miRNA display CGI


Results 1 - 20 of 48 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
6535 3' -53.9 NC_001847.1 + 2647 0.7 0.749541
Target:  5'- uCGCCGCUUGCGGcGCCUucgcccggcgGCUCGGCc- -3'
miRNA:   3'- -GUGGUGGACGUCaUGGA----------CGAGUUGua -5'
6535 3' -53.9 NC_001847.1 + 4317 0.66 0.909772
Target:  5'- gCGCCGCCUGCGGguagUGCUCcGCc- -3'
miRNA:   3'- -GUGGUGGACGUCauggACGAGuUGua -5'
6535 3' -53.9 NC_001847.1 + 10821 0.72 0.644835
Target:  5'- gCGCgCugCUGCAGcACCUGCgcgCGACGg -3'
miRNA:   3'- -GUG-GugGACGUCaUGGACGa--GUUGUa -5'
6535 3' -53.9 NC_001847.1 + 12978 0.67 0.867392
Target:  5'- gGCCAUggcgCUGCAGUACCgGCUgGGgGUg -3'
miRNA:   3'- gUGGUG----GACGUCAUGGaCGAgUUgUA- -5'
6535 3' -53.9 NC_001847.1 + 15252 1.06 0.004628
Target:  5'- cCACCACCUGCAGUACCUGCUCAACAUg -3'
miRNA:   3'- -GUGGUGGACGUCAUGGACGAGUUGUA- -5'
6535 3' -53.9 NC_001847.1 + 16131 0.67 0.875065
Target:  5'- -cCCACCUGCGGgu-CUGCgaUCAGCGc -3'
miRNA:   3'- guGGUGGACGUCaugGACG--AGUUGUa -5'
6535 3' -53.9 NC_001847.1 + 17711 0.68 0.834461
Target:  5'- aCGCCGCagUGCAcGUACagcgGCUCGGCGUa -3'
miRNA:   3'- -GUGGUGg-ACGU-CAUGga--CGAGUUGUA- -5'
6535 3' -53.9 NC_001847.1 + 24926 0.66 0.927534
Target:  5'- gCACgGCCcgcacgucGCAGUGCCagGCUCGAgGUa -3'
miRNA:   3'- -GUGgUGGa-------CGUCAUGGa-CGAGUUgUA- -5'
6535 3' -53.9 NC_001847.1 + 28758 0.7 0.739405
Target:  5'- gGCCcggACCUGCAGcuggcgcGCCUGCUgCAGCGg -3'
miRNA:   3'- gUGG---UGGACGUCa------UGGACGA-GUUGUa -5'
6535 3' -53.9 NC_001847.1 + 30853 0.66 0.909772
Target:  5'- gCGCCGCCgcUGCGGcucUGCCgcgGCggCAACGUg -3'
miRNA:   3'- -GUGGUGG--ACGUC---AUGGa--CGa-GUUGUA- -5'
6535 3' -53.9 NC_001847.1 + 34151 0.67 0.874308
Target:  5'- uGCCGCCgcgGCGGcACCUuccgucgcucggaGCUCGGCGc -3'
miRNA:   3'- gUGGUGGa--CGUCaUGGA-------------CGAGUUGUa -5'
6535 3' -53.9 NC_001847.1 + 39242 0.66 0.915953
Target:  5'- cCACCACCgucagGCGGUGCgCUugGCUCGc--- -3'
miRNA:   3'- -GUGGUGGa----CGUCAUG-GA--CGAGUugua -5'
6535 3' -53.9 NC_001847.1 + 44060 0.69 0.806704
Target:  5'- gGCCGCCcuguucgUGCAgcugucGUGCCUGCUgCGGCGUc -3'
miRNA:   3'- gUGGUGG-------ACGU------CAUGGACGA-GUUGUA- -5'
6535 3' -53.9 NC_001847.1 + 44998 0.68 0.825706
Target:  5'- cCAuCCACCUGCAccaccGCCUGCUgGACc- -3'
miRNA:   3'- -GU-GGUGGACGUca---UGGACGAgUUGua -5'
6535 3' -53.9 NC_001847.1 + 55985 0.66 0.921294
Target:  5'- gCGCUGCCUuucgaaaGCcgAGUACCUGCgCAGCGg -3'
miRNA:   3'- -GUGGUGGA-------CG--UCAUGGACGaGUUGUa -5'
6535 3' -53.9 NC_001847.1 + 57002 0.69 0.816758
Target:  5'- aGCCGCCUgGCcacguccuGGUGCCUGCUgCAgaACAa -3'
miRNA:   3'- gUGGUGGA-CG--------UCAUGGACGA-GU--UGUa -5'
6535 3' -53.9 NC_001847.1 + 60559 0.8 0.23796
Target:  5'- aCGCCGuCCUGCAGgcCCUGCgUCAGCAg -3'
miRNA:   3'- -GUGGU-GGACGUCauGGACG-AGUUGUa -5'
6535 3' -53.9 NC_001847.1 + 60803 0.66 0.921874
Target:  5'- gCGCCACCaGCGcgcGcGCCUGCggCAGCGg -3'
miRNA:   3'- -GUGGUGGaCGU---CaUGGACGa-GUUGUa -5'
6535 3' -53.9 NC_001847.1 + 62254 0.72 0.644835
Target:  5'- gCGCCACCUGCAG---CUGCcCGACAa -3'
miRNA:   3'- -GUGGUGGACGUCaugGACGaGUUGUa -5'
6535 3' -53.9 NC_001847.1 + 66524 0.69 0.816758
Target:  5'- gCGCCGCCuUGCGGUccccgGCCcGCUgGACGc -3'
miRNA:   3'- -GUGGUGG-ACGUCA-----UGGaCGAgUUGUa -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.