miRNA display CGI


Results 1 - 20 of 53 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
15707 3' -52.4 NC_004065.1 + 136050 0.67 0.986343
Target:  5'- gGGuGCUUCCcggCGGCUUCu-GCGCGACc -3'
miRNA:   3'- -UCuCGGAGGa--GUUGAAGucUGUGCUG- -5'
15707 3' -52.4 NC_004065.1 + 115844 0.7 0.940556
Target:  5'- --cGCCUCCUCcucguACgagUCGGGgACGGCg -3'
miRNA:   3'- ucuCGGAGGAGu----UGa--AGUCUgUGCUG- -5'
15707 3' -52.4 NC_004065.1 + 109504 0.69 0.947758
Target:  5'- uGGGCgUCCUCAACgccguggagcaggUCaccgucuaccccGGGCACGACa -3'
miRNA:   3'- uCUCGgAGGAGUUGa------------AG------------UCUGUGCUG- -5'
15707 3' -52.4 NC_004065.1 + 36488 0.69 0.957436
Target:  5'- cGAGCCUCUucuuccuuagUCAACaUCGuagccagccgcGACACGACc -3'
miRNA:   3'- uCUCGGAGG----------AGUUGaAGU-----------CUGUGCUG- -5'
15707 3' -52.4 NC_004065.1 + 140554 0.69 0.964503
Target:  5'- -cGGCUUCCUCuAGCggCGGGCugGAg -3'
miRNA:   3'- ucUCGGAGGAG-UUGaaGUCUGugCUg -5'
15707 3' -52.4 NC_004065.1 + 138715 0.68 0.967709
Target:  5'- uGGAGCggUCCUCAGgUUCguGGACACGcCg -3'
miRNA:   3'- -UCUCGg-AGGAGUUgAAG--UCUGUGCuG- -5'
15707 3' -52.4 NC_004065.1 + 109342 0.67 0.982751
Target:  5'- gGGAGCUggucgagaccaUCUUCAACgugagUCAGGcCugGACu -3'
miRNA:   3'- -UCUCGG-----------AGGAGUUGa----AGUCU-GugCUG- -5'
15707 3' -52.4 NC_004065.1 + 119062 0.67 0.984627
Target:  5'- uGAcCCgUCCUCAGCUgcaCGGuGCGCGGCa -3'
miRNA:   3'- uCUcGG-AGGAGUUGAa--GUC-UGUGCUG- -5'
15707 3' -52.4 NC_004065.1 + 142730 0.67 0.985675
Target:  5'- uGGGcGCCUCgCUCGACUUCuGuagcggucucuccCGCGACg -3'
miRNA:   3'- -UCU-CGGAG-GAGUUGAAGuCu------------GUGCUG- -5'
15707 3' -52.4 NC_004065.1 + 18526 0.7 0.930693
Target:  5'- cAGAGCCgaaCC-CGACgguUCGGACuCGACg -3'
miRNA:   3'- -UCUCGGa--GGaGUUGa--AGUCUGuGCUG- -5'
15707 3' -52.4 NC_004065.1 + 133080 0.7 0.930693
Target:  5'- cGAGCUggaCCUCGGgaUCGGccGCGCGACg -3'
miRNA:   3'- uCUCGGa--GGAGUUgaAGUC--UGUGCUG- -5'
15707 3' -52.4 NC_004065.1 + 72008 0.7 0.930693
Target:  5'- uGAGCCUgCUgGACUUCucGACGCuGAUg -3'
miRNA:   3'- uCUCGGAgGAgUUGAAGu-CUGUG-CUG- -5'
15707 3' -52.4 NC_004065.1 + 185913 0.78 0.561704
Target:  5'- gGGAGCUUCCUCcucaGAC-UCGGugGCGACc -3'
miRNA:   3'- -UCUCGGAGGAG----UUGaAGUCugUGCUG- -5'
15707 3' -52.4 NC_004065.1 + 22899 0.78 0.561704
Target:  5'- -cAGCCUCC-CAACgcggUCAGugGCGGCg -3'
miRNA:   3'- ucUCGGAGGaGUUGa---AGUCugUGCUG- -5'
15707 3' -52.4 NC_004065.1 + 76713 0.74 0.760896
Target:  5'- aAGAGCgcgucgagguugcaCUCCUCGGCggggaCGGGCGCGGCg -3'
miRNA:   3'- -UCUCG--------------GAGGAGUUGaa---GUCUGUGCUG- -5'
15707 3' -52.4 NC_004065.1 + 118646 0.74 0.773231
Target:  5'- ---uCCUCCUCGGCgUCGGACgACGACg -3'
miRNA:   3'- ucucGGAGGAGUUGaAGUCUG-UGCUG- -5'
15707 3' -52.4 NC_004065.1 + 114033 0.73 0.843668
Target:  5'- cGGAGCg-CCUCugucGCcUCAGAUACGACa -3'
miRNA:   3'- -UCUCGgaGGAGu---UGaAGUCUGUGCUG- -5'
15707 3' -52.4 NC_004065.1 + 114740 0.71 0.888612
Target:  5'- cGGAGcCCUCC-CGA-UUCGGACgACGACg -3'
miRNA:   3'- -UCUC-GGAGGaGUUgAAGUCUG-UGCUG- -5'
15707 3' -52.4 NC_004065.1 + 127434 0.71 0.901821
Target:  5'- aGGAGCacauCUCCUCGAuCUUCAGgACGCuGAUg -3'
miRNA:   3'- -UCUCG----GAGGAGUU-GAAGUC-UGUG-CUG- -5'
15707 3' -52.4 NC_004065.1 + 103735 0.7 0.919865
Target:  5'- --cGCCUCCuUCGGCgUCGGuucGCGCGGCg -3'
miRNA:   3'- ucuCGGAGG-AGUUGaAGUC---UGUGCUG- -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.