miRNA display CGI


Results 1 - 20 of 23 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
12225 5' -55.3 NC_003309.1 + 18550 0.66 0.726496
Target:  5'- --aCGGUGC-GCCugCGCCugcgacgugcaGcCGAACg -3'
miRNA:   3'- gaaGCCAUGuCGGugGCGG-----------CaGCUUG- -5'
12225 5' -55.3 NC_003309.1 + 5052 0.66 0.683444
Target:  5'- --cCGGUGCcGCgACgGCgGUCGGAUu -3'
miRNA:   3'- gaaGCCAUGuCGgUGgCGgCAGCUUG- -5'
12225 5' -55.3 NC_003309.1 + 48916 0.66 0.683444
Target:  5'- --aCGGUucgccGCGGCaCGCCGCCaaauacuUCGAACc -3'
miRNA:   3'- gaaGCCA-----UGUCG-GUGGCGGc------AGCUUG- -5'
12225 5' -55.3 NC_003309.1 + 1259 0.66 0.683444
Target:  5'- uUUC-GUACAGCgCGgCGCUGUCGuGCu -3'
miRNA:   3'- gAAGcCAUGUCG-GUgGCGGCAGCuUG- -5'
12225 5' -55.3 NC_003309.1 + 18750 0.66 0.683444
Target:  5'- --gCGGcgAUAGUCGgCGCCuuGUCGAGCg -3'
miRNA:   3'- gaaGCCa-UGUCGGUgGCGG--CAGCUUG- -5'
12225 5' -55.3 NC_003309.1 + 44398 0.66 0.683444
Target:  5'- -cUCGGggaaguUGCaaAGUgGgCGCCGUCGAACg -3'
miRNA:   3'- gaAGCC------AUG--UCGgUgGCGGCAGCUUG- -5'
12225 5' -55.3 NC_003309.1 + 1777 0.67 0.671438
Target:  5'- --gCGGcGCAacgcagaaguaauGCCGCCGCCcGUCGAu- -3'
miRNA:   3'- gaaGCCaUGU-------------CGGUGGCGG-CAGCUug -5'
12225 5' -55.3 NC_003309.1 + 43697 0.67 0.66158
Target:  5'- -gUCGGcuaGCAGCgCGCgCGCCaGaUCGAACa -3'
miRNA:   3'- gaAGCCa--UGUCG-GUG-GCGG-C-AGCUUG- -5'
12225 5' -55.3 NC_003309.1 + 47424 0.67 0.66158
Target:  5'- --gCGGUGCucgcaccagucgAGCCACgCGUCGaCGGGCa -3'
miRNA:   3'- gaaGCCAUG------------UCGGUG-GCGGCaGCUUG- -5'
12225 5' -55.3 NC_003309.1 + 26425 0.67 0.650601
Target:  5'- aUUCgGGUACAG-CACaguaGUCGUCGAAa -3'
miRNA:   3'- gAAG-CCAUGUCgGUGg---CGGCAGCUUg -5'
12225 5' -55.3 NC_003309.1 + 7835 0.67 0.649502
Target:  5'- --cCGGaACGGCCGCCagucaGCCcggcgagcgccauGUCGAGCg -3'
miRNA:   3'- gaaGCCaUGUCGGUGG-----CGG-------------CAGCUUG- -5'
12225 5' -55.3 NC_003309.1 + 8726 0.67 0.639606
Target:  5'- gCUUCGauccagaacaUGCGGUCGCCGaCCGUCGGcucGCg -3'
miRNA:   3'- -GAAGCc---------AUGUCGGUGGC-GGCAGCU---UG- -5'
12225 5' -55.3 NC_003309.1 + 34485 0.67 0.639606
Target:  5'- -aUCGGcUGCAcGCCGCagaCGCUGUUGGAUu -3'
miRNA:   3'- gaAGCC-AUGU-CGGUG---GCGGCAGCUUG- -5'
12225 5' -55.3 NC_003309.1 + 22453 0.68 0.606618
Target:  5'- --gCGGcgaucGCAcGCUGCCGgCGUCGAGCg -3'
miRNA:   3'- gaaGCCa----UGU-CGGUGGCgGCAGCUUG- -5'
12225 5' -55.3 NC_003309.1 + 44481 0.68 0.573826
Target:  5'- --cCGGU-CGuGCCGCUGCCGaagaacggaUCGAACa -3'
miRNA:   3'- gaaGCCAuGU-CGGUGGCGGC---------AGCUUG- -5'
12225 5' -55.3 NC_003309.1 + 15329 0.71 0.439065
Target:  5'- -gUCGGcgAUGGCUGCUGCgCGUCGGAUg -3'
miRNA:   3'- gaAGCCa-UGUCGGUGGCG-GCAGCUUG- -5'
12225 5' -55.3 NC_003309.1 + 3952 0.71 0.437127
Target:  5'- -gUCGGcgcuccgaugcgGCAGCCaucugcgcGCCGCUGUCGAAUu -3'
miRNA:   3'- gaAGCCa-----------UGUCGG--------UGGCGGCAGCUUG- -5'
12225 5' -55.3 NC_003309.1 + 27206 0.72 0.383178
Target:  5'- --gCGGcGCAGCCacGCUGCCGUUGAuucGCg -3'
miRNA:   3'- gaaGCCaUGUCGG--UGGCGGCAGCU---UG- -5'
12225 5' -55.3 NC_003309.1 + 45201 0.72 0.365628
Target:  5'- --gCGGUAauugaaaaGGCCGCCGCCGaccaccUCGAAUg -3'
miRNA:   3'- gaaGCCAUg-------UCGGUGGCGGC------AGCUUG- -5'
12225 5' -55.3 NC_003309.1 + 22494 0.74 0.265457
Target:  5'- -gUUGGUcgacgGCGGCCACCGCCGaCGcGGCg -3'
miRNA:   3'- gaAGCCA-----UGUCGGUGGCGGCaGC-UUG- -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.