miRNA display CGI


Results 1 - 20 of 25 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
28766 3' -56 NC_006146.1 + 166006 0.66 0.90635
Target:  5'- -cGGCUCugucaccaGGCGgCGCAGGC-CGAGa -3'
miRNA:   3'- uaCCGAGug------UCGCaGUGUUCGcGCUC- -5'
28766 3' -56 NC_006146.1 + 49482 0.66 0.900014
Target:  5'- -gGGC-CGCGGUGUCGgcCAGGgGCGGc -3'
miRNA:   3'- uaCCGaGUGUCGCAGU--GUUCgCGCUc -5'
28766 3' -56 NC_006146.1 + 41065 0.66 0.893443
Target:  5'- -gGGCUCGCucggacgggGGCGUgGCGGGUgggccGCGGGc -3'
miRNA:   3'- uaCCGAGUG---------UCGCAgUGUUCG-----CGCUC- -5'
28766 3' -56 NC_006146.1 + 9444 0.66 0.88664
Target:  5'- --aGCuUCACccuGUGUCACGgugGGCGCGGGg -3'
miRNA:   3'- uacCG-AGUGu--CGCAGUGU---UCGCGCUC- -5'
28766 3' -56 NC_006146.1 + 50850 0.66 0.879608
Target:  5'- -cGGCgcaGCAGCGcCACcagucuccGCGCGGGg -3'
miRNA:   3'- uaCCGag-UGUCGCaGUGuu------CGCGCUC- -5'
28766 3' -56 NC_006146.1 + 170578 0.67 0.852482
Target:  5'- uUGGCcgggagaaugacagCugGGCGUgGCGAGCGCGccGGg -3'
miRNA:   3'- uACCGa-------------GugUCGCAgUGUUCGCGC--UC- -5'
28766 3' -56 NC_006146.1 + 167782 0.68 0.836258
Target:  5'- uUGGCggggagaaugacagCugGGCGUgGCGGGCGCGc- -3'
miRNA:   3'- uACCGa-------------GugUCGCAgUGUUCGCGCuc -5'
28766 3' -56 NC_006146.1 + 168714 0.68 0.836258
Target:  5'- uUGGCggggagaaugacagCugGGCGUgGCGGGCGCGc- -3'
miRNA:   3'- uACCGa-------------GugUCGCAgUGUUCGCGCuc -5'
28766 3' -56 NC_006146.1 + 77920 0.68 0.832921
Target:  5'- -gGGCggGCGGCcUCGCAGGUGcCGGGg -3'
miRNA:   3'- uaCCGagUGUCGcAGUGUUCGC-GCUC- -5'
28766 3' -56 NC_006146.1 + 154910 0.68 0.832921
Target:  5'- -gGGCUgACcGCGUCcgcccuucGCAGGCGCaGGGa -3'
miRNA:   3'- uaCCGAgUGuCGCAG--------UGUUCGCG-CUC- -5'
28766 3' -56 NC_006146.1 + 169647 0.68 0.829554
Target:  5'- uUGGCggggagaauacagCugGGCGUgGCGGGCGCGc- -3'
miRNA:   3'- uACCGa------------GugUCGCAgUGUUCGCGCuc -5'
28766 3' -56 NC_006146.1 + 50837 0.68 0.82445
Target:  5'- -cGGCUCcugGCGGUGUC-CAGGCugGUGGGg -3'
miRNA:   3'- uaCCGAG---UGUCGCAGuGUUCG--CGCUC- -5'
28766 3' -56 NC_006146.1 + 125784 0.68 0.815801
Target:  5'- -aGGCUCcCGGCgGUCACcGGC-CGAGc -3'
miRNA:   3'- uaCCGAGuGUCG-CAGUGuUCGcGCUC- -5'
28766 3' -56 NC_006146.1 + 105786 0.68 0.806983
Target:  5'- uGUGGCUCGCGGCGuguagaUCGCAguaGGCaGCa-- -3'
miRNA:   3'- -UACCGAGUGUCGC------AGUGU---UCG-CGcuc -5'
28766 3' -56 NC_006146.1 + 155136 0.68 0.788873
Target:  5'- -aGGUcccCGCGGCGUCGC-AGCaGCGGGc -3'
miRNA:   3'- uaCCGa--GUGUCGCAGUGuUCG-CGCUC- -5'
28766 3' -56 NC_006146.1 + 53799 0.69 0.760656
Target:  5'- -cGGCccgCGCGGCGUC-CAuAGCGgGGGg -3'
miRNA:   3'- uaCCGa--GUGUCGCAGuGU-UCGCgCUC- -5'
28766 3' -56 NC_006146.1 + 8509 0.69 0.751007
Target:  5'- cUGGCcCAcCGGgGUCcCGGGCGCGGGc -3'
miRNA:   3'- uACCGaGU-GUCgCAGuGUUCGCGCUC- -5'
28766 3' -56 NC_006146.1 + 130676 0.7 0.731399
Target:  5'- -aGGCggACGGUGcaaUCAgGGGCGCGAGa -3'
miRNA:   3'- uaCCGagUGUCGC---AGUgUUCGCGCUC- -5'
28766 3' -56 NC_006146.1 + 132792 0.7 0.720462
Target:  5'- -aGGCUCGCAGCugcUCagcagcuGCAGGCGgGGGa -3'
miRNA:   3'- uaCCGAGUGUCGc--AG-------UGUUCGCgCUC- -5'
28766 3' -56 NC_006146.1 + 45695 0.71 0.660516
Target:  5'- -gGGCUCugAGCGcccgUCGCAguagAGCaGCGGGg -3'
miRNA:   3'- uaCCGAGugUCGC----AGUGU----UCG-CGCUC- -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.