miRNA display CGI


Results 1 - 15 of 15 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
27128 5' -60.3 NC_005832.1 + 9581 0.66 0.662747
Target:  5'- gGUCUCCacgGGaGACACCgUCAGgagCUCCu- -3'
miRNA:   3'- -CAGGGG---CC-CUGUGGgAGUCa--GAGGuc -5'
27128 5' -60.3 NC_005832.1 + 22939 0.66 0.641417
Target:  5'- aGUCUUCGGGcACcacucguACCCcgCAGcCUCCAGa -3'
miRNA:   3'- -CAGGGGCCC-UG-------UGGGa-GUCaGAGGUC- -5'
27128 5' -60.3 NC_005832.1 + 47249 0.66 0.632262
Target:  5'- -gCCCUGGGGCcaggACCCUcCAGUgUCUg- -3'
miRNA:   3'- caGGGGCCCUG----UGGGA-GUCAgAGGuc -5'
27128 5' -60.3 NC_005832.1 + 95374 0.66 0.601774
Target:  5'- uGUCCCgGGGAC-CCUggccgCUCCGGa -3'
miRNA:   3'- -CAGGGgCCCUGuGGGagucaGAGGUC- -5'
27128 5' -60.3 NC_005832.1 + 7616 0.66 0.601774
Target:  5'- aUCCCCGGGAguggaggggucCACCUUCAG-CggcaCCAc -3'
miRNA:   3'- cAGGGGCCCU-----------GUGGGAGUCaGa---GGUc -5'
27128 5' -60.3 NC_005832.1 + 10269 0.67 0.581547
Target:  5'- uUCCCaggggcaGGGACACCCcCAGg-UCCAu -3'
miRNA:   3'- cAGGGg------CCCUGUGGGaGUCagAGGUc -5'
27128 5' -60.3 NC_005832.1 + 13013 0.67 0.581547
Target:  5'- gGUCCCU-GGACGCCUUCGGgUUCCc- -3'
miRNA:   3'- -CAGGGGcCCUGUGGGAGUCaGAGGuc -5'
27128 5' -60.3 NC_005832.1 + 72559 0.67 0.551492
Target:  5'- gGUCCCCguggggacguGGGGC-CCCUgGG-CUUCAGg -3'
miRNA:   3'- -CAGGGG----------CCCUGuGGGAgUCaGAGGUC- -5'
27128 5' -60.3 NC_005832.1 + 78915 0.67 0.541575
Target:  5'- cGUCCCCGGG-CACCaCUgCAGcCcCCGa -3'
miRNA:   3'- -CAGGGGCCCuGUGG-GA-GUCaGaGGUc -5'
27128 5' -60.3 NC_005832.1 + 72537 0.68 0.492994
Target:  5'- aGUCCCCGGGugGaCCCgggGGUC-CCu- -3'
miRNA:   3'- -CAGGGGCCCugU-GGGag-UCAGaGGuc -5'
27128 5' -60.3 NC_005832.1 + 19953 0.69 0.474121
Target:  5'- gGUCCUCGGGGCAUCUcCAG-C-CCGGa -3'
miRNA:   3'- -CAGGGGCCCUGUGGGaGUCaGaGGUC- -5'
27128 5' -60.3 NC_005832.1 + 42141 0.7 0.41028
Target:  5'- -cCCCCGGaagagguGAC-CCCUCGGUCcuggUCCAGc -3'
miRNA:   3'- caGGGGCC-------CUGuGGGAGUCAG----AGGUC- -5'
27128 5' -60.3 NC_005832.1 + 43490 0.73 0.268844
Target:  5'- cGUCCCCGucGGACuuucuCCCUCGccCUCCAGg -3'
miRNA:   3'- -CAGGGGC--CCUGu----GGGAGUcaGAGGUC- -5'
27128 5' -60.3 NC_005832.1 + 26347 0.73 0.25642
Target:  5'- cUCgCCgGGGACGaugaccgugccCCCgUCAGUCUCCAGg -3'
miRNA:   3'- cAG-GGgCCCUGU-----------GGG-AGUCAGAGGUC- -5'
27128 5' -60.3 NC_005832.1 + 95491 1.08 0.000915
Target:  5'- gGUCCCCGGGACACCCUCAGUCUCCAGa -3'
miRNA:   3'- -CAGGGGCCCUGUGGGAGUCAGAGGUC- -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.