miRNA display CGI


Results 1 - 20 of 40 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
31013 3' -54.3 NC_006560.1 + 34007 0.66 0.966772
Target:  5'- cGCCUCCG----------UCCCGCCCCc -3'
miRNA:   3'- -CGGAGGCacagcaaagaAGGGUGGGG- -5'
31013 3' -54.3 NC_006560.1 + 18064 0.66 0.963525
Target:  5'- cCCgCCGUGUUucucggUCccCCCGCCCCu -3'
miRNA:   3'- cGGaGGCACAGcaa---AGaaGGGUGGGG- -5'
31013 3' -54.3 NC_006560.1 + 71304 0.66 0.956001
Target:  5'- cGCgUCCGUgguccgcGUCGUgUCgcgCCCGCUCg -3'
miRNA:   3'- -CGgAGGCA-------CAGCAaAGaa-GGGUGGGg -5'
31013 3' -54.3 NC_006560.1 + 30589 0.67 0.948341
Target:  5'- cGCCgcggcCCGcGUCGcgcg--CCCGCCCCc -3'
miRNA:   3'- -CGGa----GGCaCAGCaaagaaGGGUGGGG- -5'
31013 3' -54.3 NC_006560.1 + 53458 0.67 0.948341
Target:  5'- cGCCUCC-UGUCGg--Cg--CCGCCCg -3'
miRNA:   3'- -CGGAGGcACAGCaaaGaagGGUGGGg -5'
31013 3' -54.3 NC_006560.1 + 93368 0.67 0.940779
Target:  5'- cGCCUcCCGUGcCGUcgggggggggggCUUuccccaccacacacCCCACCCCc -3'
miRNA:   3'- -CGGA-GGCACaGCAaa----------GAA--------------GGGUGGGG- -5'
31013 3' -54.3 NC_006560.1 + 104211 0.67 0.939374
Target:  5'- uGCCggCCGUgcuGUCGUUcgCggCCCugcuGCCCCc -3'
miRNA:   3'- -CGGa-GGCA---CAGCAAa-GaaGGG----UGGGG- -5'
31013 3' -54.3 NC_006560.1 + 30129 0.67 0.934537
Target:  5'- gGCCgcaCCGUGcgCGcccUCUcCCCGCCCg -3'
miRNA:   3'- -CGGa--GGCACa-GCaa-AGAaGGGUGGGg -5'
31013 3' -54.3 NC_006560.1 + 11268 0.67 0.934537
Target:  5'- -aCUCCGgggGUCGUUUCagcUCgUCGCCCa -3'
miRNA:   3'- cgGAGGCa--CAGCAAAGa--AG-GGUGGGg -5'
31013 3' -54.3 NC_006560.1 + 10263 0.67 0.929463
Target:  5'- gGCC-CCGgccUCGg--C-UCCCGCCCCc -3'
miRNA:   3'- -CGGaGGCac-AGCaaaGaAGGGUGGGG- -5'
31013 3' -54.3 NC_006560.1 + 24843 0.67 0.929463
Target:  5'- cGCCUCCGgccgCGUcUUCgggCCCgGCCUCu -3'
miRNA:   3'- -CGGAGGCaca-GCA-AAGaa-GGG-UGGGG- -5'
31013 3' -54.3 NC_006560.1 + 50259 0.67 0.924151
Target:  5'- cGCCUCCGggcgGcCGggcUCggCgCGCCCCc -3'
miRNA:   3'- -CGGAGGCa---CaGCaa-AGaaGgGUGGGG- -5'
31013 3' -54.3 NC_006560.1 + 101452 0.68 0.912813
Target:  5'- cGCCUCCaG-GUUGUUg--UCgCCGCUCCg -3'
miRNA:   3'- -CGGAGG-CaCAGCAAagaAG-GGUGGGG- -5'
31013 3' -54.3 NC_006560.1 + 22189 0.68 0.912813
Target:  5'- cGCCgucggggCCGccGUCGccgCggCCCGCCCCc -3'
miRNA:   3'- -CGGa------GGCa-CAGCaaaGaaGGGUGGGG- -5'
31013 3' -54.3 NC_006560.1 + 93162 0.68 0.900532
Target:  5'- cGCCg-CGUGUCGcg---UCCC-CCCCa -3'
miRNA:   3'- -CGGagGCACAGCaaagaAGGGuGGGG- -5'
31013 3' -54.3 NC_006560.1 + 147977 0.68 0.897963
Target:  5'- gGCgUCCGUGUCGgcgUCggaggcggggcggUCgCgGCCCCc -3'
miRNA:   3'- -CGgAGGCACAGCaa-AGa------------AG-GgUGGGG- -5'
31013 3' -54.3 NC_006560.1 + 120674 0.68 0.894042
Target:  5'- cGCCUCCccGUCcgcc---CCCACCCCg -3'
miRNA:   3'- -CGGAGGcaCAGcaaagaaGGGUGGGG- -5'
31013 3' -54.3 NC_006560.1 + 149276 0.69 0.887325
Target:  5'- cGCCUCCcccUCGg-----CCCGCCCCg -3'
miRNA:   3'- -CGGAGGcacAGCaaagaaGGGUGGGG- -5'
31013 3' -54.3 NC_006560.1 + 53525 0.69 0.880383
Target:  5'- cGCCgcgCCGUccCGUccgggCCCGCCCCg -3'
miRNA:   3'- -CGGa--GGCAcaGCAaagaaGGGUGGGG- -5'
31013 3' -54.3 NC_006560.1 + 42145 0.69 0.865845
Target:  5'- gGCgUCCGggucgccGUCGUcgUCccccgcgCCCACCCCc -3'
miRNA:   3'- -CGgAGGCa------CAGCAa-AGaa-----GGGUGGGG- -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.