miRNA display CGI


Results 1 - 18 of 18 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
1286 5' -52.1 NC_001317.1 + 29891 0.66 0.686197
Target:  5'- --uCAAAGGU--GUGCAG--GCCAGCg -3'
miRNA:   3'- agcGUUUCCGuuCACGUCuuCGGUCG- -5'
1286 5' -52.1 NC_001317.1 + 14242 0.66 0.686197
Target:  5'- cCGCAAucgucGGCAuGGUcUGGAcAGCCAGCg -3'
miRNA:   3'- aGCGUUu----CCGU-UCAcGUCU-UCGGUCG- -5'
1286 5' -52.1 NC_001317.1 + 16625 0.66 0.674378
Target:  5'- gCGCuugauAAGGCGAaacGC-GAGGCCGGUg -3'
miRNA:   3'- aGCGu----UUCCGUUca-CGuCUUCGGUCG- -5'
1286 5' -52.1 NC_001317.1 + 12796 0.66 0.670822
Target:  5'- gCGCAaaAAGGCAuugugaggcugaguAGUGCGGcAGaCAGUa -3'
miRNA:   3'- aGCGU--UUCCGU--------------UCACGUCuUCgGUCG- -5'
1286 5' -52.1 NC_001317.1 + 16864 0.66 0.662512
Target:  5'- cUGCAGAGa-GAGUGCGGGuauuaauaccGGCCuGCa -3'
miRNA:   3'- aGCGUUUCcgUUCACGUCU----------UCGGuCG- -5'
1286 5' -52.1 NC_001317.1 + 9449 0.66 0.661323
Target:  5'- -aGcCAAAGGCAgcgauagugcggcGGUGguGGAGuuuaCCGGCa -3'
miRNA:   3'- agC-GUUUCCGU-------------UCACguCUUC----GGUCG- -5'
1286 5' -52.1 NC_001317.1 + 9500 0.66 0.650612
Target:  5'- gCGCAuGGcGCGGGUGCAucAGUaCGGCc -3'
miRNA:   3'- aGCGUuUC-CGUUCACGUcuUCG-GUCG- -5'
1286 5' -52.1 NC_001317.1 + 9906 0.66 0.650612
Target:  5'- cUCGguGA-GCAGGUGCuGcuGCUGGCa -3'
miRNA:   3'- -AGCguUUcCGUUCACGuCuuCGGUCG- -5'
1286 5' -52.1 NC_001317.1 + 8118 0.66 0.650612
Target:  5'- gUCGCAAuaucuGGGCGucauuacCGGggGCCGGUu -3'
miRNA:   3'- -AGCGUU-----UCCGUucac---GUCuuCGGUCG- -5'
1286 5' -52.1 NC_001317.1 + 24642 0.67 0.614846
Target:  5'- -aGCGAGGGCuucgcGGcGCAGuAGCuCGGCc -3'
miRNA:   3'- agCGUUUCCGu----UCaCGUCuUCG-GUCG- -5'
1286 5' -52.1 NC_001317.1 + 4358 0.67 0.607701
Target:  5'- uUCGCAGugcGGCAgaauucgagauauucAGUGCcGAGGCUcGCc -3'
miRNA:   3'- -AGCGUUu--CCGU---------------UCACGuCUUCGGuCG- -5'
1286 5' -52.1 NC_001317.1 + 6433 0.67 0.602943
Target:  5'- aUGCAGAGGCGcuGGcGCAGuu-UCAGCg -3'
miRNA:   3'- aGCGUUUCCGU--UCaCGUCuucGGUCG- -5'
1286 5' -52.1 NC_001317.1 + 3413 0.68 0.544086
Target:  5'- cCGCAAcaaGGGUGAGcGCaAGAAGCCGa- -3'
miRNA:   3'- aGCGUU---UCCGUUCaCG-UCUUCGGUcg -5'
1286 5' -52.1 NC_001317.1 + 818 0.7 0.433321
Target:  5'- cCGC---GGCGGGUGUAuuuggccgguGAGGCCAGUa -3'
miRNA:   3'- aGCGuuuCCGUUCACGU----------CUUCGGUCG- -5'
1286 5' -52.1 NC_001317.1 + 20186 0.71 0.402692
Target:  5'- gCGCGAGGGUGAGUauauggccGguGAGGCCGa- -3'
miRNA:   3'- aGCGUUUCCGUUCA--------CguCUUCGGUcg -5'
1286 5' -52.1 NC_001317.1 + 21200 0.74 0.271573
Target:  5'- gUCcCAucuGGGGCAAGUGUugGGcGGCCAGCa -3'
miRNA:   3'- -AGcGU---UUCCGUUCACG--UCuUCGGUCG- -5'
1286 5' -52.1 NC_001317.1 + 18541 0.74 0.264173
Target:  5'- -aGCGGAcGCAucaaaGCAGAGGCCAGCg -3'
miRNA:   3'- agCGUUUcCGUuca--CGUCUUCGGUCG- -5'
1286 5' -52.1 NC_001317.1 + 8431 1.12 0.0005
Target:  5'- cUCGCAAAGGCAAGUGCAGAAGCCAGCc -3'
miRNA:   3'- -AGCGUUUCCGUUCACGUCUUCGGUCG- -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.