miRNA display CGI


Results 1 - 20 of 563 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
30999 3' -68.8 NC_006560.1 + 84 0.81 0.039903
Target:  5'- -gCCCUCCCCgCGCCCCGCGccccgcccccGCGGCCg -3'
miRNA:   3'- ggGGGAGGGG-GCGGGGCGC----------CGCUGGg -5'
30999 3' -68.8 NC_006560.1 + 160 0.82 0.030408
Target:  5'- gUCCCggCCCCGCCCCGCGGUcccGGCCCc -3'
miRNA:   3'- gGGGGagGGGGCGGGGCGCCG---CUGGG- -5'
30999 3' -68.8 NC_006560.1 + 406 0.78 0.060537
Target:  5'- gCCCC-CCCCCGCCCCGCcuguGGgGuucCCCg -3'
miRNA:   3'- gGGGGaGGGGGCGGGGCG----CCgCu--GGG- -5'
30999 3' -68.8 NC_006560.1 + 438 0.68 0.324039
Target:  5'- gCCUCCgcggCCUCCGCggccucCCCgGCgGGCGGCCa -3'
miRNA:   3'- -GGGGGa---GGGGGCG------GGG-CG-CCGCUGGg -5'
30999 3' -68.8 NC_006560.1 + 491 0.71 0.197608
Target:  5'- gCCCCCgucggucucgcUCUCCCGCCacgggcgccgggggGCGGCGGCCg -3'
miRNA:   3'- -GGGGG-----------AGGGGGCGGgg------------CGCCGCUGGg -5'
30999 3' -68.8 NC_006560.1 + 546 0.7 0.210864
Target:  5'- gCCCCgggUCCCCGgcgucCCCCGCG-CGcCCCg -3'
miRNA:   3'- gGGGGa--GGGGGC-----GGGGCGCcGCuGGG- -5'
30999 3' -68.8 NC_006560.1 + 591 0.68 0.292023
Target:  5'- uCCCCggCUCCUCCGCgCCGCGG-GcACgCg -3'
miRNA:   3'- -GGGG--GAGGGGGCGgGGCGCCgC-UGgG- -5'
30999 3' -68.8 NC_006560.1 + 654 0.68 0.285924
Target:  5'- gCCCCagguucgcaCCCCggCGCgCCCGCGGCGcggGCUCg -3'
miRNA:   3'- -GGGGga-------GGGG--GCG-GGGCGCCGC---UGGG- -5'
30999 3' -68.8 NC_006560.1 + 701 0.76 0.080979
Target:  5'- gCCCCgUCCCCCcccgcgGCCCCGUcccccccGCGGCCCc -3'
miRNA:   3'- -GGGGgAGGGGG------CGGGGCGc------CGCUGGG- -5'
30999 3' -68.8 NC_006560.1 + 754 0.79 0.056264
Target:  5'- gCCCCgUCCCCCccCCCCGCGGCGcggguCCUu -3'
miRNA:   3'- -GGGGgAGGGGGc-GGGGCGCCGCu----GGG- -5'
30999 3' -68.8 NC_006560.1 + 861 0.73 0.136578
Target:  5'- cCCgCCCacggCCCCCGCCCCcuCGcGCG-CCCg -3'
miRNA:   3'- -GG-GGGa---GGGGGCGGGGc-GC-CGCuGGG- -5'
30999 3' -68.8 NC_006560.1 + 993 0.7 0.240724
Target:  5'- gCCCCUCgCCCCGgCCgG-GGCGccgucuccGCCCc -3'
miRNA:   3'- gGGGGAG-GGGGCgGGgCgCCGC--------UGGG- -5'
30999 3' -68.8 NC_006560.1 + 1132 0.73 0.142762
Target:  5'- cCCCCCUCCggCCCgGCCuCCGggguuccUGGCGGCCg -3'
miRNA:   3'- -GGGGGAGG--GGG-CGG-GGC-------GCCGCUGGg -5'
30999 3' -68.8 NC_006560.1 + 1229 0.74 0.124358
Target:  5'- gCCCCUgccgcgCCCCCacgcaGCCCCgGCGG-GGCCCc -3'
miRNA:   3'- -GGGGGa-----GGGGG-----CGGGG-CGCCgCUGGG- -5'
30999 3' -68.8 NC_006560.1 + 1273 0.79 0.048578
Target:  5'- gCCCCCgcgaagCCCCCGCCgCGCcgGGCcGCCCg -3'
miRNA:   3'- -GGGGGa-----GGGGGCGGgGCG--CCGcUGGG- -5'
30999 3' -68.8 NC_006560.1 + 1323 0.68 0.310927
Target:  5'- gCUCCCgagCCCCCggGCgCCCGaCGG-GACCg -3'
miRNA:   3'- -GGGGGa--GGGGG--CG-GGGC-GCCgCUGGg -5'
30999 3' -68.8 NC_006560.1 + 1364 0.67 0.373124
Target:  5'- ----gUCCCCCGCggCCCGCacGGCGcCCCu -3'
miRNA:   3'- gggggAGGGGGCG--GGGCG--CCGCuGGG- -5'
30999 3' -68.8 NC_006560.1 + 1391 0.8 0.042963
Target:  5'- cCCCCCgcggCCCUCGCCCC-CcGCGGCCCu -3'
miRNA:   3'- -GGGGGa---GGGGGCGGGGcGcCGCUGGG- -5'
30999 3' -68.8 NC_006560.1 + 1423 0.75 0.10639
Target:  5'- cCCCCCgcggCCCUCGCCCCccuccCGGCaccgcacgccuccgcGGCCCg -3'
miRNA:   3'- -GGGGGa---GGGGGCGGGGc----GCCG---------------CUGGG- -5'
30999 3' -68.8 NC_006560.1 + 1589 0.73 0.143095
Target:  5'- gCCCCCUCCUCCGaUCgaCGCGGcCGGCgCg -3'
miRNA:   3'- -GGGGGAGGGGGC-GGg-GCGCC-GCUGgG- -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.