miRNA display CGI


Results 1 - 16 of 16 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
25891 5' -53.4 NC_005337.1 + 49778 0.66 0.937308
Target:  5'- -cGAGCUUCUCg--GUCGcAGAGgGGg -3'
miRNA:   3'- aaCUCGAAGAGgaaCAGCcUCUCgUC- -5'
25891 5' -53.4 NC_005337.1 + 110002 0.66 0.926686
Target:  5'- aUGAGCUgCUCCagacucagcGUCGG-GAGCAu -3'
miRNA:   3'- aACUCGAaGAGGaa-------CAGCCuCUCGUc -5'
25891 5' -53.4 NC_005337.1 + 115319 0.66 0.926686
Target:  5'- ---cGCUUCUCgUUcucCGGGGAGCGGa -3'
miRNA:   3'- aacuCGAAGAGgAAca-GCCUCUCGUC- -5'
25891 5' -53.4 NC_005337.1 + 42436 0.66 0.926686
Target:  5'- gUGAGCUUCcgggCCgaGUaCGGGGAGUu- -3'
miRNA:   3'- aACUCGAAGa---GGaaCA-GCCUCUCGuc -5'
25891 5' -53.4 NC_005337.1 + 91999 0.67 0.91502
Target:  5'- aUGAGCUUCUCCagcccGUCgaggaacauGGAGuccAGCGGg -3'
miRNA:   3'- aACUCGAAGAGGaa---CAG---------CCUC---UCGUC- -5'
25891 5' -53.4 NC_005337.1 + 110795 0.67 0.901653
Target:  5'- -gGAGCacgUUCUCCacGUCGGAGucggacacguugcAGCAGc -3'
miRNA:   3'- aaCUCG---AAGAGGaaCAGCCUC-------------UCGUC- -5'
25891 5' -53.4 NC_005337.1 + 87614 0.68 0.873882
Target:  5'- cUUGAGCUUCUCgaguuuuaUG-CGGAGAGCc- -3'
miRNA:   3'- -AACUCGAAGAGga------ACaGCCUCUCGuc -5'
25891 5' -53.4 NC_005337.1 + 87248 0.68 0.858226
Target:  5'- aUGcGCUUgUCCg---UGGAGAGCAGg -3'
miRNA:   3'- aACuCGAAgAGGaacaGCCUCUCGUC- -5'
25891 5' -53.4 NC_005337.1 + 4885 0.69 0.824297
Target:  5'- aUGAGCggCUCCgucUGcUCGGAGAacggGCGGu -3'
miRNA:   3'- aACUCGaaGAGGa--AC-AGCCUCU----CGUC- -5'
25891 5' -53.4 NC_005337.1 + 60974 0.69 0.815316
Target:  5'- -aGAGCUUCUUCacGUCgaaGGGGAGCGc -3'
miRNA:   3'- aaCUCGAAGAGGaaCAG---CCUCUCGUc -5'
25891 5' -53.4 NC_005337.1 + 78608 0.69 0.806153
Target:  5'- gUGAGCUUgUCCUUGcCGcGGGAGaCGu -3'
miRNA:   3'- aACUCGAAgAGGAACaGC-CUCUC-GUc -5'
25891 5' -53.4 NC_005337.1 + 81343 0.69 0.806153
Target:  5'- -gGAGCaUCUCCUUGcCGcAGGGCAc -3'
miRNA:   3'- aaCUCGaAGAGGAACaGCcUCUCGUc -5'
25891 5' -53.4 NC_005337.1 + 41841 0.7 0.777669
Target:  5'- --cGGCUcCUCCUcGUCGGgcgGGAGCGGg -3'
miRNA:   3'- aacUCGAaGAGGAaCAGCC---UCUCGUC- -5'
25891 5' -53.4 NC_005337.1 + 110350 0.73 0.589646
Target:  5'- -cGAGCgUCUCgaaGUCGGAGGGCGGc -3'
miRNA:   3'- aaCUCGaAGAGgaaCAGCCUCUCGUC- -5'
25891 5' -53.4 NC_005337.1 + 63138 0.76 0.419143
Target:  5'- gUGAGCUUCUUgaagUUGUCGGAGcGCAGc -3'
miRNA:   3'- aACUCGAAGAGg---AACAGCCUCuCGUC- -5'
25891 5' -53.4 NC_005337.1 + 85445 1.05 0.005966
Target:  5'- cUUGAGCUUCUCCUUGUCGGAGAGCAGc -3'
miRNA:   3'- -AACUCGAAGAGGAACAGCCUCUCGUC- -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.