miRNA display CGI


Results 1 - 20 of 29 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
23388 3' -64 NC_005259.1 + 35608 0.74 0.081676
Target:  5'- cGUCCuGGCCacgcugCGUCGAguaguucGGGCCGCCGCCg -3'
miRNA:   3'- -UAGG-UCGG------GCAGUU-------CCCGGCGGCGGa -5'
23388 3' -64 NC_005259.1 + 43935 0.7 0.158854
Target:  5'- -aCCGcGCUacugacagCGUCGgcgaugggcGGGGCCGCCGCCUg -3'
miRNA:   3'- uaGGU-CGG--------GCAGU---------UCCCGGCGGCGGA- -5'
23388 3' -64 NC_005259.1 + 46858 0.7 0.158854
Target:  5'- aGUCCGcuGUCgGUCGAGGcuugaaucgcGCCGCCGCCc -3'
miRNA:   3'- -UAGGU--CGGgCAGUUCC----------CGGCGGCGGa -5'
23388 3' -64 NC_005259.1 + 14856 0.7 0.165973
Target:  5'- gGUCguGCUCG-CGAGGuucgcgcugcccgaGCCGCCGCCg -3'
miRNA:   3'- -UAGguCGGGCaGUUCC--------------CGGCGGCGGa -5'
23388 3' -64 NC_005259.1 + 68709 0.69 0.189553
Target:  5'- --gCAGCgCGUCGgugcccgagaacuGGGGUCGCCGCUUg -3'
miRNA:   3'- uagGUCGgGCAGU-------------UCCCGGCGGCGGA- -5'
23388 3' -64 NC_005259.1 + 5422 0.69 0.210174
Target:  5'- -gCC-GCCaCGUCGAGGucugcgcccGCUGCCGCCg -3'
miRNA:   3'- uaGGuCGG-GCAGUUCC---------CGGCGGCGGa -5'
23388 3' -64 NC_005259.1 + 36633 0.69 0.213882
Target:  5'- -gCC-GCCCG-CAAGGcccgcgaucagcgaGCCGCCGCCc -3'
miRNA:   3'- uaGGuCGGGCaGUUCC--------------CGGCGGCGGa -5'
23388 3' -64 NC_005259.1 + 37234 0.68 0.220918
Target:  5'- -gCUGGCCCGUgCcGGauuGGCUGCCGCCg -3'
miRNA:   3'- uaGGUCGGGCA-GuUC---CCGGCGGCGGa -5'
23388 3' -64 NC_005259.1 + 60137 0.68 0.232127
Target:  5'- cGUCCuGCgCGgccuuGGCCGCCGCCUc -3'
miRNA:   3'- -UAGGuCGgGCaguucCCGGCGGCGGA- -5'
23388 3' -64 NC_005259.1 + 45375 0.68 0.237909
Target:  5'- gGUUuuGCCCGagGaauuucucGGGGUCGCCGCCg -3'
miRNA:   3'- -UAGguCGGGCagU--------UCCCGGCGGCGGa -5'
23388 3' -64 NC_005259.1 + 21040 0.67 0.25598
Target:  5'- -aCCGGCgCGcguUCAA-GGUCGCCGCCa -3'
miRNA:   3'- uaGGUCGgGC---AGUUcCCGGCGGCGGa -5'
23388 3' -64 NC_005259.1 + 43827 0.67 0.25598
Target:  5'- -aCC-GCCgGaCAcAGGGCCGCCGCUc -3'
miRNA:   3'- uaGGuCGGgCaGU-UCCCGGCGGCGGa -5'
23388 3' -64 NC_005259.1 + 25055 0.67 0.261616
Target:  5'- --gUAGCCCGUuuucaggCAAGGGUggCGCUGCCa -3'
miRNA:   3'- uagGUCGGGCA-------GUUCCCG--GCGGCGGa -5'
23388 3' -64 NC_005259.1 + 48484 0.67 0.261616
Target:  5'- -gUCGGCCUGUUccucgacgcgcuuGAGGGCCGCgacuUGCCg -3'
miRNA:   3'- uaGGUCGGGCAG-------------UUCCCGGCG----GCGGa -5'
23388 3' -64 NC_005259.1 + 35840 0.67 0.262249
Target:  5'- -gCCAccGCCCG-CGAGcacaGGuCCGCCGCCg -3'
miRNA:   3'- uaGGU--CGGGCaGUUC----CC-GGCGGCGGa -5'
23388 3' -64 NC_005259.1 + 13408 0.67 0.268642
Target:  5'- -cUCGGCCUuccuggCcGGGGUCGCCGCCg -3'
miRNA:   3'- uaGGUCGGGca----GuUCCCGGCGGCGGa -5'
23388 3' -64 NC_005259.1 + 58697 0.67 0.27516
Target:  5'- -gUCGGCUCGUC----GCCGCCGCCg -3'
miRNA:   3'- uaGGUCGGGCAGuuccCGGCGGCGGa -5'
23388 3' -64 NC_005259.1 + 40694 0.67 0.27516
Target:  5'- -aCCGGCCCGaugaUCGGGGuGcCCGCCaCCa -3'
miRNA:   3'- uaGGUCGGGC----AGUUCC-C-GGCGGcGGa -5'
23388 3' -64 NC_005259.1 + 25175 0.67 0.281805
Target:  5'- gGUCCGaCCCGUac---GCCGCCGCCg -3'
miRNA:   3'- -UAGGUcGGGCAguuccCGGCGGCGGa -5'
23388 3' -64 NC_005259.1 + 29364 0.67 0.288575
Target:  5'- cGUCgAGgcaCCCGUCGAGGucuacCCGCCGaCCUa -3'
miRNA:   3'- -UAGgUC---GGGCAGUUCCc----GGCGGC-GGA- -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.