miRNA display CGI


Results 1 - 18 of 18 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
23098 3' -60.5 NC_005178.1 + 2968 0.66 0.380965
Target:  5'- uCCUcgcGGCCGcccgagcgcGGAUGG-CUGCCGaGCGUg -3'
miRNA:   3'- -GGA---UCGGC---------CCUGCCaGACGGCcUGCA- -5'
23098 3' -60.5 NC_005178.1 + 30102 0.66 0.354578
Target:  5'- cCCUGGaagCGGGugauguaACGGgugCUGCCGGcCGa -3'
miRNA:   3'- -GGAUCg--GCCC-------UGCCa--GACGGCCuGCa -5'
23098 3' -60.5 NC_005178.1 + 31899 0.67 0.331083
Target:  5'- cCCU-GCUGGGAUGGcUUGCCaucGGCGUu -3'
miRNA:   3'- -GGAuCGGCCCUGCCaGACGGc--CUGCA- -5'
23098 3' -60.5 NC_005178.1 + 34590 0.67 0.331083
Target:  5'- gCUGGCCGGGcgaguCGGUgaGCgGGaaauGCGUc -3'
miRNA:   3'- gGAUCGGCCCu----GCCAgaCGgCC----UGCA- -5'
23098 3' -60.5 NC_005178.1 + 17146 0.67 0.30059
Target:  5'- gCUUGGCCaGGuuGGUC-GCCuGGGCGUc -3'
miRNA:   3'- -GGAUCGGcCCugCCAGaCGG-CCUGCA- -5'
23098 3' -60.5 NC_005178.1 + 20203 0.67 0.30059
Target:  5'- uCC-AGCCGGcGCGGgCUGCCgagcuGGGCGa -3'
miRNA:   3'- -GGaUCGGCCcUGCCaGACGG-----CCUGCa -5'
23098 3' -60.5 NC_005178.1 + 18632 0.68 0.272312
Target:  5'- --cAGuuGGG-CGGUCagGCUGGGCGa -3'
miRNA:   3'- ggaUCggCCCuGCCAGa-CGGCCUGCa -5'
23098 3' -60.5 NC_005178.1 + 17294 0.68 0.272312
Target:  5'- gCUGGUgGGGGCgucagauaguGGUUgcGCCGGACGg -3'
miRNA:   3'- gGAUCGgCCCUG----------CCAGa-CGGCCUGCa -5'
23098 3' -60.5 NC_005178.1 + 5972 0.69 0.252536
Target:  5'- uCCaGGCCGGcGGCGGUaCUGCCuugaccucGACGa -3'
miRNA:   3'- -GGaUCGGCC-CUGCCA-GACGGc-------CUGCa -5'
23098 3' -60.5 NC_005178.1 + 12914 0.7 0.216539
Target:  5'- gCUGGCCGguGGugGG-CUGgaGGACGUg -3'
miRNA:   3'- gGAUCGGC--CCugCCaGACggCCUGCA- -5'
23098 3' -60.5 NC_005178.1 + 15006 0.7 0.216539
Target:  5'- uCCgUGGCCaGGGGCGGUCccucUGCUGGG-GUg -3'
miRNA:   3'- -GG-AUCGG-CCCUGCCAG----ACGGCCUgCA- -5'
23098 3' -60.5 NC_005178.1 + 35702 0.7 0.210985
Target:  5'- gCUGGCCGaggacauggcGGAUGGUCcGCUccaGGACGUg -3'
miRNA:   3'- gGAUCGGC----------CCUGCCAGaCGG---CCUGCA- -5'
23098 3' -60.5 NC_005178.1 + 5667 0.7 0.210436
Target:  5'- uCCcAGCaGGGauacaccaccgagGCGGUCUGgCGGACGUu -3'
miRNA:   3'- -GGaUCGgCCC-------------UGCCAGACgGCCUGCA- -5'
23098 3' -60.5 NC_005178.1 + 16537 0.7 0.195054
Target:  5'- --aGGCCGGuGGCGGUgCUGCCGcccacGGCGa -3'
miRNA:   3'- ggaUCGGCC-CUGCCA-GACGGC-----CUGCa -5'
23098 3' -60.5 NC_005178.1 + 8601 0.72 0.141459
Target:  5'- aCCUGGCgcaCGGcGAUGGcCgUGCCGGACGc -3'
miRNA:   3'- -GGAUCG---GCC-CUGCCaG-ACGGCCUGCa -5'
23098 3' -60.5 NC_005178.1 + 31902 0.73 0.120036
Target:  5'- ---cGCCGGGAUGGcgCUGCCGGucauCGg -3'
miRNA:   3'- ggauCGGCCCUGCCa-GACGGCCu---GCa -5'
23098 3' -60.5 NC_005178.1 + 28123 0.74 0.107473
Target:  5'- gCUAgGCCGGGGCGGUUUcGCUcaguGGACGg -3'
miRNA:   3'- gGAU-CGGCCCUGCCAGA-CGG----CCUGCa -5'
23098 3' -60.5 NC_005178.1 + 9446 1.09 0.000231
Target:  5'- gCCUAGCCGGGACGGUCUGCCGGACGUg -3'
miRNA:   3'- -GGAUCGGCCCUGCCAGACGGCCUGCA- -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.