miRNA display CGI


Results 1 - 20 of 22 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
11421 3' -56.1 NC_003085.1 + 13977 0.65 0.68493
Target:  5'- aAGCGcccguUGCUCGGuuggaccgaGCGCGAacucgccacguaccGAGUCGGu -3'
miRNA:   3'- -UCGCcu---ACGAGUC---------UGCGCU--------------CUCAGCC- -5'
11421 3' -56.1 NC_003085.1 + 4226 0.66 0.677335
Target:  5'- cGCGGAguuggaagcguUGCUC-GACGCGuGGG-CGa -3'
miRNA:   3'- uCGCCU-----------ACGAGuCUGCGCuCUCaGCc -5'
11421 3' -56.1 NC_003085.1 + 32554 0.66 0.666449
Target:  5'- gGGCGGggGCUgGGGUGCGAGG--UGGc -3'
miRNA:   3'- -UCGCCuaCGAgUCUGCGCUCUcaGCC- -5'
11421 3' -56.1 NC_003085.1 + 3117 0.66 0.655532
Target:  5'- aGGC-GAUGCUCgaccuugagAGGCGCGucgaAGAGUgGGc -3'
miRNA:   3'- -UCGcCUACGAG---------UCUGCGC----UCUCAgCC- -5'
11421 3' -56.1 NC_003085.1 + 21677 0.66 0.655532
Target:  5'- cGCGGGUGagcaUCAG-CGCGcugaAGAGgUUGGa -3'
miRNA:   3'- uCGCCUACg---AGUCuGCGC----UCUC-AGCC- -5'
11421 3' -56.1 NC_003085.1 + 2013 0.66 0.644593
Target:  5'- gAGCGGAUGCggCGuGGCGCGAuGuGUUc- -3'
miRNA:   3'- -UCGCCUACGa-GU-CUGCGCU-CuCAGcc -5'
11421 3' -56.1 NC_003085.1 + 12017 0.66 0.644593
Target:  5'- uGCGG-UGg-CGGGCGCG-GGGUUGGc -3'
miRNA:   3'- uCGCCuACgaGUCUGCGCuCUCAGCC- -5'
11421 3' -56.1 NC_003085.1 + 28310 0.67 0.622692
Target:  5'- cAGCaGGUGCgcggugggaCGGGCGUGGGAGU-GGa -3'
miRNA:   3'- -UCGcCUACGa--------GUCUGCGCUCUCAgCC- -5'
11421 3' -56.1 NC_003085.1 + 49158 0.67 0.611749
Target:  5'- cGCGGggGCagCGGACG-GGGAcUCGGc -3'
miRNA:   3'- uCGCCuaCGa-GUCUGCgCUCUcAGCC- -5'
11421 3' -56.1 NC_003085.1 + 22503 0.67 0.589924
Target:  5'- aGGCcGA-GCUCGGACGCGAuGAgGUUGa -3'
miRNA:   3'- -UCGcCUaCGAGUCUGCGCU-CU-CAGCc -5'
11421 3' -56.1 NC_003085.1 + 44797 0.67 0.575809
Target:  5'- cGGCGccguGAaagGCUCgccucugccaccggGGGCGCGAGGGUCGu -3'
miRNA:   3'- -UCGC----CUa--CGAG--------------UCUGCGCUCUCAGCc -5'
11421 3' -56.1 NC_003085.1 + 29402 0.68 0.54676
Target:  5'- aAGCGGAUgucccGCUCcaggaGGGCGCGGGcGG-CGGc -3'
miRNA:   3'- -UCGCCUA-----CGAG-----UCUGCGCUC-UCaGCC- -5'
11421 3' -56.1 NC_003085.1 + 21769 0.68 0.539302
Target:  5'- gGGCGGAcGCcCAGACGCGAcagcaccagcacgucGccgccguAGUCGGu -3'
miRNA:   3'- -UCGCCUaCGaGUCUGCGCU---------------C-------UCAGCC- -5'
11421 3' -56.1 NC_003085.1 + 47146 0.68 0.525546
Target:  5'- aAGCGGcgGC-CGGugGCGAGGca-GGc -3'
miRNA:   3'- -UCGCCuaCGaGUCugCGCUCUcagCC- -5'
11421 3' -56.1 NC_003085.1 + 10973 0.69 0.484121
Target:  5'- gGGCGGAUGCcCG---GCGAGAcGUUGGg -3'
miRNA:   3'- -UCGCCUACGaGUcugCGCUCU-CAGCC- -5'
11421 3' -56.1 NC_003085.1 + 48756 0.7 0.444326
Target:  5'- gGGUGGAccUGCUCAGGCcGCGcccGAGgcCGGa -3'
miRNA:   3'- -UCGCCU--ACGAGUCUG-CGCu--CUCa-GCC- -5'
11421 3' -56.1 NC_003085.1 + 44683 0.71 0.370636
Target:  5'- uGGCGGAUGC-CAGcACcCGAGAGcCGa -3'
miRNA:   3'- -UCGCCUACGaGUC-UGcGCUCUCaGCc -5'
11421 3' -56.1 NC_003085.1 + 34196 0.71 0.362029
Target:  5'- cGGCGGGUgaGCUCGGcCGCGGccuccGGGUCGu -3'
miRNA:   3'- -UCGCCUA--CGAGUCuGCGCU-----CUCAGCc -5'
11421 3' -56.1 NC_003085.1 + 26709 0.73 0.269802
Target:  5'- cGGCGGgcGUcgUCGG-CGCGGGuGUCGGa -3'
miRNA:   3'- -UCGCCuaCG--AGUCuGCGCUCuCAGCC- -5'
11421 3' -56.1 NC_003085.1 + 47687 0.77 0.159163
Target:  5'- cGGCGGucugacGCUCAGAUGCGAGucGUCGa -3'
miRNA:   3'- -UCGCCua----CGAGUCUGCGCUCu-CAGCc -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.