miRNA display CGI


Results 1 - 20 of 49 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
11038 3' -54.6 NC_002794.1 + 7983 0.73 0.747664
Target:  5'- gCCUCGucccccaUCCCGUCC-CCGUCcucGGUCa -3'
miRNA:   3'- -GGAGC-------AGGGCAGGuGGCAGuu-CUAGc -5'
11038 3' -54.6 NC_002794.1 + 8229 0.71 0.836154
Target:  5'- cCCUCGUCCuCGUCC-UCGUCcucGUCGu -3'
miRNA:   3'- -GGAGCAGG-GCAGGuGGCAGuucUAGC- -5'
11038 3' -54.6 NC_002794.1 + 13855 0.66 0.976494
Target:  5'- gCCUCGUCgCCG-CCGCCG-CGAcccGGUUc -3'
miRNA:   3'- -GGAGCAG-GGCaGGUGGCaGUU---CUAGc -5'
11038 3' -54.6 NC_002794.1 + 16199 0.66 0.980911
Target:  5'- --aCGUCCCGcCugggCACgGUCGAGGUCc -3'
miRNA:   3'- ggaGCAGGGCaG----GUGgCAGUUCUAGc -5'
11038 3' -54.6 NC_002794.1 + 17269 0.67 0.962249
Target:  5'- gCUCGUcaCCCGggcacgCCGCCGcCGAcGGUCa -3'
miRNA:   3'- gGAGCA--GGGCa-----GGUGGCaGUU-CUAGc -5'
11038 3' -54.6 NC_002794.1 + 19354 0.68 0.942893
Target:  5'- cCCUCGccgCCCG-CC-CCGcCcGGAUCGg -3'
miRNA:   3'- -GGAGCa--GGGCaGGuGGCaGuUCUAGC- -5'
11038 3' -54.6 NC_002794.1 + 20861 0.68 0.951282
Target:  5'- gCUCGUgccaCCCGUCC-CCG-CGAGucacGUCGa -3'
miRNA:   3'- gGAGCA----GGGCAGGuGGCaGUUC----UAGC- -5'
11038 3' -54.6 NC_002794.1 + 21419 0.66 0.978787
Target:  5'- aUCUCGagCCCGUCCuCCGaUAAcGUCGg -3'
miRNA:   3'- -GGAGCa-GGGCAGGuGGCaGUUcUAGC- -5'
11038 3' -54.6 NC_002794.1 + 30136 0.7 0.880809
Target:  5'- cCCcCGUCCCGacCCACCGgcggUCAgaAGAUCa -3'
miRNA:   3'- -GGaGCAGGGCa-GGUGGC----AGU--UCUAGc -5'
11038 3' -54.6 NC_002794.1 + 42171 0.68 0.942893
Target:  5'- --aCGUCUCGUCCGucuCCGcCAcGAUCGg -3'
miRNA:   3'- ggaGCAGGGCAGGU---GGCaGUuCUAGC- -5'
11038 3' -54.6 NC_002794.1 + 42272 0.69 0.912363
Target:  5'- cCCUCGcCCCG-CCGCCGcuccUCGuuGAUCu -3'
miRNA:   3'- -GGAGCaGGGCaGGUGGC----AGUu-CUAGc -5'
11038 3' -54.6 NC_002794.1 + 44761 0.66 0.978787
Target:  5'- aCUCGUCgCCGUCCcgacgcagcGCC-UCcguGAUCGg -3'
miRNA:   3'- gGAGCAG-GGCAGG---------UGGcAGuu-CUAGC- -5'
11038 3' -54.6 NC_002794.1 + 46985 0.71 0.84407
Target:  5'- uCCUCGUCCC--CCGCCGgcacggCAAGA-CGu -3'
miRNA:   3'- -GGAGCAGGGcaGGUGGCa-----GUUCUaGC- -5'
11038 3' -54.6 NC_002794.1 + 52364 0.74 0.710423
Target:  5'- aCUCGUCUCcUUCACCaUCAAGAUCa -3'
miRNA:   3'- gGAGCAGGGcAGGUGGcAGUUCUAGc -5'
11038 3' -54.6 NC_002794.1 + 53911 0.67 0.95515
Target:  5'- uCCUCGUCgCCGUcggcggcgCCGCCGaacCGAGcUCGc -3'
miRNA:   3'- -GGAGCAG-GGCA--------GGUGGCa--GUUCuAGC- -5'
11038 3' -54.6 NC_002794.1 + 59944 0.66 0.980911
Target:  5'- uCCgCGUCUuccccaugcaCGUCUACCGgcacccCGAGGUCGa -3'
miRNA:   3'- -GGaGCAGG----------GCAGGUGGCa-----GUUCUAGC- -5'
11038 3' -54.6 NC_002794.1 + 63051 0.69 0.906489
Target:  5'- aCCUC-UCaCCGUCCACCGcggCGAGcUCc -3'
miRNA:   3'- -GGAGcAG-GGCAGGUGGCa--GUUCuAGc -5'
11038 3' -54.6 NC_002794.1 + 65161 0.7 0.880809
Target:  5'- --cCGUCCCGUCCguggcgccgagACCGgcgggugccggCGAGGUCGg -3'
miRNA:   3'- ggaGCAGGGCAGG-----------UGGCa----------GUUCUAGC- -5'
11038 3' -54.6 NC_002794.1 + 66400 0.66 0.980911
Target:  5'- cCCgUCGUCCCGcCgACCGUgCgAAGA-CGg -3'
miRNA:   3'- -GG-AGCAGGGCaGgUGGCA-G-UUCUaGC- -5'
11038 3' -54.6 NC_002794.1 + 71823 0.69 0.923439
Target:  5'- gCCUCGUCgcgaggaucgCCGUCC-CCGUCGacgGGAccUCa -3'
miRNA:   3'- -GGAGCAG----------GGCAGGuGGCAGU---UCU--AGc -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.