miRNA display CGI


Results 1 - 13 of 13 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
20541 5' -59.5 NC_004688.1 + 82994 0.66 0.717515
Target:  5'- gUUUGgCGGggagugcGGACaUCGCCCCACc -3'
miRNA:   3'- gGAACgGCCaga----CCUGcAGCGGGGUG- -5'
20541 5' -59.5 NC_004688.1 + 79940 0.66 0.707647
Target:  5'- gCUUGUCGGaC-GGGCcaCGCCCCAg -3'
miRNA:   3'- gGAACGGCCaGaCCUGcaGCGGGGUg -5'
20541 5' -59.5 NC_004688.1 + 19068 0.66 0.68773
Target:  5'- ---gGCCGGcgUGGGCGUguucgGCCCCAUg -3'
miRNA:   3'- ggaaCGGCCagACCUGCAg----CGGGGUG- -5'
20541 5' -59.5 NC_004688.1 + 41987 0.67 0.671663
Target:  5'- ---cGCCGGUCcGGACGUaguggUagccggcgaggaucaGCCCCGCc -3'
miRNA:   3'- ggaaCGGCCAGaCCUGCA-----G---------------CGGGGUG- -5'
20541 5' -59.5 NC_004688.1 + 12287 0.67 0.657537
Target:  5'- gUUUGauacaUGGUCUGGGCGUUGUCgUACc -3'
miRNA:   3'- gGAACg----GCCAGACCUGCAGCGGgGUG- -5'
20541 5' -59.5 NC_004688.1 + 54265 0.67 0.637295
Target:  5'- uCCggauugGCCGGcaUCUGGAUcUUGUUCCACa -3'
miRNA:   3'- -GGaa----CGGCC--AGACCUGcAGCGGGGUG- -5'
20541 5' -59.5 NC_004688.1 + 18885 0.68 0.586751
Target:  5'- gCCUUguaaucGCCGGUCUGGuACGgguguggcaCGCCCguCu -3'
miRNA:   3'- -GGAA------CGGCCAGACC-UGCa--------GCGGGguG- -5'
20541 5' -59.5 NC_004688.1 + 6499 0.69 0.536999
Target:  5'- ---cGCCGGcgaggUCUGGGCugggguuguucaGUCGCCgCCACu -3'
miRNA:   3'- ggaaCGGCC-----AGACCUG------------CAGCGG-GGUG- -5'
20541 5' -59.5 NC_004688.1 + 32472 0.69 0.507846
Target:  5'- ---cGCCGGUCUGcuuaaccucGGCGUCaUCCCACc -3'
miRNA:   3'- ggaaCGGCCAGAC---------CUGCAGcGGGGUG- -5'
20541 5' -59.5 NC_004688.1 + 75827 0.71 0.407658
Target:  5'- gUUUGUCGGcCgcGGccuCGUCGCCCCGCu -3'
miRNA:   3'- gGAACGGCCaGa-CCu--GCAGCGGGGUG- -5'
20541 5' -59.5 NC_004688.1 + 18635 0.72 0.374403
Target:  5'- gCUUGCCGGcgaaguUCgGGaACGUccgCGCCCCGCc -3'
miRNA:   3'- gGAACGGCC------AGaCC-UGCA---GCGGGGUG- -5'
20541 5' -59.5 NC_004688.1 + 98667 0.73 0.320778
Target:  5'- gCCUacgcGCCccgagaGGUCUGGACGgacgCGCCCgACg -3'
miRNA:   3'- -GGAa---CGG------CCAGACCUGCa---GCGGGgUG- -5'
20541 5' -59.5 NC_004688.1 + 91039 1.12 0.000686
Target:  5'- aCCUUGCCGGUCUGGACGUCGCCCCACg -3'
miRNA:   3'- -GGAACGGCCAGACCUGCAGCGGGGUG- -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.