miRNA display CGI


Results 1 - 19 of 19 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
27180 5' -64.2 NC_005832.1 + 20395 0.66 0.484786
Target:  5'- aGGGUUccacGGGGGCCCUCagaGGAG-GGUu -3'
miRNA:   3'- cCCCAGa---UCUCCGGGGGg--CCUCgCCA- -5'
27180 5' -64.2 NC_005832.1 + 5406 0.66 0.439977
Target:  5'- uGGGUCcAGAcGGCaCCCUGGAGgUGGa -3'
miRNA:   3'- cCCCAGaUCU-CCGgGGGGCCUC-GCCa -5'
27180 5' -64.2 NC_005832.1 + 66151 0.66 0.4313
Target:  5'- cGGGaaUGGAGGCUUCCCugaaccucuuGGGGUGGg -3'
miRNA:   3'- cCCCagAUCUCCGGGGGG----------CCUCGCCa -5'
27180 5' -64.2 NC_005832.1 + 78804 0.67 0.41425
Target:  5'- -cGGUCUGcgccGGCCaCUCUGGGGCGGg -3'
miRNA:   3'- ccCCAGAUcu--CCGG-GGGGCCUCGCCa -5'
27180 5' -64.2 NC_005832.1 + 39321 0.67 0.405882
Target:  5'- cGGGUCUAGcaugaccCCCCCCGGGGaCGa- -3'
miRNA:   3'- cCCCAGAUCucc----GGGGGGCCUC-GCca -5'
27180 5' -64.2 NC_005832.1 + 71160 0.67 0.405882
Target:  5'- aGGGG-CUggAGAGGCUCUCCG--GCGGg -3'
miRNA:   3'- -CCCCaGA--UCUCCGGGGGGCcuCGCCa -5'
27180 5' -64.2 NC_005832.1 + 40727 0.67 0.397621
Target:  5'- cGGGGUac--GGGUCCaCCGGGGUGGg -3'
miRNA:   3'- -CCCCAgaucUCCGGGgGGCCUCGCCa -5'
27180 5' -64.2 NC_005832.1 + 79185 0.67 0.389469
Target:  5'- aGGGaGUCgaggagcucaUGGAGGCCgCCgGGAG-GGUg -3'
miRNA:   3'- -CCC-CAG----------AUCUCCGGgGGgCCUCgCCA- -5'
27180 5' -64.2 NC_005832.1 + 66393 0.67 0.389469
Target:  5'- uGGGGgCUGGcGGCCuCCCUGGGaUGGg -3'
miRNA:   3'- -CCCCaGAUCuCCGG-GGGGCCUcGCCa -5'
27180 5' -64.2 NC_005832.1 + 39215 0.67 0.389469
Target:  5'- uGGGGUCccGGAcGGCCCuCCUGGGaucCGGa -3'
miRNA:   3'- -CCCCAGa-UCU-CCGGG-GGGCCUc--GCCa -5'
27180 5' -64.2 NC_005832.1 + 27933 0.67 0.38866
Target:  5'- cGGuGGUCaAGGGGCaaaggguCCCgCCGGAGaCGGc -3'
miRNA:   3'- -CC-CCAGaUCUCCG-------GGG-GGCCUC-GCCa -5'
27180 5' -64.2 NC_005832.1 + 98082 0.69 0.287295
Target:  5'- aGGGUCUccaAGAGGCCCgugCUGGAGCu-- -3'
miRNA:   3'- cCCCAGA---UCUCCGGGg--GGCCUCGcca -5'
27180 5' -64.2 NC_005832.1 + 32184 0.7 0.274548
Target:  5'- uGGGGUCUGGgauuGGGCUCCCUcaGGA-CGGc -3'
miRNA:   3'- -CCCCAGAUC----UCCGGGGGG--CCUcGCCa -5'
27180 5' -64.2 NC_005832.1 + 23086 0.7 0.274548
Target:  5'- aGGGGUCUGGAGGCUgCgggguaCGaGGUGGUg -3'
miRNA:   3'- -CCCCAGAUCUCCGGgGg-----GCcUCGCCA- -5'
27180 5' -64.2 NC_005832.1 + 42159 0.71 0.244669
Target:  5'- cGGGGUC-GGAGGgacacUCCCCCGGAagaGGUg -3'
miRNA:   3'- -CCCCAGaUCUCC-----GGGGGGCCUcg-CCA- -5'
27180 5' -64.2 NC_005832.1 + 5843 0.71 0.239027
Target:  5'- aGGGUCaAGAGGCUCCCCGGcaagacaaucaGGCuGa -3'
miRNA:   3'- cCCCAGaUCUCCGGGGGGCC-----------UCGcCa -5'
27180 5' -64.2 NC_005832.1 + 80834 0.72 0.193026
Target:  5'- gGGGGUCgcGGuGUCCCCCGGGGCccuGGa -3'
miRNA:   3'- -CCCCAGauCUcCGGGGGGCCUCG---CCa -5'
27180 5' -64.2 NC_005832.1 + 72693 0.82 0.038673
Target:  5'- aGGGGUUUAgGAGGCCCuCCCGGAGauaGGg -3'
miRNA:   3'- -CCCCAGAU-CUCCGGG-GGGCCUCg--CCa -5'
27180 5' -64.2 NC_005832.1 + 39775 1.08 0.000409
Target:  5'- gGGGGUCUAGAGGCCCCCCGGAGCGGUg -3'
miRNA:   3'- -CCCCAGAUCUCCGGGGGGCCUCGCCA- -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.