miRNA display CGI


Results 1 - 20 of 47 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
21465 3' -54.1 NC_004812.1 + 138561 0.66 0.966932
Target:  5'- uGAACGCCucGCUGCuGGUGCcgGUCGUc-- -3'
miRNA:   3'- cCUUGCGG--CGACG-UCAUG--CAGCAcac -5'
21465 3' -54.1 NC_004812.1 + 104699 0.67 0.92945
Target:  5'- uGGGcCGCCGCcaUGCGG-GCGUgCGUGg- -3'
miRNA:   3'- -CCUuGCGGCG--ACGUCaUGCA-GCACac -5'
21465 3' -54.1 NC_004812.1 + 138830 0.67 0.948431
Target:  5'- aGGGACGCCGCUGCG---UGUCc---- -3'
miRNA:   3'- -CCUUGCGGCGACGUcauGCAGcacac -5'
21465 3' -54.1 NC_004812.1 + 130842 0.67 0.948431
Target:  5'- cGGGGCGCCGCccggggucgGCGGgggcgcggcgGCGUCGaUGa- -3'
miRNA:   3'- -CCUUGCGGCGa--------CGUCa---------UGCAGC-ACac -5'
21465 3' -54.1 NC_004812.1 + 57922 0.66 0.952585
Target:  5'- aGGAGCGCCaGCcaguccucaaucUGCAGcUGCGgCGUGc- -3'
miRNA:   3'- -CCUUGCGG-CG------------ACGUC-AUGCaGCACac -5'
21465 3' -54.1 NC_004812.1 + 24858 0.66 0.952585
Target:  5'- cGGGcgGCGCgGCUGCGGggGCGUCc---- -3'
miRNA:   3'- -CCU--UGCGgCGACGUCa-UGCAGcacac -5'
21465 3' -54.1 NC_004812.1 + 58699 0.66 0.956507
Target:  5'- gGGGGCuuGCCGUUGgGGaacaGCGUCGcGUGg -3'
miRNA:   3'- -CCUUG--CGGCGACgUCa---UGCAGCaCAC- -5'
21465 3' -54.1 NC_004812.1 + 125293 0.66 0.956507
Target:  5'- aGAGCGCCGCgcGCGGaaggccUGCGcgCGUGg- -3'
miRNA:   3'- cCUUGCGGCGa-CGUC------AUGCa-GCACac -5'
21465 3' -54.1 NC_004812.1 + 154204 0.66 0.963676
Target:  5'- gGGGcuggccGCGCCGCUGCGGccCGUCu---- -3'
miRNA:   3'- -CCU------UGCGGCGACGUCauGCAGcacac -5'
21465 3' -54.1 NC_004812.1 + 85212 0.67 0.927872
Target:  5'- --cACGagaCGCUGCGGUucuuugggagccugGCGUCGUGg- -3'
miRNA:   3'- ccuUGCg--GCGACGUCA--------------UGCAGCACac -5'
21465 3' -54.1 NC_004812.1 + 81094 0.68 0.918519
Target:  5'- uGGGGC-CCGUgGCGGUGCGggcggCGUgGUGg -3'
miRNA:   3'- -CCUUGcGGCGaCGUCAUGCa----GCA-CAC- -5'
21465 3' -54.1 NC_004812.1 + 146875 0.68 0.918519
Target:  5'- gGGGACGUgGCaUGCGGUcUGggGUGUGg -3'
miRNA:   3'- -CCUUGCGgCG-ACGUCAuGCagCACAC- -5'
21465 3' -54.1 NC_004812.1 + 55861 0.74 0.641491
Target:  5'- -aGGCGCCGCaGCAGggGCGUCGUcagGUGu -3'
miRNA:   3'- ccUUGCGGCGaCGUCa-UGCAGCA---CAC- -5'
21465 3' -54.1 NC_004812.1 + 28935 0.72 0.742393
Target:  5'- cGGAAUGCCGCc-CGGggACGUCGUGc- -3'
miRNA:   3'- -CCUUGCGGCGacGUCa-UGCAGCACac -5'
21465 3' -54.1 NC_004812.1 + 53591 0.71 0.789779
Target:  5'- aGGGCGUacuCGgUGCGGUugGUCGUGa- -3'
miRNA:   3'- cCUUGCG---GCgACGUCAugCAGCACac -5'
21465 3' -54.1 NC_004812.1 + 145135 0.7 0.807796
Target:  5'- cGAGCGgCggGCUGUAcguGUGCGUCGUGUa -3'
miRNA:   3'- cCUUGCgG--CGACGU---CAUGCAGCACAc -5'
21465 3' -54.1 NC_004812.1 + 48426 0.7 0.849886
Target:  5'- ---cCGCCGCUGCGGUACGaCGc--- -3'
miRNA:   3'- ccuuGCGGCGACGUCAUGCaGCacac -5'
21465 3' -54.1 NC_004812.1 + 103552 0.7 0.849886
Target:  5'- uGAGCGCCGCcugGCGGUGCagcugccgCGUGcUGg -3'
miRNA:   3'- cCUUGCGGCGa--CGUCAUGca------GCAC-AC- -5'
21465 3' -54.1 NC_004812.1 + 108015 0.69 0.887024
Target:  5'- cGGAugGCCGCgGCc--GCGUCGccgccgGUGg -3'
miRNA:   3'- -CCUugCGGCGaCGucaUGCAGCa-----CAC- -5'
21465 3' -54.1 NC_004812.1 + 98457 0.68 0.912693
Target:  5'- gGGGGCGCCccguccaugcGCgUGUAGUACaggGUCGUGg- -3'
miRNA:   3'- -CCUUGCGG----------CG-ACGUCAUG---CAGCACac -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.