miRNA display CGI


Results 1 - 17 of 17 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
7223 3' -59.3 NC_001900.1 + 33103 0.66 0.496035
Target:  5'- -gCGCGGC-GAUCAGCUUCuugggcuucguGGCGAu- -3'
miRNA:   3'- caGCGCCGcCUAGUCGAGG-----------UCGCUcc -5'
7223 3' -59.3 NC_001900.1 + 8919 0.66 0.496035
Target:  5'- aGUCGCGGCagcgguccugcuGGAcgCGGCUgCUGGCcAGGa -3'
miRNA:   3'- -CAGCGCCG------------CCUa-GUCGA-GGUCGcUCC- -5'
7223 3' -59.3 NC_001900.1 + 43468 0.66 0.485966
Target:  5'- -gCGCaGCuccGA-CAGCUCCAGCGGGu -3'
miRNA:   3'- caGCGcCGc--CUaGUCGAGGUCGCUCc -5'
7223 3' -59.3 NC_001900.1 + 5253 0.66 0.485966
Target:  5'- --aGCGGCGuuccgguucGcUCGcGCUCaCAGCGAGGa -3'
miRNA:   3'- cagCGCCGC---------CuAGU-CGAG-GUCGCUCC- -5'
7223 3' -59.3 NC_001900.1 + 37470 0.66 0.475995
Target:  5'- cGUCGUaGGUcuucGGAgUCGGUUCCAGCGGc- -3'
miRNA:   3'- -CAGCG-CCG----CCU-AGUCGAGGUCGCUcc -5'
7223 3' -59.3 NC_001900.1 + 31118 0.66 0.473023
Target:  5'- aUCGCGG-GGAUCAGCgUCuggaacgcugggauCAGCGAc- -3'
miRNA:   3'- cAGCGCCgCCUAGUCG-AG--------------GUCGCUcc -5'
7223 3' -59.3 NC_001900.1 + 45451 0.67 0.44098
Target:  5'- gGUCaGCGGCuugcGGGcguucagguugaaguUCAGCgUCCAcGCGGGGa -3'
miRNA:   3'- -CAG-CGCCG----CCU---------------AGUCG-AGGU-CGCUCC- -5'
7223 3' -59.3 NC_001900.1 + 1245 0.67 0.43718
Target:  5'- gGUgGCGGCGG--CAGCggagCUGGCGGcGGg -3'
miRNA:   3'- -CAgCGCCGCCuaGUCGa---GGUCGCU-CC- -5'
7223 3' -59.3 NC_001900.1 + 18940 0.67 0.418466
Target:  5'- uGUCGaugaGGCGcugucGAUCAGgaCC-GCGAGGa -3'
miRNA:   3'- -CAGCg---CCGC-----CUAGUCgaGGuCGCUCC- -5'
7223 3' -59.3 NC_001900.1 + 21930 0.67 0.409293
Target:  5'- cGUCGgGGC-GAUCAcGCaUCCGGCGuacuGGc -3'
miRNA:   3'- -CAGCgCCGcCUAGU-CG-AGGUCGCu---CC- -5'
7223 3' -59.3 NC_001900.1 + 38922 0.68 0.382542
Target:  5'- uGUCaGCGGCGGuacUCAGgUaCUGGgGAGGg -3'
miRNA:   3'- -CAG-CGCCGCCu--AGUCgA-GGUCgCUCC- -5'
7223 3' -59.3 NC_001900.1 + 24972 0.69 0.317105
Target:  5'- gGUgGCGGCGGcgCAGCcgcaacggucCCAGUGGGu -3'
miRNA:   3'- -CAgCGCCGCCuaGUCGa---------GGUCGCUCc -5'
7223 3' -59.3 NC_001900.1 + 18160 0.7 0.287688
Target:  5'- aGUCGcCGaGUGGGUCGGCUCCugguccAGCGGu- -3'
miRNA:   3'- -CAGC-GC-CGCCUAGUCGAGG------UCGCUcc -5'
7223 3' -59.3 NC_001900.1 + 38703 0.7 0.287688
Target:  5'- uUCGUGGCGGcGUCAGCcuUCgCGGCGuacgucGGGg -3'
miRNA:   3'- cAGCGCCGCC-UAGUCG--AG-GUCGC------UCC- -5'
7223 3' -59.3 NC_001900.1 + 28250 0.7 0.280677
Target:  5'- cGUCGUGcagucgaCGGAUCAGgUCCGG-GAGGg -3'
miRNA:   3'- -CAGCGCc------GCCUAGUCgAGGUCgCUCC- -5'
7223 3' -59.3 NC_001900.1 + 22600 0.75 0.127861
Target:  5'- aUCgGCGGCGGugauuUCAGCUUCGGCcAGGa -3'
miRNA:   3'- cAG-CGCCGCCu----AGUCGAGGUCGcUCC- -5'
7223 3' -59.3 NC_001900.1 + 12375 1.09 0.000368
Target:  5'- gGUCGCGGCGGAUCAGCUCCAGCGAGGu -3'
miRNA:   3'- -CAGCGCCGCCUAGUCGAGGUCGCUCC- -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.