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
7283 3' -52.2 NC_001900.1 + 6483 0.66 0.871409
Target:  5'- gGAGUCcgcugucaACGGCGCGG--UCCcccagcUCGGCCc -3'
miRNA:   3'- gCUCAG--------UGCCGCGUUcaAGG------AGUUGG- -5'
7283 3' -52.2 NC_001900.1 + 11779 0.66 0.863214
Target:  5'- gCGAGUUcaGCGGUGUGAGcgUCgUUcGCCg -3'
miRNA:   3'- -GCUCAG--UGCCGCGUUCa-AGgAGuUGG- -5'
7283 3' -52.2 NC_001900.1 + 5108 0.66 0.860706
Target:  5'- gGAGUCccgaggagaagucaACGGCGUggGggugUUCCUCuACg -3'
miRNA:   3'- gCUCAG--------------UGCCGCGuuC----AAGGAGuUGg -5'
7283 3' -52.2 NC_001900.1 + 22579 0.66 0.858176
Target:  5'- gGAGcUgACGGCGCAuucgagaucggcggcGGUgauuucagCUUCGGCCa -3'
miRNA:   3'- gCUC-AgUGCCGCGU---------------UCAa-------GGAGUUGG- -5'
7283 3' -52.2 NC_001900.1 + 10482 0.66 0.837151
Target:  5'- aCGAGgaagaGGcCGCGAuGggCCUCGGCCu -3'
miRNA:   3'- -GCUCagug-CC-GCGUU-CaaGGAGUUGG- -5'
7283 3' -52.2 NC_001900.1 + 1017 0.67 0.828001
Target:  5'- aGcAGUCGCGGuUGCuugcgaucgagGAGUUCCUggaGGCCa -3'
miRNA:   3'- gC-UCAGUGCC-GCG-----------UUCAAGGAg--UUGG- -5'
7283 3' -52.2 NC_001900.1 + 40220 0.67 0.789353
Target:  5'- aGAGUCGCGGCaGCGG--UCCU--GCUg -3'
miRNA:   3'- gCUCAGUGCCG-CGUUcaAGGAguUGG- -5'
7283 3' -52.2 NC_001900.1 + 20289 0.68 0.758533
Target:  5'- uCGAG-CAaaGCGCAAcGUcaUCCUCAACg -3'
miRNA:   3'- -GCUCaGUgcCGCGUU-CA--AGGAGUUGg -5'
7283 3' -52.2 NC_001900.1 + 8202 0.68 0.758533
Target:  5'- uCGA--CAgGGUGCGAGagcCCUCGACCu -3'
miRNA:   3'- -GCUcaGUgCCGCGUUCaa-GGAGUUGG- -5'
7283 3' -52.2 NC_001900.1 + 24100 0.68 0.747973
Target:  5'- cCGAGgu-UGGCGCGGG--CUUCGGCCg -3'
miRNA:   3'- -GCUCaguGCCGCGUUCaaGGAGUUGG- -5'
7283 3' -52.2 NC_001900.1 + 45276 0.68 0.74691
Target:  5'- gGAGaacgCACGcGCGUcguguuaguucagGAGUUCCUCGAUg -3'
miRNA:   3'- gCUCa---GUGC-CGCG-------------UUCAAGGAGUUGg -5'
7283 3' -52.2 NC_001900.1 + 46039 0.68 0.73729
Target:  5'- cCGAG-CGCGGCGCAuGg----CAACCa -3'
miRNA:   3'- -GCUCaGUGCCGCGUuCaaggaGUUGG- -5'
7283 3' -52.2 NC_001900.1 + 12054 0.68 0.73729
Target:  5'- uCGGGUCACcGUugaGCGgcAGUUCCUgcCGACCa -3'
miRNA:   3'- -GCUCAGUGcCG---CGU--UCAAGGA--GUUGG- -5'
7283 3' -52.2 NC_001900.1 + 29826 0.68 0.726497
Target:  5'- cCGGGUCuACGGCGguGGggCCaacacggUGGCCg -3'
miRNA:   3'- -GCUCAG-UGCCGCguUCaaGGa------GUUGG- -5'
7283 3' -52.2 NC_001900.1 + 47911 0.68 0.726497
Target:  5'- uCGcGUCACGGCacGCGAG-UCCaUCAagacACCg -3'
miRNA:   3'- -GCuCAGUGCCG--CGUUCaAGG-AGU----UGG- -5'
7283 3' -52.2 NC_001900.1 + 30504 0.69 0.670179
Target:  5'- cCGAGaucugcagcuacaUCGacCGGCGCGGGUUCCugcUCGACg -3'
miRNA:   3'- -GCUC-------------AGU--GCCGCGUUCAAGG---AGUUGg -5'
7283 3' -52.2 NC_001900.1 + 35727 0.7 0.660095
Target:  5'- aGAGgcaCAUGGCGCuGGUUCCggGGCa -3'
miRNA:   3'- gCUCa--GUGCCGCGuUCAAGGagUUGg -5'
7283 3' -52.2 NC_001900.1 + 26312 0.7 0.638745
Target:  5'- gCGAGcCAcgcuuCGGCGUccauccgguugucguAGUUCCUCGGCCc -3'
miRNA:   3'- -GCUCaGU-----GCCGCGu--------------UCAAGGAGUUGG- -5'
7283 3' -52.2 NC_001900.1 + 44079 0.7 0.626369
Target:  5'- aCGGGUCGaacaucgaGGCuGCGAugccUUCCUCGACCc -3'
miRNA:   3'- -GCUCAGUg-------CCG-CGUUc---AAGGAGUUGG- -5'
7283 3' -52.2 NC_001900.1 + 38823 0.7 0.611752
Target:  5'- aGAGUCGCGGUcuuCAGGUUCaucagguucuaccgUUCGGCCu -3'
miRNA:   3'- gCUCAGUGCCGc--GUUCAAG--------------GAGUUGG- -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.