miRNA display CGI


Results 1 - 20 of 30 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
14290 5' -58.8 NC_003521.1 + 4390 1.06 0.003246
Target:  5'- cAGAAGCUCCAGGUGCAGACCCCGGUAg -3'
miRNA:   3'- -UCUUCGAGGUCCACGUCUGGGGCCAU- -5'
14290 5' -58.8 NC_003521.1 + 165863 0.76 0.315875
Target:  5'- aGGAAGCUCCAgcGGUGCAcGugCUCGGg- -3'
miRNA:   3'- -UCUUCGAGGU--CCACGU-CugGGGCCau -5'
14290 5' -58.8 NC_003521.1 + 141024 0.73 0.450997
Target:  5'- uGGAGGCcguacugcgCCAGGUGUAcACCCCGGg- -3'
miRNA:   3'- -UCUUCGa--------GGUCCACGUcUGGGGCCau -5'
14290 5' -58.8 NC_003521.1 + 75776 0.72 0.524599
Target:  5'- aGGccGcCUCCAGGUGCAGACgCCgCGGc- -3'
miRNA:   3'- -UCuuC-GAGGUCCACGUCUG-GG-GCCau -5'
14290 5' -58.8 NC_003521.1 + 210006 0.71 0.601329
Target:  5'- uGGAGUUCgCGGGUuucgccgGCGGGCCCuCGGUGc -3'
miRNA:   3'- uCUUCGAG-GUCCA-------CGUCUGGG-GCCAU- -5'
14290 5' -58.8 NC_003521.1 + 93650 0.7 0.665555
Target:  5'- uGGggGgUCCGGGUugccaaaauuccccuGUcccGGACCCCGGUc -3'
miRNA:   3'- -UCuuCgAGGUCCA---------------CG---UCUGGGGCCAu -5'
14290 5' -58.8 NC_003521.1 + 101810 0.69 0.68128
Target:  5'- cGAAGC-CCAGGgggcggucgcgGUAGGCCUCGGg- -3'
miRNA:   3'- uCUUCGaGGUCCa----------CGUCUGGGGCCau -5'
14290 5' -58.8 NC_003521.1 + 223139 0.69 0.68128
Target:  5'- cAGGAGCcaguuggCCGGGUuacGCAGggccaccgugguGCCCCGGUGc -3'
miRNA:   3'- -UCUUCGa------GGUCCA---CGUC------------UGGGGCCAU- -5'
14290 5' -58.8 NC_003521.1 + 224524 0.69 0.69106
Target:  5'- aAGAAGCcgCCGGGccgGUAGgcACCCCGGc- -3'
miRNA:   3'- -UCUUCGa-GGUCCa--CGUC--UGGGGCCau -5'
14290 5' -58.8 NC_003521.1 + 126405 0.68 0.784988
Target:  5'- cGAAGC-CCGGGUggauGUGGGCCuuGGUc -3'
miRNA:   3'- uCUUCGaGGUCCA----CGUCUGGggCCAu -5'
14290 5' -58.8 NC_003521.1 + 1601 0.68 0.784988
Target:  5'- ---uGC-CCacaAGGUcGCAGACCCUGGUAa -3'
miRNA:   3'- ucuuCGaGG---UCCA-CGUCUGGGGCCAU- -5'
14290 5' -58.8 NC_003521.1 + 113419 0.68 0.784988
Target:  5'- -uGAGUUUCuGGUGCAGuacuaccugacGCCCUGGUAc -3'
miRNA:   3'- ucUUCGAGGuCCACGUC-----------UGGGGCCAU- -5'
14290 5' -58.8 NC_003521.1 + 226987 0.67 0.793811
Target:  5'- cGGucGUcacauUCCAGGUGCuuuccgacGGCCCCGGa- -3'
miRNA:   3'- -UCuuCG-----AGGUCCACGu-------CUGGGGCCau -5'
14290 5' -58.8 NC_003521.1 + 195598 0.67 0.811039
Target:  5'- --cAGCUCCAGGUGCGcagccGGCCCgccagcUGGUc -3'
miRNA:   3'- ucuUCGAGGUCCACGU-----CUGGG------GCCAu -5'
14290 5' -58.8 NC_003521.1 + 183138 0.67 0.819429
Target:  5'- cGGucGCaUCCccGUGCAGACCCagaCGGUGu -3'
miRNA:   3'- -UCuuCG-AGGucCACGUCUGGG---GCCAU- -5'
14290 5' -58.8 NC_003521.1 + 174158 0.67 0.827661
Target:  5'- uGAcGCUCCAGGgccUGCAGGCCgCGc-- -3'
miRNA:   3'- uCUuCGAGGUCC---ACGUCUGGgGCcau -5'
14290 5' -58.8 NC_003521.1 + 196078 0.67 0.827661
Target:  5'- uGGAcuGGCgCgAGaGcUGCAGACCCCGGa- -3'
miRNA:   3'- -UCU--UCGaGgUC-C-ACGUCUGGGGCCau -5'
14290 5' -58.8 NC_003521.1 + 64335 0.67 0.827661
Target:  5'- -cGAGCagaugagCCAGcUGCAGGCCCUGGg- -3'
miRNA:   3'- ucUUCGa------GGUCcACGUCUGGGGCCau -5'
14290 5' -58.8 NC_003521.1 + 141294 0.67 0.827661
Target:  5'- cGAcAGgUgCAGGUGCGGgcggcGCCCCGGa- -3'
miRNA:   3'- uCU-UCgAgGUCCACGUC-----UGGGGCCau -5'
14290 5' -58.8 NC_003521.1 + 195627 0.67 0.827661
Target:  5'- uAGAuGCgUCgCAGGuUGUAGAUCUCGGUGg -3'
miRNA:   3'- -UCUuCG-AG-GUCC-ACGUCUGGGGCCAU- -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.