miRNA display CGI


Results 1 - 20 of 56 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
18407 5' -54.4 NC_004681.1 + 46895 0.66 0.868032
Target:  5'- aCCGUCuUCGGGCucgcgGCGACUgguUCGcUGGCa -3'
miRNA:   3'- -GGUAG-AGUCCG-----CGCUGGu--AGCuGUCG- -5'
18407 5' -54.4 NC_004681.1 + 62946 0.67 0.826301
Target:  5'- uCCAUCUCcuucGGCggugGUGGCgG-CGGCGGCg -3'
miRNA:   3'- -GGUAGAGu---CCG----CGCUGgUaGCUGUCG- -5'
18407 5' -54.4 NC_004681.1 + 2959 0.66 0.842787
Target:  5'- aCCAg--CgAGGaccccgagauauuCGCGGCCAUCGAgCAGCc -3'
miRNA:   3'- -GGUagaG-UCC-------------GCGCUGGUAGCU-GUCG- -5'
18407 5' -54.4 NC_004681.1 + 61362 0.66 0.851162
Target:  5'- cCCGUCgcugCGGugggcaacagcucGCGUGuCCAaggUCGGCGGCa -3'
miRNA:   3'- -GGUAGa---GUC-------------CGCGCuGGU---AGCUGUCG- -5'
18407 5' -54.4 NC_004681.1 + 17566 0.66 0.851988
Target:  5'- uUCAaCUgGGGCagugacgccGCGGCCAagcgccgugguaUCGGCGGCu -3'
miRNA:   3'- -GGUaGAgUCCG---------CGCUGGU------------AGCUGUCG- -5'
18407 5' -54.4 NC_004681.1 + 25676 0.66 0.860123
Target:  5'- gCCA-CagGGGCGgGGCCAggCGuCGGCc -3'
miRNA:   3'- -GGUaGagUCCGCgCUGGUa-GCuGUCG- -5'
18407 5' -54.4 NC_004681.1 + 29134 0.66 0.860123
Target:  5'- uCCGcgUCAGGCgugGCGACC-UCaACGGCc -3'
miRNA:   3'- -GGUagAGUCCG---CGCUGGuAGcUGUCG- -5'
18407 5' -54.4 NC_004681.1 + 7252 0.66 0.860123
Target:  5'- gCCAUC-CAcGaCGCGGCCGUCcaccuCGGCg -3'
miRNA:   3'- -GGUAGaGUcC-GCGCUGGUAGcu---GUCG- -5'
18407 5' -54.4 NC_004681.1 + 15954 0.66 0.868032
Target:  5'- gCCAUCUCguucauugGGGUGUcGCCAUCcccGCGGUc -3'
miRNA:   3'- -GGUAGAG--------UCCGCGcUGGUAGc--UGUCG- -5'
18407 5' -54.4 NC_004681.1 + 29320 0.67 0.817339
Target:  5'- aCCAaccucCUCAacGGCaccuuCGACC-UCGACAGCg -3'
miRNA:   3'- -GGUa----GAGU--CCGc----GCUGGuAGCUGUCG- -5'
18407 5' -54.4 NC_004681.1 + 27905 0.67 0.817339
Target:  5'- cUCGUC-CAGuagcggcacGCGgGGCC-UCGGCGGCa -3'
miRNA:   3'- -GGUAGaGUC---------CGCgCUGGuAGCUGUCG- -5'
18407 5' -54.4 NC_004681.1 + 32422 0.67 0.808192
Target:  5'- aCCAcCgcgCAGGCGgaGCaCAUCGugGGCa -3'
miRNA:   3'- -GGUaGa--GUCCGCgcUG-GUAGCugUCG- -5'
18407 5' -54.4 NC_004681.1 + 68898 0.8 0.193007
Target:  5'- gCCAUCg-AGGCGCuGACCAUCGucACGGCc -3'
miRNA:   3'- -GGUAGagUCCGCG-CUGGUAGC--UGUCG- -5'
18407 5' -54.4 NC_004681.1 + 18372 0.77 0.288188
Target:  5'- gCCAUCgacauggcaggcCAGGCgGCGGCCG-CGGCGGCa -3'
miRNA:   3'- -GGUAGa-----------GUCCG-CGCUGGUaGCUGUCG- -5'
18407 5' -54.4 NC_004681.1 + 45166 0.71 0.570173
Target:  5'- aCCGUCgcgCAGGUGCaGucuuUCAUCGACcGCg -3'
miRNA:   3'- -GGUAGa--GUCCGCG-Cu---GGUAGCUGuCG- -5'
18407 5' -54.4 NC_004681.1 + 30034 0.69 0.677051
Target:  5'- aCCGUCaUCGccgcCGCGGCCAUCGGCcucggAGCu -3'
miRNA:   3'- -GGUAG-AGUcc--GCGCUGGUAGCUG-----UCG- -5'
18407 5' -54.4 NC_004681.1 + 17115 0.69 0.708756
Target:  5'- -gAUCgCGGGCGCGuucuCCGaaauccuguUCGGCGGCc -3'
miRNA:   3'- ggUAGaGUCCGCGCu---GGU---------AGCUGUCG- -5'
18407 5' -54.4 NC_004681.1 + 35800 0.68 0.760027
Target:  5'- uCCAUUgcgGGGCGCGGCCAg-GACGa- -3'
miRNA:   3'- -GGUAGag-UCCGCGCUGGUagCUGUcg -5'
18407 5' -54.4 NC_004681.1 + 57399 0.68 0.769951
Target:  5'- aCAUCUCAGcGCGCu-CCG-CGAUgcuGGCg -3'
miRNA:   3'- gGUAGAGUC-CGCGcuGGUaGCUG---UCG- -5'
18407 5' -54.4 NC_004681.1 + 30720 0.67 0.79887
Target:  5'- cCCAcaUguGGgGCGAgC-UCGACGGCa -3'
miRNA:   3'- -GGUagAguCCgCGCUgGuAGCUGUCG- -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.