miRNA display CGI


Results 1 - 20 of 24 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
4377 3' -56.1 NC_001720.1 + 16265 0.66 0.605587
Target:  5'- gCAUCCU-GCCCUCAGUGCGaccuaccauuAGGCCg -3'
miRNA:   3'- -GUGGGAgUGGGAGUUGUGCgu--------UCCGG- -5'
4377 3' -56.1 NC_001720.1 + 7295 0.66 0.605587
Target:  5'- gGCCCUCgACCagccCAGCACGaagcAGGCg -3'
miRNA:   3'- gUGGGAG-UGGga--GUUGUGCgu--UCCGg -5'
4377 3' -56.1 NC_001720.1 + 37661 0.66 0.594478
Target:  5'- -gUCCUggaACCUgCAGCugGuCGAGGCCa -3'
miRNA:   3'- guGGGAg--UGGGaGUUGugC-GUUCCGG- -5'
4377 3' -56.1 NC_001720.1 + 18722 0.66 0.594478
Target:  5'- gGCCCUCcgcuuuuccacgGCCUUgAGCGCGUccucgccgugGAGGCg -3'
miRNA:   3'- gUGGGAG------------UGGGAgUUGUGCG----------UUCCGg -5'
4377 3' -56.1 NC_001720.1 + 11031 0.66 0.583401
Target:  5'- -uCCgUCGCCgCcgCGugACGCGGGGCa -3'
miRNA:   3'- guGGgAGUGG-Ga-GUugUGCGUUCCGg -5'
4377 3' -56.1 NC_001720.1 + 35450 0.66 0.583401
Target:  5'- cCGCCCUCACCCacccCAugcccCACGgAAuGCCc -3'
miRNA:   3'- -GUGGGAGUGGGa---GUu----GUGCgUUcCGG- -5'
4377 3' -56.1 NC_001720.1 + 33519 0.66 0.583401
Target:  5'- gGgCCUC-CCCUCAcggacaGCGUGCuGGGCCc -3'
miRNA:   3'- gUgGGAGuGGGAGU------UGUGCGuUCCGG- -5'
4377 3' -56.1 NC_001720.1 + 28747 0.66 0.583401
Target:  5'- aGCUUgCGCCCcCGGCGCGaCGcGGCCg -3'
miRNA:   3'- gUGGGaGUGGGaGUUGUGC-GUuCCGG- -5'
4377 3' -56.1 NC_001720.1 + 24981 0.66 0.583401
Target:  5'- gACCCgacagggCGCCUcCAcggcgaggACGCGCucAAGGCCg -3'
miRNA:   3'- gUGGGa------GUGGGaGU--------UGUGCG--UUCCGG- -5'
4377 3' -56.1 NC_001720.1 + 12829 0.67 0.561382
Target:  5'- aAUCCUCAgCugguguugguggCUCAGCACGC-GGGCa -3'
miRNA:   3'- gUGGGAGUgG------------GAGUUGUGCGuUCCGg -5'
4377 3' -56.1 NC_001720.1 + 25638 0.67 0.528809
Target:  5'- aGCCCUC-CCCUCcuCugGgAccAGGUCu -3'
miRNA:   3'- gUGGGAGuGGGAGuuGugCgU--UCCGG- -5'
4377 3' -56.1 NC_001720.1 + 14725 0.67 0.528809
Target:  5'- gCGCUCUCAgCCUUAccgaACGCAAcGCCu -3'
miRNA:   3'- -GUGGGAGUgGGAGUug--UGCGUUcCGG- -5'
4377 3' -56.1 NC_001720.1 + 21411 0.67 0.507484
Target:  5'- gGCgCUUUACCC-CAACGCGgaCAAGcGCCg -3'
miRNA:   3'- gUG-GGAGUGGGaGUUGUGC--GUUC-CGG- -5'
4377 3' -56.1 NC_001720.1 + 24546 0.68 0.486533
Target:  5'- cUACCCUCcuuUCCUCAcC-CcCAAGGCCa -3'
miRNA:   3'- -GUGGGAGu--GGGAGUuGuGcGUUCCGG- -5'
4377 3' -56.1 NC_001720.1 + 30405 0.69 0.436073
Target:  5'- cCACCUccugaCGCCCgUAGgGCGCAAGaGCCa -3'
miRNA:   3'- -GUGGGa----GUGGGaGUUgUGCGUUC-CGG- -5'
4377 3' -56.1 NC_001720.1 + 17950 0.69 0.436073
Target:  5'- cCGCCCgccgCACCC-CGGCGCcgGCGccGGCCc -3'
miRNA:   3'- -GUGGGa---GUGGGaGUUGUG--CGUu-CCGG- -5'
4377 3' -56.1 NC_001720.1 + 35294 0.69 0.407283
Target:  5'- aACCCUC-CCC-CGACuACGU--GGCCg -3'
miRNA:   3'- gUGGGAGuGGGaGUUG-UGCGuuCCGG- -5'
4377 3' -56.1 NC_001720.1 + 21317 0.7 0.34495
Target:  5'- -uCCCUCAUCC-CcACGCGCAcGGCa -3'
miRNA:   3'- guGGGAGUGGGaGuUGUGCGUuCCGg -5'
4377 3' -56.1 NC_001720.1 + 27954 0.71 0.336624
Target:  5'- cCGCCCUCGCUCgUCAcccGCGCGCGGuaCCg -3'
miRNA:   3'- -GUGGGAGUGGG-AGU---UGUGCGUUccGG- -5'
4377 3' -56.1 NC_001720.1 + 29481 0.71 0.304797
Target:  5'- aACCCUUgaGCgCCUCG--GCGCAGGGCa -3'
miRNA:   3'- gUGGGAG--UG-GGAGUugUGCGUUCCGg -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.