miRNA display CGI


Results 1 - 18 of 18 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
18820 3' -51.5 NC_004683.1 + 50775 0.66 0.934173
Target:  5'- gGGUGC-CGUCGAccUCGUagCGC-CACa -3'
miRNA:   3'- -CCAUGaGCAGCU--AGCAcaGCGuGUGc -5'
18820 3' -51.5 NC_004683.1 + 44057 0.66 0.928657
Target:  5'- -cUGCgCGUCGAUCcggGagGCGCGCGg -3'
miRNA:   3'- ccAUGaGCAGCUAGca-CagCGUGUGC- -5'
18820 3' -51.5 NC_004683.1 + 3953 0.66 0.922862
Target:  5'- cGUGCUCGcaccCGAgggCGg--CGCGCACGu -3'
miRNA:   3'- cCAUGAGCa---GCUa--GCacaGCGUGUGC- -5'
18820 3' -51.5 NC_004683.1 + 34116 0.66 0.910439
Target:  5'- cGUGCUgGUCGcguagCGUG-CGC-CACGg -3'
miRNA:   3'- cCAUGAgCAGCua---GCACaGCGuGUGC- -5'
18820 3' -51.5 NC_004683.1 + 45697 0.67 0.903814
Target:  5'- cGUGCUCGgu-GUCGUcGUCGgGCACc -3'
miRNA:   3'- cCAUGAGCagcUAGCA-CAGCgUGUGc -5'
18820 3' -51.5 NC_004683.1 + 16030 0.67 0.896916
Target:  5'- --aAUUCGUCGAugUCGUcccagaacucGUCGCACAgCGu -3'
miRNA:   3'- ccaUGAGCAGCU--AGCA----------CAGCGUGU-GC- -5'
18820 3' -51.5 NC_004683.1 + 16855 0.67 0.88232
Target:  5'- cGUACg---CGAUCGUcGUCGCGCcCGa -3'
miRNA:   3'- cCAUGagcaGCUAGCA-CAGCGUGuGC- -5'
18820 3' -51.5 NC_004683.1 + 31948 0.67 0.88232
Target:  5'- gGGUACUCcacaaaGUC-AUCGgcgGUCGCugGCc -3'
miRNA:   3'- -CCAUGAG------CAGcUAGCa--CAGCGugUGc -5'
18820 3' -51.5 NC_004683.1 + 4457 0.67 0.874631
Target:  5'- uGGgACUCGUCGucgcuggCGUcUCGCuGCGCGg -3'
miRNA:   3'- -CCaUGAGCAGCua-----GCAcAGCG-UGUGC- -5'
18820 3' -51.5 NC_004683.1 + 41763 0.67 0.874631
Target:  5'- aGGUAuaucuCUCGcCGAgcugCGUguaGUCGCGCACc -3'
miRNA:   3'- -CCAU-----GAGCaGCUa---GCA---CAGCGUGUGc -5'
18820 3' -51.5 NC_004683.1 + 38487 0.68 0.866689
Target:  5'- cGUGCUCGgCGAacaUGUgGUCGCAgACGg -3'
miRNA:   3'- cCAUGAGCaGCUa--GCA-CAGCGUgUGC- -5'
18820 3' -51.5 NC_004683.1 + 15603 0.68 0.858502
Target:  5'- --gACUCGaaGAUCGUGgccgCGgGCACGc -3'
miRNA:   3'- ccaUGAGCagCUAGCACa---GCgUGUGC- -5'
18820 3' -51.5 NC_004683.1 + 5077 0.68 0.850077
Target:  5'- aGGaugGCgUCG-CGGUCGUaGUCGC-CACGg -3'
miRNA:   3'- -CCa--UG-AGCaGCUAGCA-CAGCGuGUGC- -5'
18820 3' -51.5 NC_004683.1 + 9454 0.68 0.850077
Target:  5'- gGGUGCUUGUCcucgagGGUCuUGUCGUccgGCAUGg -3'
miRNA:   3'- -CCAUGAGCAG------CUAGcACAGCG---UGUGC- -5'
18820 3' -51.5 NC_004683.1 + 11787 0.69 0.785174
Target:  5'- uGGccgACUCGUCGAUCGgacgGUUccuCACGCa -3'
miRNA:   3'- -CCa--UGAGCAGCUAGCa---CAGc--GUGUGc -5'
18820 3' -51.5 NC_004683.1 + 8588 0.72 0.657903
Target:  5'- cGGUugUCGaCGGUCGUGUagccaccaGC-CGCGg -3'
miRNA:   3'- -CCAugAGCaGCUAGCACAg-------CGuGUGC- -5'
18820 3' -51.5 NC_004683.1 + 46783 0.72 0.635833
Target:  5'- aGUGCUCGUCGcGUCG-GUgCGC-CACGu -3'
miRNA:   3'- cCAUGAGCAGC-UAGCaCA-GCGuGUGC- -5'
18820 3' -51.5 NC_004683.1 + 41456 1.12 0.002079
Target:  5'- gGGUACUCGUCGAUCGUGUCGCACACGa -3'
miRNA:   3'- -CCAUGAGCAGCUAGCACAGCGUGUGC- -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.