miRNA display CGI


Results 1 - 20 of 37 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
23866 5' -53.2 NC_005262.1 + 60937 1.13 0.00119
Target:  5'- cGGCAAUUUCGGCCAAGCUCGUGCGGGc -3'
miRNA:   3'- -CCGUUAAAGCCGGUUCGAGCACGCCC- -5'
23866 5' -53.2 NC_005262.1 + 35531 0.77 0.300884
Target:  5'- uGGCAGggcUUCGGCCAAgccgcgaugucGCUCGccggcGCGGGa -3'
miRNA:   3'- -CCGUUa--AAGCCGGUU-----------CGAGCa----CGCCC- -5'
23866 5' -53.2 NC_005262.1 + 33924 0.76 0.331935
Target:  5'- cGGCGGU----GCCGAGCUCGcgGCGGGc -3'
miRNA:   3'- -CCGUUAaagcCGGUUCGAGCa-CGCCC- -5'
23866 5' -53.2 NC_005262.1 + 45421 0.75 0.373966
Target:  5'- cGCAAaacUCGGCCGGGCUUauggGCGGGc -3'
miRNA:   3'- cCGUUaa-AGCCGGUUCGAGca--CGCCC- -5'
23866 5' -53.2 NC_005262.1 + 26537 0.74 0.438576
Target:  5'- uGGC----UCGGCCGuuGUUCGUGCGGu -3'
miRNA:   3'- -CCGuuaaAGCCGGUu-CGAGCACGCCc -5'
23866 5' -53.2 NC_005262.1 + 32844 0.73 0.488433
Target:  5'- cGGCGacaagGUUUCGGCCc-GCaCGUGCGGc -3'
miRNA:   3'- -CCGU-----UAAAGCCGGuuCGaGCACGCCc -5'
23866 5' -53.2 NC_005262.1 + 24899 0.72 0.54507
Target:  5'- aGGCGAgcUCGGCCAgccggaggacgccgaGGCaUG-GCGGGa -3'
miRNA:   3'- -CCGUUaaAGCCGGU---------------UCGaGCaCGCCC- -5'
23866 5' -53.2 NC_005262.1 + 14028 0.71 0.562278
Target:  5'- cGGCAg---CGGCCgGAGcCUCGggcGCGGGc -3'
miRNA:   3'- -CCGUuaaaGCCGG-UUC-GAGCa--CGCCC- -5'
23866 5' -53.2 NC_005262.1 + 5031 0.71 0.573108
Target:  5'- cGGCAGUUgcucgcCGGCCGGcGCcugaUCG-GCGGGc -3'
miRNA:   3'- -CCGUUAAa-----GCCGGUU-CG----AGCaCGCCC- -5'
23866 5' -53.2 NC_005262.1 + 18574 0.7 0.62781
Target:  5'- cGGCG--UUCaGGCCGAGCcCG-GCGGa -3'
miRNA:   3'- -CCGUuaAAG-CCGGUUCGaGCaCGCCc -5'
23866 5' -53.2 NC_005262.1 + 12831 0.7 0.647587
Target:  5'- cGGCGAgaacUCGGCCugcgucggcuucAGCUCG-GCGGc -3'
miRNA:   3'- -CCGUUaa--AGCCGGu-----------UCGAGCaCGCCc -5'
23866 5' -53.2 NC_005262.1 + 32889 0.69 0.693448
Target:  5'- cGCGucgaacgUCGGCCAAGC-CG-GCGGc -3'
miRNA:   3'- cCGUuaa----AGCCGGUUCGaGCaCGCCc -5'
23866 5' -53.2 NC_005262.1 + 30931 0.69 0.704245
Target:  5'- cGGCGAacgcUCGGCgccGCaCGUGCGGGc -3'
miRNA:   3'- -CCGUUaa--AGCCGguuCGaGCACGCCC- -5'
23866 5' -53.2 NC_005262.1 + 62821 0.68 0.746615
Target:  5'- gGGCGAcgUgccgacgaUCGGCCAcGGCUCGacGCGGu -3'
miRNA:   3'- -CCGUUa-A--------AGCCGGU-UCGAGCa-CGCCc -5'
23866 5' -53.2 NC_005262.1 + 40460 0.68 0.756947
Target:  5'- cGGCcGUggUCGaGCgCGuGCUCGUGCGcGGc -3'
miRNA:   3'- -CCGuUAa-AGC-CG-GUuCGAGCACGC-CC- -5'
23866 5' -53.2 NC_005262.1 + 46830 0.68 0.756947
Target:  5'- gGGCAAUaUCGguGCCcGGCUUG-GCGGu -3'
miRNA:   3'- -CCGUUAaAGC--CGGuUCGAGCaCGCCc -5'
23866 5' -53.2 NC_005262.1 + 26236 0.68 0.777217
Target:  5'- uGGCuccaggGGCUcGGcCUCGUGUGGGa -3'
miRNA:   3'- -CCGuuaaagCCGGuUC-GAGCACGCCC- -5'
23866 5' -53.2 NC_005262.1 + 49469 0.68 0.787134
Target:  5'- cGCAAcUUCGccGCCcAGCUCG-GCGGu -3'
miRNA:   3'- cCGUUaAAGC--CGGuUCGAGCaCGCCc -5'
23866 5' -53.2 NC_005262.1 + 11584 0.68 0.787134
Target:  5'- cGGCGg---CGGCCAGcGCUCGaGCGa- -3'
miRNA:   3'- -CCGUuaaaGCCGGUU-CGAGCaCGCcc -5'
23866 5' -53.2 NC_005262.1 + 54403 0.67 0.796889
Target:  5'- gGGCAAcgUCGuGCgCAAGCUC--GCGGa -3'
miRNA:   3'- -CCGUUaaAGC-CG-GUUCGAGcaCGCCc -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.