miRNA display CGI


Results 1 - 20 of 72 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
27594 5' -61.7 NC_005882.1 + 36123 0.69 0.217328
Target:  5'- aGGCCaaaaGCGaACGUGACGUGgGCUGCu- -3'
miRNA:   3'- -CCGGaa--CGC-UGCGCUGCGC-CGGCGcc -5'
27594 5' -61.7 NC_005882.1 + 35889 0.67 0.286305
Target:  5'- aGGCa--GCGAuCGCGACGCuGaCCGCa- -3'
miRNA:   3'- -CCGgaaCGCU-GCGCUGCGcC-GGCGcc -5'
27594 5' -61.7 NC_005882.1 + 33041 0.67 0.265929
Target:  5'- cGCCUucagGUaGCGCG-UGCGGCCGCc- -3'
miRNA:   3'- cCGGAa---CGcUGCGCuGCGCCGGCGcc -5'
27594 5' -61.7 NC_005882.1 + 32730 0.69 0.211817
Target:  5'- cGGCgUUGCuGCGCacGACGuUGGCUGCGu -3'
miRNA:   3'- -CCGgAACGcUGCG--CUGC-GCCGGCGCc -5'
27594 5' -61.7 NC_005882.1 + 31635 0.66 0.346586
Target:  5'- -aCCUggGCGACGuCGACGUgacGGUCGCu- -3'
miRNA:   3'- ccGGAa-CGCUGC-GCUGCG---CCGGCGcc -5'
27594 5' -61.7 NC_005882.1 + 31540 0.76 0.069783
Target:  5'- cGGCCagUUGuCGAU-CGACGUGGCCGCGa -3'
miRNA:   3'- -CCGG--AAC-GCUGcGCUGCGCCGGCGCc -5'
27594 5' -61.7 NC_005882.1 + 31374 0.75 0.082508
Target:  5'- aGCUgguCGGCGUGACGCGGCUGcCGGc -3'
miRNA:   3'- cCGGaacGCUGCGCUGCGCCGGC-GCC- -5'
27594 5' -61.7 NC_005882.1 + 31036 0.72 0.124656
Target:  5'- cGCacaacaUGCGGCGUGGCGCGGUCGauCGGc -3'
miRNA:   3'- cCGga----ACGCUGCGCUGCGCCGGC--GCC- -5'
27594 5' -61.7 NC_005882.1 + 30621 0.68 0.259402
Target:  5'- uGGCCggaucggGCGGCGaUGGCGCuGcGCUGaCGGg -3'
miRNA:   3'- -CCGGaa-----CGCUGC-GCUGCG-C-CGGC-GCC- -5'
27594 5' -61.7 NC_005882.1 + 29846 0.68 0.234598
Target:  5'- cGGUCgagaUGCGGgGCGACacgaaGCuGGCCGCcGGu -3'
miRNA:   3'- -CCGGa---ACGCUgCGCUG-----CG-CCGGCG-CC- -5'
27594 5' -61.7 NC_005882.1 + 29344 0.67 0.296228
Target:  5'- uGGCCUUGCGGCuucggacCGAUGCcuucacgccaguaccGaGuCCGCGGa -3'
miRNA:   3'- -CCGGAACGCUGc------GCUGCG---------------C-C-GGCGCC- -5'
27594 5' -61.7 NC_005882.1 + 29186 0.69 0.22296
Target:  5'- cGCCgUUGCu-CGCG-UGCGGCCGCu- -3'
miRNA:   3'- cCGG-AACGcuGCGCuGCGCCGGCGcc -5'
27594 5' -61.7 NC_005882.1 + 28596 0.7 0.166127
Target:  5'- cGGCUUggcgaacGCGACGaucgggacgauuacCGGCGCaaucgaccgGGCCGCGGg -3'
miRNA:   3'- -CCGGAa------CGCUGC--------------GCUGCG---------CCGGCGCC- -5'
27594 5' -61.7 NC_005882.1 + 28349 0.68 0.232821
Target:  5'- gGGCCaaccaggcgcaguccGCGAUGCG-CGUGGCCGuCGa -3'
miRNA:   3'- -CCGGaa-------------CGCUGCGCuGCGCCGGC-GCc -5'
27594 5' -61.7 NC_005882.1 + 28344 0.71 0.142686
Target:  5'- cGCCgaUGUGACGCuGgagaccgccuGCGCGGCCGcCGGc -3'
miRNA:   3'- cCGGa-ACGCUGCG-C----------UGCGCCGGC-GCC- -5'
27594 5' -61.7 NC_005882.1 + 27671 0.72 0.128084
Target:  5'- cGCUgcaGgGACGC--CGCGGCCGCGGc -3'
miRNA:   3'- cCGGaa-CgCUGCGcuGCGCCGGCGCC- -5'
27594 5' -61.7 NC_005882.1 + 27648 0.66 0.31536
Target:  5'- nGCC-UGCGuCGCcauGCcgGCGGCCGCGc -3'
miRNA:   3'- cCGGaACGCuGCGc--UG--CGCCGGCGCc -5'
27594 5' -61.7 NC_005882.1 + 27587 0.85 0.012579
Target:  5'- cGGCCgccggcaugGCGACGCaGGcCGCGGCCGCGGc -3'
miRNA:   3'- -CCGGaa-------CGCUGCG-CU-GCGCCGGCGCC- -5'
27594 5' -61.7 NC_005882.1 + 26992 0.67 0.293366
Target:  5'- aGCC-UGUuuaugggauucgGGCGCGGCGCgcucgucguuGGCCGCGc -3'
miRNA:   3'- cCGGaACG------------CUGCGCUGCG----------CCGGCGCc -5'
27594 5' -61.7 NC_005882.1 + 26938 0.69 0.196003
Target:  5'- cGGCaugggGCgGGCGCGGCcggcaaguucGCGGCCGUGa -3'
miRNA:   3'- -CCGgaa--CG-CUGCGCUG----------CGCCGGCGCc -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.