miRNA display CGI


Results 1 - 20 of 67 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
10840 3' -61.2 NC_002794.1 + 193772 0.67 0.672044
Target:  5'- ---cCGCUCGCUCgCCCGCUCgaUCGCc -3'
miRNA:   3'- gagaGCGAGCGGGaGGGCGAGa-GGUG- -5'
10840 3' -61.2 NC_002794.1 + 193402 0.66 0.757134
Target:  5'- cCUCgCGCUCGCCUcCgCCGC-CgCCGCc -3'
miRNA:   3'- -GAGaGCGAGCGGGaG-GGCGaGaGGUG- -5'
10840 3' -61.2 NC_002794.1 + 192310 0.66 0.766194
Target:  5'- gCUCguccgCGCUCGCCgccgccgccgcUUCCUcCUCUUCGCg -3'
miRNA:   3'- -GAGa----GCGAGCGG-----------GAGGGcGAGAGGUG- -5'
10840 3' -61.2 NC_002794.1 + 191787 0.73 0.371789
Target:  5'- gCUCgaaCGUUCGCUCgaccgCCCGCUCggCCGCu -3'
miRNA:   3'- -GAGa--GCGAGCGGGa----GGGCGAGa-GGUG- -5'
10840 3' -61.2 NC_002794.1 + 191182 0.72 0.420168
Target:  5'- aUCgucgCGCUCGCCCggccgcccgCCCGCUCgcUCGCu -3'
miRNA:   3'- gAGa---GCGAGCGGGa--------GGGCGAGa-GGUG- -5'
10840 3' -61.2 NC_002794.1 + 184186 0.68 0.64287
Target:  5'- ---cCGCggCGCCCggcgaggCCCGCUC-CCGCc -3'
miRNA:   3'- gagaGCGa-GCGGGa------GGGCGAGaGGUG- -5'
10840 3' -61.2 NC_002794.1 + 156699 0.68 0.64287
Target:  5'- uCUCggcCGC-CGCCgUCCCaccgaucggucGUUCUCCGCg -3'
miRNA:   3'- -GAGa--GCGaGCGGgAGGG-----------CGAGAGGUG- -5'
10840 3' -61.2 NC_002794.1 + 151753 0.68 0.613625
Target:  5'- cCUCgcgCGCUCGUCCUCgagauggagaCCGCgccgCUgCACg -3'
miRNA:   3'- -GAGa--GCGAGCGGGAG----------GGCGa---GAgGUG- -5'
10840 3' -61.2 NC_002794.1 + 138531 0.66 0.747975
Target:  5'- gCUCguUCGCUCGCUCggCgGCUUUUCGCc -3'
miRNA:   3'- -GAG--AGCGAGCGGGagGgCGAGAGGUG- -5'
10840 3' -61.2 NC_002794.1 + 137175 0.67 0.672044
Target:  5'- ---cCGCUCGCUCgCCCGC-C-CCACa -3'
miRNA:   3'- gagaGCGAGCGGGaGGGCGaGaGGUG- -5'
10840 3' -61.2 NC_002794.1 + 137077 0.68 0.603894
Target:  5'- gCUCuUCGCgCGCCaugucgCCCGCUCgcgcuccuUCCGCg -3'
miRNA:   3'- -GAG-AGCGaGCGGga----GGGCGAG--------AGGUG- -5'
10840 3' -61.2 NC_002794.1 + 133343 0.67 0.68172
Target:  5'- gUCUCGUucaUCGUcgCCUCuuGCUUUUCGCu -3'
miRNA:   3'- gAGAGCG---AGCG--GGAGggCGAGAGGUG- -5'
10840 3' -61.2 NC_002794.1 + 124312 0.66 0.719975
Target:  5'- ---aCGCUCGCCCggucgaucgaCCCGCgacCCACg -3'
miRNA:   3'- gagaGCGAGCGGGa---------GGGCGagaGGUG- -5'
10840 3' -61.2 NC_002794.1 + 114827 0.69 0.552777
Target:  5'- gCUCUCcggcggccgagucgGCUCGgaggaCCUCCCGCcgCUCCAg -3'
miRNA:   3'- -GAGAG--------------CGAGCg----GGAGGGCGa-GAGGUg -5'
10840 3' -61.2 NC_002794.1 + 112985 0.67 0.652612
Target:  5'- ---cCGCUUGgCCUCCUGCagCUCCAg -3'
miRNA:   3'- gagaGCGAGCgGGAGGGCGa-GAGGUg -5'
10840 3' -61.2 NC_002794.1 + 110313 0.66 0.738723
Target:  5'- aCUCUcCGCUCGCCgCcgcgacgCCgCGCggggggUCUCCGCc -3'
miRNA:   3'- -GAGA-GCGAGCGG-Ga------GG-GCG------AGAGGUG- -5'
10840 3' -61.2 NC_002794.1 + 109907 0.67 0.68172
Target:  5'- gCUCguUCGCUCGaCCCagUCuaGCUCUCC-Ca -3'
miRNA:   3'- -GAG--AGCGAGC-GGG--AGggCGAGAGGuG- -5'
10840 3' -61.2 NC_002794.1 + 109873 0.69 0.584493
Target:  5'- -gCUCGCUCGCCCgugCUCGUgaaggCUCgCAg -3'
miRNA:   3'- gaGAGCGAGCGGGa--GGGCGa----GAG-GUg -5'
10840 3' -61.2 NC_002794.1 + 109780 0.66 0.738723
Target:  5'- cCUCUCGCccgaUCGCUcuuucucucuuuCUCUCGCUCacgcacCCACa -3'
miRNA:   3'- -GAGAGCG----AGCGG------------GAGGGCGAGa-----GGUG- -5'
10840 3' -61.2 NC_002794.1 + 107776 0.66 0.738723
Target:  5'- ---gCGCUCGCCCggcgacgaCCGCg-UCCGCg -3'
miRNA:   3'- gagaGCGAGCGGGag------GGCGagAGGUG- -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.