0.691782
Target:  5'- gCGCGggAGaCCCUCGc---CCCGGGCg -3'
miRNA:   3'- aGUGCuaUC-GGGGGCcucuGGGCCCG- -5'
32090 3' -60.9 NC_007016.1 + 16007 0.66 0.691782
Target:  5'- gCACGAUAGaauCCCCUacguguucguGGAcgcGCCCGGGg -3'
miRNA:   3'- aGUGCUAUC---GGGGG----------CCUc--UGGGCCCg -5'
32090 3' -60.9 NC_007016.1 + 20196 0.66 0.681989
Target:  5'- gUCACGGgccuGaCCCCgGGAGAcuuuguacacacCCUGGGg -3'
miRNA:   3'- -AGUGCUau--C-GGGGgCCUCU------------GGGCCCg -5'
32090 3' -60.9 NC_007016.1 + 66669 0.66 0.681989
Target:  5'- gUACu---GCCCCUGGuGGAUgCGGGCu -3'
miRNA:   3'- aGUGcuauCGGGGGCC-UCUGgGCCCG- -5'
32090 3' -60.9 NC_007016.1 + 659 0.66 0.672158
Target:  5'- aCACGGgacccgAGCCCUCcccaGGACCgcCGGGCa -3'
miRNA:   3'- aGUGCUa-----UCGGGGGcc--UCUGG--GCCCG- -5'
32090 3' -60.9 NC_007016.1 + 19378 0.66 0.672158
Target:  5'- -gACGAc-GCgCCCGGAaACgCGGGCg -3'
miRNA:   3'- agUGCUauCGgGGGCCUcUGgGCCCG- -5'
32090 3' -60.9 NC_007016.1 + 131044 0.66 0.672158
Target:  5'- aCACGGgacccgAGCCCUCcccaGGACCgcCGGGCa -3'
miRNA:   3'- aGUGCUa-----UCGGGGGcc--UCUGG--GCCCG- -5'
32090 3' -60.9 NC_007016.1 + 27384 0.66 0.661308
Target:  5'- cUCGCGAgu-CCCCCGcGAGccgugacGCCaGGGCc -3'
miRNA:   3'- -AGUGCUaucGGGGGC-CUC-------UGGgCCCG- -5'
32090 3' -60.9 NC_007016.1 + 22013 0.66 0.660321
Target:  5'- gCGCcaGGUGGCUggccacgCCUGGuuuccgucgaggcGGACCCGGGCc -3'
miRNA:   3'- aGUG--CUAUCGG-------GGGCC-------------UCUGGGCCCG- -5'
32090 3' -60.9 NC_007016.1 + 76857 0.66 0.652411
Target:  5'- aCACGcUGGCgUCUGcGGGACUCGaGGCu -3'
miRNA:   3'- aGUGCuAUCGgGGGC-CUCUGGGC-CCG- -5'
32090 3' -60.9 NC_007016.1 + 115975 0.66 0.652411
Target:  5'- -gGCGGUuuuuGCCgCCCGGGGucGCCggCGGGUc -3'
miRNA:   3'- agUGCUAu---CGG-GGGCCUC--UGG--GCCCG- -5'
32090 3' -60.9 NC_007016.1 + 130035 0.66 0.651421
Target:  5'- cCGCGGccgccGCCCCCGGccGCCCcgcgccgcgcgccGGGCc -3'
miRNA:   3'- aGUGCUau---CGGGGGCCucUGGG-------------CCCG- -5'
32090 3' -60.9 NC_007016.1 + 96104 0.67 0.646472
Target:  5'- uUCACGuacGCCCUCGGGGAuCCCaccgacaccgccaauGGGa -3'
miRNA:   3'- -AGUGCuauCGGGGGCCUCU-GGG---------------CCCg -5'
32090 3' -60.9 NC_007016.1 + 80976 0.67 0.632604
Target:  5'- cCACaAUcGCCCCCGGAGAUUCGa-- -3'
miRNA:   3'- aGUGcUAuCGGGGGCCUCUGGGCccg -5'
32090 3' -60.9 NC_007016.1 + 108084 0.67 0.622696
Target:  5'- aCGCGccaaGGCCgUCGGAGugCCccguaaGGGCa -3'
miRNA:   3'- aGUGCua--UCGGgGGCCUCugGG------CCCG- -5'
32090 3' -60.9 NC_007016.1 + 41645 0.67 0.620715
Target:  5'- aUCACGcaggacgcccGUCCCCGGGGACUguUGGGg -3'
miRNA:   3'- -AGUGCuau-------CGGGGGCCUCUGG--GCCCg -5'
32090 3' -60.9 NC_007016.1 + 117565 0.67 0.612795
Target:  5'- -gACGGggaaAGCCCgCCGGuGACC-GGGUu -3'
miRNA:   3'- agUGCUa---UCGGG-GGCCuCUGGgCCCG- -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.