miRNA display CGI


Results 1 - 15 of 15 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
27415 3' -61.9 NC_005869.1 + 17453 0.66 0.309191
Target:  5'- cCCGCGGCGguuccgguGCCUCcCCcagCCcCUCCa -3'
miRNA:   3'- -GGCGCCGC--------UGGAGaGGca-GGcGAGGa -5'
27415 3' -61.9 NC_005869.1 + 32113 0.66 0.309191
Target:  5'- gCCGCuGCGccACCagCUCCaUCgGCUCCUc -3'
miRNA:   3'- -GGCGcCGC--UGGa-GAGGcAGgCGAGGA- -5'
27415 3' -61.9 NC_005869.1 + 11959 0.66 0.306953
Target:  5'- aCCGUGGUgaacgcgcuguggaGACCUCggCCaUCCGC-CCg -3'
miRNA:   3'- -GGCGCCG--------------CUGGAGa-GGcAGGCGaGGa -5'
27415 3' -61.9 NC_005869.1 + 30923 0.66 0.30399
Target:  5'- cCCGCacaggcaGGCGACUgcugagagguauccgUCUCCaucucGUCCGcCUCCg -3'
miRNA:   3'- -GGCG-------CCGCUGG---------------AGAGG-----CAGGC-GAGGa -5'
27415 3' -61.9 NC_005869.1 + 9001 0.66 0.301781
Target:  5'- gCgGCGGUGACggUCUUgCG-CCGCUCCUc -3'
miRNA:   3'- -GgCGCCGCUGg-AGAG-GCaGGCGAGGA- -5'
27415 3' -61.9 NC_005869.1 + 6139 0.66 0.287375
Target:  5'- uCCGgGGUGACCUCagcgcugaggUUGUCUGUUUCUa -3'
miRNA:   3'- -GGCgCCGCUGGAGa---------GGCAGGCGAGGA- -5'
27415 3' -61.9 NC_005869.1 + 23862 0.67 0.266788
Target:  5'- aCGCGcGCG-CU--UCCG-CCGCUCCUg -3'
miRNA:   3'- gGCGC-CGCuGGagAGGCaGGCGAGGA- -5'
27415 3' -61.9 NC_005869.1 + 21944 0.67 0.24741
Target:  5'- -gGCGcGCGACCUCagCUGccCCGCUuCCUg -3'
miRNA:   3'- ggCGC-CGCUGGAGa-GGCa-GGCGA-GGA- -5'
27415 3' -61.9 NC_005869.1 + 18773 0.67 0.241215
Target:  5'- cCCGCGGCu-CCUgUgCGUCgGCgUCCg -3'
miRNA:   3'- -GGCGCCGcuGGAgAgGCAGgCG-AGGa -5'
27415 3' -61.9 NC_005869.1 + 24070 0.68 0.223403
Target:  5'- uCCGCGGCcccGACCcUUCCG-CCGCcaCCa -3'
miRNA:   3'- -GGCGCCG---CUGGaGAGGCaGGCGa-GGa -5'
27415 3' -61.9 NC_005869.1 + 18800 0.68 0.206721
Target:  5'- gCCGCGGCuccGGCCgcggCUCCGgcgaGUUCCa -3'
miRNA:   3'- -GGCGCCG---CUGGa---GAGGCagg-CGAGGa -5'
27415 3' -61.9 NC_005869.1 + 16981 0.71 0.131342
Target:  5'- aCCGCGGUGGCCgggCCGg--GCUCCg -3'
miRNA:   3'- -GGCGCCGCUGGagaGGCaggCGAGGa -5'
27415 3' -61.9 NC_005869.1 + 10154 0.72 0.120999
Target:  5'- -aGCGcGCGGCCUCUCCGcCCGUg--- -3'
miRNA:   3'- ggCGC-CGCUGGAGAGGCaGGCGagga -5'
27415 3' -61.9 NC_005869.1 + 17360 0.72 0.117724
Target:  5'- gCaCGGCGGCCg--CCGcCCGCUCCa -3'
miRNA:   3'- gGcGCCGCUGGagaGGCaGGCGAGGa -5'
27415 3' -61.9 NC_005869.1 + 27851 1.08 0.000173
Target:  5'- cCCGCGGCGACCUCUCCGUCCGCUCCUc -3'
miRNA:   3'- -GGCGCCGCUGGAGAGGCAGGCGAGGA- -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.