miRNA display CGI


Results 1 - 12 of 12 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
6217 3' -54.3 NC_001844.1 + 4788 0.66 0.958338
Target:  5'- -aAGCUguUUGAggUGAGAucucacgcggcagaaGCGGCGCGGu -3'
miRNA:   3'- acUCGA--GGCUuuGCUCU---------------UGCCGCGCU- -5'
6217 3' -54.3 NC_001844.1 + 117229 0.66 0.944352
Target:  5'- cGAGCcCCGcgGCGGGAA-GGCaaaGCGGu -3'
miRNA:   3'- aCUCGaGGCuuUGCUCUUgCCG---CGCU- -5'
6217 3' -54.3 NC_001844.1 + 82887 0.67 0.924358
Target:  5'- aGAGUguuuaCCGGuaAGCGA-AACGGCGCGu -3'
miRNA:   3'- aCUCGa----GGCU--UUGCUcUUGCCGCGCu -5'
6217 3' -54.3 NC_001844.1 + 141467 0.67 0.918751
Target:  5'- cGAGCUcCCGggGCGAGG--GGCcCGc -3'
miRNA:   3'- aCUCGA-GGCuuUGCUCUugCCGcGCu -5'
6217 3' -54.3 NC_001844.1 + 88007 0.67 0.912901
Target:  5'- gGAGCUgaCCuAGACGGGGACGGC-Ca- -3'
miRNA:   3'- aCUCGA--GGcUUUGCUCUUGCCGcGcu -5'
6217 3' -54.3 NC_001844.1 + 144250 0.67 0.906187
Target:  5'- cGGGC-CCGAAGagggugcuggaagUGAGGACcGCGCGGc -3'
miRNA:   3'- aCUCGaGGCUUU-------------GCUCUUGcCGCGCU- -5'
6217 3' -54.3 NC_001844.1 + 144207 0.68 0.88008
Target:  5'- gUGGcGCUcCCGggGCcagcGAACGGCGCa- -3'
miRNA:   3'- -ACU-CGA-GGCuuUGcu--CUUGCCGCGcu -5'
6217 3' -54.3 NC_001844.1 + 114424 0.68 0.88008
Target:  5'- cGGGcCUCCGGccAGgGAGGGCGcGCGCu- -3'
miRNA:   3'- aCUC-GAGGCU--UUgCUCUUGC-CGCGcu -5'
6217 3' -54.3 NC_001844.1 + 140860 0.73 0.619404
Target:  5'- gGGGCUCgGggGcCGGGGaagGCGGCGgGAu -3'
miRNA:   3'- aCUCGAGgCuuU-GCUCU---UGCCGCgCU- -5'
6217 3' -54.3 NC_001844.1 + 144307 0.74 0.568052
Target:  5'- gGGGCUCCGAGuuCGGGuagaGGCGCGc -3'
miRNA:   3'- aCUCGAGGCUUu-GCUCuug-CCGCGCu -5'
6217 3' -54.3 NC_001844.1 + 140938 0.74 0.557892
Target:  5'- cGAGCcCCGGAGCGGGGuuaugaGCGG-GCGAu -3'
miRNA:   3'- aCUCGaGGCUUUGCUCU------UGCCgCGCU- -5'
6217 3' -54.3 NC_001844.1 + 78032 1.09 0.004147
Target:  5'- uUGAGCUCCGAAACGAGAACGGCGCGAu -3'
miRNA:   3'- -ACUCGAGGCUUUGCUCUUGCCGCGCU- -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.