miRNA display CGI


Results 1 - 20 of 39 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
18525 3' -54.5 NC_004681.1 + 32794 0.66 0.836684
Target:  5'- aCCAGGagUCcguCCAGGACGGCGu----- -3'
miRNA:   3'- -GGUCC--AGuu-GGUCCUGCCGUgagaug -5'
18525 3' -54.5 NC_004681.1 + 57973 0.68 0.717009
Target:  5'- cCCAGaUCGcccgacgcaugggcAUCAGGGaggaGGCGCUCUACc -3'
miRNA:   3'- -GGUCcAGU--------------UGGUCCUg---CCGUGAGAUG- -5'
18525 3' -54.5 NC_004681.1 + 19259 0.67 0.771248
Target:  5'- gCCAGGUCuucACCuGGACcGCGgUCaACa -3'
miRNA:   3'- -GGUCCAGu--UGGuCCUGcCGUgAGaUG- -5'
18525 3' -54.5 NC_004681.1 + 22399 0.67 0.781094
Target:  5'- gCuGGUCAccccgGCCGcGGACGGCAaccCUCcGCa -3'
miRNA:   3'- gGuCCAGU-----UGGU-CCUGCCGU---GAGaUG- -5'
18525 3' -54.5 NC_004681.1 + 19364 0.67 0.790791
Target:  5'- aCCGGGUCGACCAcacCGGC-CUggGCg -3'
miRNA:   3'- -GGUCCAGUUGGUccuGCCGuGAgaUG- -5'
18525 3' -54.5 NC_004681.1 + 67070 0.66 0.809697
Target:  5'- uCUGGGUCAACCAGuugcgcgagaaGAuCGGCAacgugggCUACg -3'
miRNA:   3'- -GGUCCAGUUGGUC-----------CU-GCCGUga-----GAUG- -5'
18525 3' -54.5 NC_004681.1 + 16662 0.66 0.818885
Target:  5'- -aGGGUCucacugguGCUGGcGACGGCGCUCcgaGCa -3'
miRNA:   3'- ggUCCAGu-------UGGUC-CUGCCGUGAGa--UG- -5'
18525 3' -54.5 NC_004681.1 + 62085 0.66 0.827884
Target:  5'- gCAuGG-CGGCCuccauGGGCGGCAUcCUGCu -3'
miRNA:   3'- gGU-CCaGUUGGu----CCUGCCGUGaGAUG- -5'
18525 3' -54.5 NC_004681.1 + 19411 0.66 0.827884
Target:  5'- aCGGG-CGACgAGGACgcaGGCG-UCUGCg -3'
miRNA:   3'- gGUCCaGUUGgUCCUG---CCGUgAGAUG- -5'
18525 3' -54.5 NC_004681.1 + 40124 0.68 0.697991
Target:  5'- gCCAGGUCGGugaccgcCCGGGACaGGCAggCcGCg -3'
miRNA:   3'- -GGUCCAGUU-------GGUCCUG-CCGUgaGaUG- -5'
18525 3' -54.5 NC_004681.1 + 66626 0.69 0.688402
Target:  5'- aCCGGcUCuaucGCuCuGGACGGCGCUCUGg -3'
miRNA:   3'- -GGUCcAGu---UG-GuCCUGCCGUGAGAUg -5'
18525 3' -54.5 NC_004681.1 + 15715 0.69 0.688402
Target:  5'- aCCGGG-CGAaguuGGACGccacGCACUCUGCg -3'
miRNA:   3'- -GGUCCaGUUggu-CCUGC----CGUGAGAUG- -5'
18525 3' -54.5 NC_004681.1 + 60005 0.74 0.382965
Target:  5'- gCGGGUCcucaAGCCcGGugGGCAC-CUGCu -3'
miRNA:   3'- gGUCCAG----UUGGuCCugCCGUGaGAUG- -5'
18525 3' -54.5 NC_004681.1 + 12576 0.73 0.466891
Target:  5'- cCCGGGUCAAacaccuucCCGGGcACGGCuCUCUu- -3'
miRNA:   3'- -GGUCCAGUU--------GGUCC-UGCCGuGAGAug -5'
18525 3' -54.5 NC_004681.1 + 47469 0.72 0.483797
Target:  5'- aUCAGGUCGccGCguGcGACGGCcacuacaagucgcuGCUCUACa -3'
miRNA:   3'- -GGUCCAGU--UGguC-CUGCCG--------------UGAGAUG- -5'
18525 3' -54.5 NC_004681.1 + 37297 0.71 0.580675
Target:  5'- gCCGGGUCAGcuCCAGGAUGG-GCUUg-- -3'
miRNA:   3'- -GGUCCAGUU--GGUCCUGCCgUGAGaug -5'
18525 3' -54.5 NC_004681.1 + 5624 0.7 0.634572
Target:  5'- uCCAGGcCGguGCCGGuGugGGCACgcagCUGg -3'
miRNA:   3'- -GGUCCaGU--UGGUC-CugCCGUGa---GAUg -5'
18525 3' -54.5 NC_004681.1 + 7580 0.69 0.645381
Target:  5'- gCCGGGgaGGCCGuGAUGGCAC-CUACg -3'
miRNA:   3'- -GGUCCagUUGGUcCUGCCGUGaGAUG- -5'
18525 3' -54.5 NC_004681.1 + 48748 0.69 0.645381
Target:  5'- uCCuuGGUCcagcaccuCCAGGACGGCGg-CUACa -3'
miRNA:   3'- -GGu-CCAGuu------GGUCCUGCCGUgaGAUG- -5'
18525 3' -54.5 NC_004681.1 + 63905 0.69 0.668031
Target:  5'- cCCAGGUUAugCAGGuucgaguccugucgGGCGCUCg-- -3'
miRNA:   3'- -GGUCCAGUugGUCCug------------CCGUGAGaug -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.