miRNA display CGI


Results 1 - 20 of 22 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
6272 5' -59.4 NC_001844.1 + 143340 0.66 0.802949
Target:  5'- cCCGCcgCCGgcUCCAGggGCUCGgAGC-GCCg -3'
miRNA:   3'- -GGCGa-GGC--AGGUU--UGGGCgUCGcCGG- -5'
6272 5' -59.4 NC_001844.1 + 117159 0.66 0.794257
Target:  5'- cCCGCUCCGgggcucgccgagaugCUGAAgaugguucacucgUCCGCGGCuacaggGGCCg -3'
miRNA:   3'- -GGCGAGGCa--------------GGUUU-------------GGGCGUCG------CCGG- -5'
6272 5' -59.4 NC_001844.1 + 113543 0.66 0.794257
Target:  5'- gCGC-CCGguguaCCucGCCUGCGGaCGGCg -3'
miRNA:   3'- gGCGaGGCa----GGuuUGGGCGUC-GCCGg -5'
6272 5' -59.4 NC_001844.1 + 19458 0.66 0.785429
Target:  5'- --uCUUCGUCCGAACCCaaaAGCGGaUCg -3'
miRNA:   3'- ggcGAGGCAGGUUUGGGcg-UCGCC-GG- -5'
6272 5' -59.4 NC_001844.1 + 116663 0.66 0.776471
Target:  5'- gCGCUCCcccCCGAguaACCCG-GGCgGGCCc -3'
miRNA:   3'- gGCGAGGca-GGUU---UGGGCgUCG-CCGG- -5'
6272 5' -59.4 NC_001844.1 + 12914 0.66 0.776471
Target:  5'- aUGCUgCGUCgCuuGCaugUGCGGCGGCUa -3'
miRNA:   3'- gGCGAgGCAG-GuuUGg--GCGUCGCCGG- -5'
6272 5' -59.4 NC_001844.1 + 122520 0.66 0.774664
Target:  5'- cUCGCgCgCGUauuucagugacgCGAACCCGCGgacGCGGCCa -3'
miRNA:   3'- -GGCGaG-GCAg-----------GUUUGGGCGU---CGCCGG- -5'
6272 5' -59.4 NC_001844.1 + 120582 0.66 0.767392
Target:  5'- aCGCagCGU---GGCCCGCAGCGGa- -3'
miRNA:   3'- gGCGagGCAgguUUGGGCGUCGCCgg -5'
6272 5' -59.4 NC_001844.1 + 116370 0.67 0.7582
Target:  5'- aCUGCUCC-UCuCAGGCCC-CAG-GGCUc -3'
miRNA:   3'- -GGCGAGGcAG-GUUUGGGcGUCgCCGG- -5'
6272 5' -59.4 NC_001844.1 + 135485 0.67 0.7582
Target:  5'- gCCGC-CUGUgucgCCGcGCCUGCcGCcGGCCg -3'
miRNA:   3'- -GGCGaGGCA----GGUuUGGGCGuCG-CCGG- -5'
6272 5' -59.4 NC_001844.1 + 141327 0.67 0.739512
Target:  5'- cCCGCuaaUCUGcCCAgggGACCCG--GUGGCCg -3'
miRNA:   3'- -GGCG---AGGCaGGU---UUGGGCguCGCCGG- -5'
6272 5' -59.4 NC_001844.1 + 137848 0.67 0.730031
Target:  5'- -aGaCUCCGUgCGcguGCCCGCcaggcuucccGGCGGCUc -3'
miRNA:   3'- ggC-GAGGCAgGUu--UGGGCG----------UCGCCGG- -5'
6272 5' -59.4 NC_001844.1 + 17221 0.67 0.720472
Target:  5'- uUGCUaCCG-CCAuaaaGugCCGCGcCGGCCa -3'
miRNA:   3'- gGCGA-GGCaGGU----UugGGCGUcGCCGG- -5'
6272 5' -59.4 NC_001844.1 + 74794 0.68 0.691401
Target:  5'- aCGCaugcgaUCCGUuaCCAGACCCcCaccuGGUGGCCg -3'
miRNA:   3'- gGCG------AGGCA--GGUUUGGGcG----UCGCCGG- -5'
6272 5' -59.4 NC_001844.1 + 140881 0.68 0.661913
Target:  5'- aCCGCUuuG-CCuu-CCCGCcgcggggcucGGgGGCCg -3'
miRNA:   3'- -GGCGAggCaGGuuuGGGCG----------UCgCCGG- -5'
6272 5' -59.4 NC_001844.1 + 39655 0.68 0.661913
Target:  5'- cUCGCUCCGcUgUAGuaaCUGCAGCGGUa -3'
miRNA:   3'- -GGCGAGGC-AgGUUug-GGCGUCGCCGg -5'
6272 5' -59.4 NC_001844.1 + 41538 0.69 0.641138
Target:  5'- gCGCUgCGauauucaacggcuUCCAGgugggggcggcuACCgGCAGCGGCUa -3'
miRNA:   3'- gGCGAgGC-------------AGGUU------------UGGgCGUCGCCGG- -5'
6272 5' -59.4 NC_001844.1 + 137788 0.7 0.582824
Target:  5'- gCCGCUCuCG-CCGAggucgcugcGCCCGUaccugucucGGgGGCCg -3'
miRNA:   3'- -GGCGAG-GCaGGUU---------UGGGCG---------UCgCCGG- -5'
6272 5' -59.4 NC_001844.1 + 117247 0.7 0.543861
Target:  5'- gCCGCcuuccCCGgcccCCGAGcCCCGCGGCGGg- -3'
miRNA:   3'- -GGCGa----GGCa---GGUUU-GGGCGUCGCCgg -5'
6272 5' -59.4 NC_001844.1 + 142469 0.71 0.505787
Target:  5'- -gGUUCUGguaCCAgGACCCGCGGCcGCCg -3'
miRNA:   3'- ggCGAGGCa--GGU-UUGGGCGUCGcCGG- -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.