miRNA display CGI


Results 1 - 15 of 15 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
28396 5' -59.9 NC_005946.1 + 41568 0.65 0.678835
Target:  5'- -cGCCAgacguCCCCGCcucucccuccucaCCCAUGGGAc -3'
miRNA:   3'- gcCGGUacuu-GGGGCGa------------GGGUACCCU- -5'
28396 5' -59.9 NC_005946.1 + 59989 0.66 0.66666
Target:  5'- cCGGCCAcGGGgCCCGCguaaccguacgcggCCC-UGGGu -3'
miRNA:   3'- -GCCGGUaCUUgGGGCGa-------------GGGuACCCu -5'
28396 5' -59.9 NC_005946.1 + 44880 0.66 0.662591
Target:  5'- aCGGCCugGUGGgaacccACCCUGgUCCUGUGGa- -3'
miRNA:   3'- -GCCGG--UACU------UGGGGCgAGGGUACCcu -5'
28396 5' -59.9 NC_005946.1 + 95114 0.66 0.642202
Target:  5'- gCGGUCcUGAGgaUCGCUCCCAccaGGGAc -3'
miRNA:   3'- -GCCGGuACUUggGGCGAGGGUa--CCCU- -5'
28396 5' -59.9 NC_005946.1 + 67890 0.66 0.642202
Target:  5'- uCGGCCA-GGACCuCCGC-CUCG-GGGu -3'
miRNA:   3'- -GCCGGUaCUUGG-GGCGaGGGUaCCCu -5'
28396 5' -59.9 NC_005946.1 + 48623 0.66 0.631992
Target:  5'- aGGCCAUGGccGCCCUcuccucggccuGCUCCuCGgcagucaGGGAc -3'
miRNA:   3'- gCCGGUACU--UGGGG-----------CGAGG-GUa------CCCU- -5'
28396 5' -59.9 NC_005946.1 + 74151 0.67 0.601392
Target:  5'- gGGaCCGUGAGguacgagcCCCCGUgCCCAgacggcaaacccUGGGAg -3'
miRNA:   3'- gCC-GGUACUU--------GGGGCGaGGGU------------ACCCU- -5'
28396 5' -59.9 NC_005946.1 + 42292 0.67 0.581092
Target:  5'- gGGCCcuuUGGACCCUcaGgaCCCGcGGGAc -3'
miRNA:   3'- gCCGGu--ACUUGGGG--CgaGGGUaCCCU- -5'
28396 5' -59.9 NC_005946.1 + 82883 0.67 0.570994
Target:  5'- -cGCCAcgGGACaCUCGCUguccagggucCCCGUGGGAc -3'
miRNA:   3'- gcCGGUa-CUUG-GGGCGA----------GGGUACCCU- -5'
28396 5' -59.9 NC_005946.1 + 45154 0.68 0.554928
Target:  5'- aGGCCAgccuaUGAACguccgacagguugguCuuguCCGCUCCUAUGGGGa -3'
miRNA:   3'- gCCGGU-----ACUUG---------------G----GGCGAGGGUACCCU- -5'
28396 5' -59.9 NC_005946.1 + 71850 0.68 0.540981
Target:  5'- gCGGCCAaGAGgCCCGCgggCCAgaggacGGGAg -3'
miRNA:   3'- -GCCGGUaCUUgGGGCGag-GGUa-----CCCU- -5'
28396 5' -59.9 NC_005946.1 + 61183 0.69 0.44927
Target:  5'- gGGCCAacggggggaccguccUGGACCCCGUggacgaCC-UGGGAg -3'
miRNA:   3'- gCCGGU---------------ACUUGGGGCGag----GGuACCCU- -5'
28396 5' -59.9 NC_005946.1 + 42173 0.7 0.436605
Target:  5'- gGGCCAcucGGGCCCaCGUcCCCAcgGGGAc -3'
miRNA:   3'- gCCGGUa--CUUGGG-GCGaGGGUa-CCCU- -5'
28396 5' -59.9 NC_005946.1 + 79058 0.7 0.435708
Target:  5'- uCGGUCAUGGccuuuccGCaCCUGCagCCGUGGGGg -3'
miRNA:   3'- -GCCGGUACU-------UG-GGGCGagGGUACCCU- -5'
28396 5' -59.9 NC_005946.1 + 59569 1.09 0.000866
Target:  5'- cCGGCCAUGAACCCCGCUCCCAUGGGAg -3'
miRNA:   3'- -GCCGGUACUUGGGGCGAGGGUACCCU- -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.