miRNA display CGI


Results 1 - 20 of 126 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
28883 3' -59.6 NC_006146.1 + 169072 0.67 0.662353
Target:  5'- cACCCGGCUgUGCCCCGccauGAUCUc -3'
miRNA:   3'- cUGGGUCGGgACGGGGCacu-UUGGAu -5'
28883 3' -59.6 NC_006146.1 + 161954 0.72 0.421658
Target:  5'- aGACCCGGCuucCCUuucgggcaacGCCCCGUGGgaGACCg- -3'
miRNA:   3'- -CUGGGUCG---GGA----------CGGGGCACU--UUGGau -5'
28883 3' -59.6 NC_006146.1 + 161887 0.72 0.421658
Target:  5'- aGACCCGGCuucCCUuuugggcaacGCCCCGUGGgaGACCg- -3'
miRNA:   3'- -CUGGGUCG---GGA----------CGGGGCACU--UUGGau -5'
28883 3' -59.6 NC_006146.1 + 161820 0.73 0.362911
Target:  5'- aGACCCGGCUUUccuuuugggccacGCCCCGUGGgaGACCg- -3'
miRNA:   3'- -CUGGGUCGGGA-------------CGGGGCACU--UUGGau -5'
28883 3' -59.6 NC_006146.1 + 161002 0.66 0.731561
Target:  5'- uGACCuCAGCCCcaUGCCgUGUGcaugcguACCUGa -3'
miRNA:   3'- -CUGG-GUCGGG--ACGGgGCACuu-----UGGAU- -5'
28883 3' -59.6 NC_006146.1 + 158443 0.66 0.731561
Target:  5'- gGGCCCgagGGCCUgaaagGCCCCGgc--GCCUGg -3'
miRNA:   3'- -CUGGG---UCGGGa----CGGGGCacuuUGGAU- -5'
28883 3' -59.6 NC_006146.1 + 158049 0.67 0.672378
Target:  5'- cACCCAGCCUcGCCCCa-GgcGCCUc -3'
miRNA:   3'- cUGGGUCGGGaCGGGGcaCuuUGGAu -5'
28883 3' -59.6 NC_006146.1 + 155364 0.66 0.731561
Target:  5'- gGGCCCgagGGCCUgaaagGCCCCGgc--GCCUGg -3'
miRNA:   3'- -CUGGG---UCGGGa----CGGGGCacuuUGGAU- -5'
28883 3' -59.6 NC_006146.1 + 152286 0.66 0.731561
Target:  5'- gGGCCCgagGGCCUgaaagGCCCCGgc--GCCUGg -3'
miRNA:   3'- -CUGGG---UCGGGa----CGGGGCacuuUGGAU- -5'
28883 3' -59.6 NC_006146.1 + 151924 0.68 0.622099
Target:  5'- uGGCuCCGGCCCUGCCgCCcucucuaGggGCCg- -3'
miRNA:   3'- -CUG-GGUCGGGACGG-GGca-----CuuUGGau -5'
28883 3' -59.6 NC_006146.1 + 150952 0.67 0.702227
Target:  5'- -cCCCGGCCCugaucuUGCCCaggGAGGCCg- -3'
miRNA:   3'- cuGGGUCGGG------ACGGGgcaCUUUGGau -5'
28883 3' -59.6 NC_006146.1 + 150898 0.67 0.682371
Target:  5'- uGGCCCggaggaAGCCCUucccgGCgUCGUGggGCCUc -3'
miRNA:   3'- -CUGGG------UCGGGA-----CGgGGCACuuUGGAu -5'
28883 3' -59.6 NC_006146.1 + 150706 0.67 0.682371
Target:  5'- uGCCCAGCcuCCUGCgccCCCG-GggGCCc- -3'
miRNA:   3'- cUGGGUCG--GGACG---GGGCaCuuUGGau -5'
28883 3' -59.6 NC_006146.1 + 149208 0.66 0.731561
Target:  5'- gGGCCCgagGGCCUgaaagGCCCCGgc--GCCUGg -3'
miRNA:   3'- -CUGGG---UCGGGa----CGGGGCacuuUGGAU- -5'
28883 3' -59.6 NC_006146.1 + 146714 0.67 0.672378
Target:  5'- aGGCCCAGCCCuccucUGCCCUGU----CCa- -3'
miRNA:   3'- -CUGGGUCGGG-----ACGGGGCAcuuuGGau -5'
28883 3' -59.6 NC_006146.1 + 146130 0.66 0.731561
Target:  5'- gGGCCCgagGGCCUgaaagGCCCCGgc--GCCUGg -3'
miRNA:   3'- -CUGGG---UCGGGa----CGGGGCacuuUGGAU- -5'
28883 3' -59.6 NC_006146.1 + 143052 0.66 0.731561
Target:  5'- gGGCCCgagGGCCUgaaagGCCCCGgc--GCCUGg -3'
miRNA:   3'- -CUGGG---UCGGGa----CGGGGCacuuUGGAU- -5'
28883 3' -59.6 NC_006146.1 + 139287 0.76 0.241317
Target:  5'- gGGCCCGGCCUUGagcccaucCCCCGUGGugucAGCCUGu -3'
miRNA:   3'- -CUGGGUCGGGAC--------GGGGCACU----UUGGAU- -5'
28883 3' -59.6 NC_006146.1 + 127312 0.69 0.581958
Target:  5'- cGACCCGGCCUcccGCCCCGcuccccgGGAACgCUc -3'
miRNA:   3'- -CUGGGUCGGGa--CGGGGCa------CUUUG-GAu -5'
28883 3' -59.6 NC_006146.1 + 124502 0.68 0.601986
Target:  5'- gGACUCGGCCUggucucgGCCCUGgcgagggacgGggGCCUGg -3'
miRNA:   3'- -CUGGGUCGGGa------CGGGGCa---------CuuUGGAU- -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.