miRNA display CGI


Results 1 - 20 of 52 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
30404 3' -57.9 NC_006548.1 + 36743 0.77 0.0849
Target:  5'- aGCCGCACCaGCucgGCGaCGCucGCAGAGAg -3'
miRNA:   3'- aCGGCGUGG-CG---CGC-GCGuuCGUUUCU- -5'
30404 3' -57.9 NC_006548.1 + 36635 0.67 0.406281
Target:  5'- gUGCCaGCGCCGCaugaggccgGCGCGCugaucuGGUucuacGAGGAu -3'
miRNA:   3'- -ACGG-CGUGGCG---------CGCGCGu-----UCG-----UUUCU- -5'
30404 3' -57.9 NC_006548.1 + 36595 0.72 0.17819
Target:  5'- gGCCgGCACCGCG-GUGCucgcGCGGGGAu -3'
miRNA:   3'- aCGG-CGUGGCGCgCGCGuu--CGUUUCU- -5'
30404 3' -57.9 NC_006548.1 + 36401 0.67 0.378561
Target:  5'- gGCCGCA-UGCccaGCGC-AGCGAGGAu -3'
miRNA:   3'- aCGGCGUgGCGcg-CGCGuUCGUUUCU- -5'
30404 3' -57.9 NC_006548.1 + 36270 0.67 0.360799
Target:  5'- cGCCGUACCGUGaucuCGCGgcGGCAcuGAg -3'
miRNA:   3'- aCGGCGUGGCGCgc--GCGU--UCGUuuCU- -5'
30404 3' -57.9 NC_006548.1 + 35941 0.71 0.198875
Target:  5'- cGCCGCcgGCCGCGCggaucGCGCcGGCAu--- -3'
miRNA:   3'- aCGGCG--UGGCGCG-----CGCGuUCGUuucu -5'
30404 3' -57.9 NC_006548.1 + 33965 0.67 0.3969
Target:  5'- aGCUGUACCGUG-GCGCucGGCcgucGAAGGc -3'
miRNA:   3'- aCGGCGUGGCGCgCGCGu-UCG----UUUCU- -5'
30404 3' -57.9 NC_006548.1 + 33123 0.69 0.266732
Target:  5'- -aCCGCGCC-UGCGCGCu-GUAGAGGg -3'
miRNA:   3'- acGGCGUGGcGCGCGCGuuCGUUUCU- -5'
30404 3' -57.9 NC_006548.1 + 33016 0.76 0.087414
Target:  5'- cGCUGCACCGgGCGCGCcAGUu--GAa -3'
miRNA:   3'- aCGGCGUGGCgCGCGCGuUCGuuuCU- -5'
30404 3' -57.9 NC_006548.1 + 32024 0.7 0.253131
Target:  5'- uUGCUGUuCCGCGC-UGC-AGCAAAGGg -3'
miRNA:   3'- -ACGGCGuGGCGCGcGCGuUCGUUUCU- -5'
30404 3' -57.9 NC_006548.1 + 29972 0.68 0.311073
Target:  5'- aUGCCGC-CCGuCGCGUGCcgcacAGCGccGGa -3'
miRNA:   3'- -ACGGCGuGGC-GCGCGCGu----UCGUuuCU- -5'
30404 3' -57.9 NC_006548.1 + 29716 0.67 0.369607
Target:  5'- cUGCCGCACCG-GCacCGCuGGCAgcGGc -3'
miRNA:   3'- -ACGGCGUGGCgCGc-GCGuUCGUuuCU- -5'
30404 3' -57.9 NC_006548.1 + 28850 0.72 0.192987
Target:  5'- cUGCCGCAUCcagggucgcccagGCG-GCGCGAGCAcGGGc -3'
miRNA:   3'- -ACGGCGUGG-------------CGCgCGCGUUCGUuUCU- -5'
30404 3' -57.9 NC_006548.1 + 28714 0.67 0.360799
Target:  5'- gGCCGgGCUGCGuUGCGUGAGUAcGAGc -3'
miRNA:   3'- aCGGCgUGGCGC-GCGCGUUCGU-UUCu -5'
30404 3' -57.9 NC_006548.1 + 28600 0.67 0.406281
Target:  5'- cGCCGCgaccugGCCG-GCGC-CGAGCAGGa- -3'
miRNA:   3'- aCGGCG------UGGCgCGCGcGUUCGUUUcu -5'
30404 3' -57.9 NC_006548.1 + 27094 0.67 0.360799
Target:  5'- aGCCaGUACgcaGCGCcucaaugcugcuGUGCAAGCGGGGAa -3'
miRNA:   3'- aCGG-CGUGg--CGCG------------CGCGUUCGUUUCU- -5'
30404 3' -57.9 NC_006548.1 + 26958 0.69 0.295697
Target:  5'- cUGCUGCAagUCG-GCGCGCAGacGCAGAGc -3'
miRNA:   3'- -ACGGCGU--GGCgCGCGCGUU--CGUUUCu -5'
30404 3' -57.9 NC_006548.1 + 26881 0.8 0.04431
Target:  5'- uUGCCGCAauccUCGCGCGCGCGugAGCcGGGAg -3'
miRNA:   3'- -ACGGCGU----GGCGCGCGCGU--UCGuUUCU- -5'
30404 3' -57.9 NC_006548.1 + 26299 0.7 0.253131
Target:  5'- aG-CGCGCCGCGCGCuuuuacuaccuGCA-GCAGAGc -3'
miRNA:   3'- aCgGCGUGGCGCGCG-----------CGUuCGUUUCu -5'
30404 3' -57.9 NC_006548.1 + 25935 0.67 0.3969
Target:  5'- cGUCGUAacggcCCGCGCGgGCcAGCAGGc- -3'
miRNA:   3'- aCGGCGU-----GGCGCGCgCGuUCGUUUcu -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.