miRNA display CGI


Results 1 - 17 of 17 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
25940 3' -58 NC_005337.1 + 7455 0.66 0.853804
Target:  5'- -cACGUCGGcGUccGUGgCGaCGAGGGCGc -3'
miRNA:   3'- gcUGCAGCC-CA--CACgGCaGCUCCUGU- -5'
25940 3' -58 NC_005337.1 + 68229 0.66 0.847612
Target:  5'- aCGGCGUcCGGGUuccggagcgcgGCCGgcgcgugggcgagcgUCGAGGACu -3'
miRNA:   3'- -GCUGCA-GCCCAca---------CGGC---------------AGCUCCUGu -5'
25940 3' -58 NC_005337.1 + 36900 0.66 0.846045
Target:  5'- gCGGCG-CGGcGUG-GCCGUC-AGGAa- -3'
miRNA:   3'- -GCUGCaGCC-CACaCGGCAGcUCCUgu -5'
25940 3' -58 NC_005337.1 + 104911 0.66 0.838099
Target:  5'- -cGCGaCGGcc--GCCGUCGAGGGCAc -3'
miRNA:   3'- gcUGCaGCCcacaCGGCAGCUCCUGU- -5'
25940 3' -58 NC_005337.1 + 115505 0.66 0.829974
Target:  5'- gGACGUCaGGUGcGCCcUCGAGucCAu -3'
miRNA:   3'- gCUGCAGcCCACaCGGcAGCUCcuGU- -5'
25940 3' -58 NC_005337.1 + 92399 0.66 0.813212
Target:  5'- gCGACGUCGGGgacGUGCU----GGGGCu -3'
miRNA:   3'- -GCUGCAGCCCa--CACGGcagcUCCUGu -5'
25940 3' -58 NC_005337.1 + 65421 0.67 0.786906
Target:  5'- cCGGCG-CGGGgcugGUGgCGUCGcGGAgGa -3'
miRNA:   3'- -GCUGCaGCCCa---CACgGCAGCuCCUgU- -5'
25940 3' -58 NC_005337.1 + 111553 0.67 0.768687
Target:  5'- uCGGgGUCGGcG-GUGCCGUagaCGAGGuGCGa -3'
miRNA:   3'- -GCUgCAGCC-CaCACGGCA---GCUCC-UGU- -5'
25940 3' -58 NC_005337.1 + 85723 0.68 0.721247
Target:  5'- uGACGUCGcaGUccGCCGUCGcGGACGc -3'
miRNA:   3'- gCUGCAGCc-CAcaCGGCAGCuCCUGU- -5'
25940 3' -58 NC_005337.1 + 1052 0.68 0.711504
Target:  5'- gGGCGgCGGGag-GCCGgCGGGGGCGg -3'
miRNA:   3'- gCUGCaGCCCacaCGGCaGCUCCUGU- -5'
25940 3' -58 NC_005337.1 + 1052 0.68 0.711504
Target:  5'- gGGCGgCGGGag-GCCGgCGGGGGCGg -3'
miRNA:   3'- gCUGCaGCCCacaCGGCaGCUCCUGU- -5'
25940 3' -58 NC_005337.1 + 46900 0.69 0.691831
Target:  5'- cCGAC-UCGuGGUGUGuCUGgagcccgaccUCGAGGACAa -3'
miRNA:   3'- -GCUGcAGC-CCACAC-GGC----------AGCUCCUGU- -5'
25940 3' -58 NC_005337.1 + 40043 0.69 0.65198
Target:  5'- gCGuCGUCGcGGUGcGCCGaacCGGGGACc -3'
miRNA:   3'- -GCuGCAGC-CCACaCGGCa--GCUCCUGu -5'
25940 3' -58 NC_005337.1 + 19561 0.7 0.64196
Target:  5'- gGACGUCGuaaacggcGGUGaGCCGcgCGAGGAUc -3'
miRNA:   3'- gCUGCAGC--------CCACaCGGCa-GCUCCUGu -5'
25940 3' -58 NC_005337.1 + 80423 0.72 0.475944
Target:  5'- uGGCGUCGcuGGUcGUGCCcgcgcucgucaGUCGAGGACc -3'
miRNA:   3'- gCUGCAGC--CCA-CACGG-----------CAGCUCCUGu -5'
25940 3' -58 NC_005337.1 + 29975 0.74 0.396836
Target:  5'- uGACGUCGGGcGUGaucccguccUCGUCGuAGGGCAg -3'
miRNA:   3'- gCUGCAGCCCaCAC---------GGCAGC-UCCUGU- -5'
25940 3' -58 NC_005337.1 + 117546 1.08 0.002349
Target:  5'- uCGACGUCGGGUGUGCCGUCGAGGACAu -3'
miRNA:   3'- -GCUGCAGCCCACACGGCAGCUCCUGU- -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.