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
12938 5' -56.2 NC_003387.1 + 48236 0.67 0.58737
Target:  5'- aUCGUGUCGCgcccGGUcGGCCGcggccagcaGCUcGGGCu -3'
miRNA:   3'- -AGCACAGCGa---UCGaCUGGC---------CGA-CUCG- -5'
12938 5' -56.2 NC_003387.1 + 50500 0.71 0.342637
Target:  5'- --cUGaCGCUGGCcgccUGACCGGC-GAGCa -3'
miRNA:   3'- agcACaGCGAUCG----ACUGGCCGaCUCG- -5'
12938 5' -56.2 NC_003387.1 + 23923 0.7 0.394596
Target:  5'- ---cGUCGUcgAGCUGcCCGGCUG-GCu -3'
miRNA:   3'- agcaCAGCGa-UCGACuGGCCGACuCG- -5'
12938 5' -56.2 NC_003387.1 + 26716 0.7 0.422418
Target:  5'- gUCGUG-CGCggcgcgAGCUGGaucgcgaccCCGGC-GAGCg -3'
miRNA:   3'- -AGCACaGCGa-----UCGACU---------GGCCGaCUCG- -5'
12938 5' -56.2 NC_003387.1 + 3644 0.69 0.471291
Target:  5'- aUCGccGUCGaCcGGCUcGugccCCGGCUGAGCg -3'
miRNA:   3'- -AGCa-CAGC-GaUCGA-Cu---GGCCGACUCG- -5'
12938 5' -56.2 NC_003387.1 + 8125 0.69 0.491631
Target:  5'- cUCGUacgCGCU-GCUGucCCGGCcGGGCa -3'
miRNA:   3'- -AGCAca-GCGAuCGACu-GGCCGaCUCG- -5'
12938 5' -56.2 NC_003387.1 + 13847 0.68 0.501952
Target:  5'- uUCGgcgCGuCUAGCUaacGGCCGGC-GAGCc -3'
miRNA:   3'- -AGCacaGC-GAUCGA---CUGGCCGaCUCG- -5'
12938 5' -56.2 NC_003387.1 + 26396 0.68 0.501952
Target:  5'- gUCGgcuacCGCaauGCUGAUCgGGCUGGGCa -3'
miRNA:   3'- -AGCaca--GCGau-CGACUGG-CCGACUCG- -5'
12938 5' -56.2 NC_003387.1 + 30986 0.67 0.580831
Target:  5'- cCGUGUCGC-AGUUGGggccgaggucaggauCgGGCcGAGCg -3'
miRNA:   3'- aGCACAGCGaUCGACU---------------GgCCGaCUCG- -5'
12938 5' -56.2 NC_003387.1 + 28365 0.72 0.303245
Target:  5'- gUCGUGUCGCagGGCgGGCgcaacucgUGGCUGAcGCa -3'
miRNA:   3'- -AGCACAGCGa-UCGaCUG--------GCCGACU-CG- -5'
12938 5' -56.2 NC_003387.1 + 21503 0.79 0.119287
Target:  5'- uUCGUGUCGCUgcacgAGCcGGCCGcugcGCUGAGUa -3'
miRNA:   3'- -AGCACAGCGA-----UCGaCUGGC----CGACUCG- -5'
12938 5' -56.2 NC_003387.1 + 27778 1.12 0.000423
Target:  5'- cUCGUGUCGCUAGCUGACCGGCUGAGCa -3'
miRNA:   3'- -AGCACAGCGAUCGACUGGCCGACUCG- -5'
12938 5' -56.2 NC_003387.1 + 5719 0.67 0.596109
Target:  5'- cCGcGUCGUc-GCUGACCGGCaagaccgaggacGAGCu -3'
miRNA:   3'- aGCaCAGCGauCGACUGGCCGa-----------CUCG- -5'
12938 5' -56.2 NC_003387.1 + 28952 0.66 0.653178
Target:  5'- -aGUGUCGUgUAGCUaaccGCCGGCaaaaacucGAGCg -3'
miRNA:   3'- agCACAGCG-AUCGAc---UGGCCGa-------CUCG- -5'
12938 5' -56.2 NC_003387.1 + 2041 0.67 0.609253
Target:  5'- cCGccGUCGCcgAGCUGGCCGcGgUG-GCg -3'
miRNA:   3'- aGCa-CAGCGa-UCGACUGGC-CgACuCG- -5'
12938 5' -56.2 NC_003387.1 + 2864 0.66 0.642201
Target:  5'- gUCGgugagGUCGCcccGCUGAuCCuGCUGcAGCa -3'
miRNA:   3'- -AGCa----CAGCGau-CGACU-GGcCGAC-UCG- -5'
12938 5' -56.2 NC_003387.1 + 27035 0.66 0.653178
Target:  5'- -gGUGuUCGCgaggcGGCgGAagcaugUCGGCUGAGCu -3'
miRNA:   3'- agCAC-AGCGa----UCGaCU------GGCCGACUCG- -5'
12938 5' -56.2 NC_003387.1 + 49177 0.66 0.653178
Target:  5'- gCG-GUCGCgcaGGCggcGGCCGucgacguuGCUGAGCc -3'
miRNA:   3'- aGCaCAGCGa--UCGa--CUGGC--------CGACUCG- -5'
12938 5' -56.2 NC_003387.1 + 8514 0.66 0.620228
Target:  5'- -aGUGUCcCUcgGGCcGACCGGCUcgcGGGUa -3'
miRNA:   3'- agCACAGcGA--UCGaCUGGCCGA---CUCG- -5'
12938 5' -56.2 NC_003387.1 + 24860 0.66 0.620228
Target:  5'- gCGUgGUgGCUGGCUcGACCucgggcgguGGCUGcGCc -3'
miRNA:   3'- aGCA-CAgCGAUCGA-CUGG---------CCGACuCG- -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.