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
20539 3' -61.3 NC_004688.1 + 4606 0.66 0.583625
Target:  5'- cCGCaCGCGGCGGCCa-GGUCaaucgcUUCCUg -3'
miRNA:   3'- -GCG-GCGCCGUCGGaaCCGGaa----GAGGA- -5'
20539 3' -61.3 NC_004688.1 + 23173 0.66 0.573547
Target:  5'- gCGCCGCcugcugGGCGGCCggagagagggauUggagGGCCUcggcgaacuUCUCCg -3'
miRNA:   3'- -GCGGCG------CCGUCGG------------Aa---CCGGA---------AGAGGa -5'
20539 3' -61.3 NC_004688.1 + 60812 0.66 0.573547
Target:  5'- gGCCGCGGCGGUCgccaaUGGUCcaggCcCCg -3'
miRNA:   3'- gCGGCGCCGUCGGa----ACCGGaa--GaGGa -5'
20539 3' -61.3 NC_004688.1 + 10020 0.66 0.573547
Target:  5'- cCGCCGCGcGCAGUgcgcgcaguuCUUccaGGUgCUUCUCCa -3'
miRNA:   3'- -GCGGCGC-CGUCG----------GAA---CCG-GAAGAGGa -5'
20539 3' -61.3 NC_004688.1 + 85227 0.66 0.570532
Target:  5'- cCGCCuccGCGGCgAGCCgacggagauccaacUUGGCgUUCUCg- -3'
miRNA:   3'- -GCGG---CGCCG-UCGG--------------AACCGgAAGAGga -5'
20539 3' -61.3 NC_004688.1 + 9530 0.66 0.567521
Target:  5'- -uCUGCGGCgacaaugucggcaagAGCCUUggcGGCCUgCUCCUu -3'
miRNA:   3'- gcGGCGCCG---------------UCGGAA---CCGGAaGAGGA- -5'
20539 3' -61.3 NC_004688.1 + 54401 0.66 0.563512
Target:  5'- gGCC-CGGcCGGUCUcGGCgaUCUCCUc -3'
miRNA:   3'- gCGGcGCC-GUCGGAaCCGgaAGAGGA- -5'
20539 3' -61.3 NC_004688.1 + 49184 0.66 0.563512
Target:  5'- -aCUGC-GCAGCCUUGGaCUUCUCg- -3'
miRNA:   3'- gcGGCGcCGUCGGAACCgGAAGAGga -5'
20539 3' -61.3 NC_004688.1 + 24571 0.66 0.553523
Target:  5'- uCGagCGCGGCGcGCCgaa-CCUUCUCCUg -3'
miRNA:   3'- -GCg-GCGCCGU-CGGaaccGGAAGAGGA- -5'
20539 3' -61.3 NC_004688.1 + 84082 0.67 0.533711
Target:  5'- uCGCUGCGGUGGCCgcgGaGCUUgagggCUCUg -3'
miRNA:   3'- -GCGGCGCCGUCGGaa-C-CGGAa----GAGGa -5'
20539 3' -61.3 NC_004688.1 + 25740 0.67 0.514158
Target:  5'- cCGCCGgGGCcGCCUUgggGGCCg---CCg -3'
miRNA:   3'- -GCGGCgCCGuCGGAA---CCGGaagaGGa -5'
20539 3' -61.3 NC_004688.1 + 22857 0.67 0.494903
Target:  5'- cCGCCGCGGCGauuacggucuucGCgCUUGcGCCgcUUCUCa- -3'
miRNA:   3'- -GCGGCGCCGU------------CG-GAAC-CGG--AAGAGga -5'
20539 3' -61.3 NC_004688.1 + 17749 0.68 0.470376
Target:  5'- cCGcCCGCGGCGGCgCUUaggagcggcuucgacGGCCUgCUCg- -3'
miRNA:   3'- -GC-GGCGCCGUCG-GAA---------------CCGGAaGAGga -5'
20539 3' -61.3 NC_004688.1 + 66608 0.68 0.451938
Target:  5'- uGUCGgGGuCGGCCacgaauuccucguagUaGGCCUUCUCCg -3'
miRNA:   3'- gCGGCgCC-GUCGG---------------AaCCGGAAGAGGa -5'
20539 3' -61.3 NC_004688.1 + 77322 0.68 0.448298
Target:  5'- uCGCCgcagguGCGGCAcaccuugcgcGCCUUGGCUaUCUCg- -3'
miRNA:   3'- -GCGG------CGCCGU----------CGGAACCGGaAGAGga -5'
20539 3' -61.3 NC_004688.1 + 81345 0.69 0.412821
Target:  5'- gCGCUccuugGCGGgAGCCUUGGCCUgguaCUUg- -3'
miRNA:   3'- -GCGG-----CGCCgUCGGAACCGGAa---GAGga -5'
20539 3' -61.3 NC_004688.1 + 10074 0.69 0.371002
Target:  5'- gCGCCGUGGCGaucGCCUgacgcucGGCCUUCa--- -3'
miRNA:   3'- -GCGGCGCCGU---CGGAa------CCGGAAGagga -5'
20539 3' -61.3 NC_004688.1 + 6781 0.69 0.371002
Target:  5'- aGCCGCcGCAgGCCUgGGCCU-CUUCg -3'
miRNA:   3'- gCGGCGcCGU-CGGAaCCGGAaGAGGa -5'
20539 3' -61.3 NC_004688.1 + 79474 0.7 0.355102
Target:  5'- uCGCCGCGGUcucGGCUgauaGGCCacccgCUCCg -3'
miRNA:   3'- -GCGGCGCCG---UCGGaa--CCGGaa---GAGGa -5'
20539 3' -61.3 NC_004688.1 + 9583 0.71 0.283619
Target:  5'- aCGCCGCGGUguaGGCCUcgguugccgcccggaGGUCUUCUUCg -3'
miRNA:   3'- -GCGGCGCCG---UCGGAa--------------CCGGAAGAGGa -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.