miRNA display CGI


Results 1 - 17 of 17 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
30930 3' -50.6 NC_006552.1 + 23345 0.66 0.945945
Target:  5'- cCGGcuGCU-CCUGCCgGucgucGAAGUCGGu -3'
miRNA:   3'- -GCUuuUGAuGGACGGgUu----CUUCGGCC- -5'
30930 3' -50.6 NC_006552.1 + 55245 0.66 0.941002
Target:  5'- aCGAAAGCUACaacgCCAAGAacaaGGCCuGGg -3'
miRNA:   3'- -GCUUUUGAUGgacgGGUUCU----UCGG-CC- -5'
30930 3' -50.6 NC_006552.1 + 13247 0.67 0.92447
Target:  5'- uGAGGGCUACaUGCUCAucGAGcGUCGGg -3'
miRNA:   3'- gCUUUUGAUGgACGGGUu-CUU-CGGCC- -5'
30930 3' -50.6 NC_006552.1 + 42267 0.67 0.918388
Target:  5'- uGGcuGCUGCCUGCCCcuGAGcgugaucaggcGCCaGGc -3'
miRNA:   3'- gCUuuUGAUGGACGGGuuCUU-----------CGG-CC- -5'
30930 3' -50.6 NC_006552.1 + 12845 0.68 0.891227
Target:  5'- ----uGCUGCgCUGCCCGGcGGGCCuGGa -3'
miRNA:   3'- gcuuuUGAUG-GACGGGUUcUUCGG-CC- -5'
30930 3' -50.6 NC_006552.1 + 11137 0.68 0.875997
Target:  5'- aCGGucguACUGCUUGCCgGAcaccuccauGAAGUCGGa -3'
miRNA:   3'- -GCUuu--UGAUGGACGGgUU---------CUUCGGCC- -5'
30930 3' -50.6 NC_006552.1 + 6299 0.68 0.867988
Target:  5'- gGAuaguGGCUACgCUGgCCGgcuGGAAGCCGa -3'
miRNA:   3'- gCUu---UUGAUG-GACgGGU---UCUUCGGCc -5'
30930 3' -50.6 NC_006552.1 + 37167 0.69 0.859725
Target:  5'- uCGAGAACUGaa-GCCUgcGAAGCCuGGg -3'
miRNA:   3'- -GCUUUUGAUggaCGGGuuCUUCGG-CC- -5'
30930 3' -50.6 NC_006552.1 + 63985 0.69 0.851215
Target:  5'- ---cAACUACCUGgccgCCAAGGgccuGGCCGGc -3'
miRNA:   3'- gcuuUUGAUGGACg---GGUUCU----UCGGCC- -5'
30930 3' -50.6 NC_006552.1 + 37029 0.69 0.842468
Target:  5'- cCGGAcgcGCUGCCaccgcuagcGUCCuGAGAGGCCGGa -3'
miRNA:   3'- -GCUUu--UGAUGGa--------CGGG-UUCUUCGGCC- -5'
30930 3' -50.6 NC_006552.1 + 15452 0.69 0.833493
Target:  5'- aCGGAuuccGCUGCCgGCgCCAGcGAuacAGCCGGu -3'
miRNA:   3'- -GCUUu---UGAUGGaCG-GGUU-CU---UCGGCC- -5'
30930 3' -50.6 NC_006552.1 + 20672 0.7 0.795499
Target:  5'- gCGAAcAGC-GCCUGCUCGauGGgcGCCGGc -3'
miRNA:   3'- -GCUU-UUGaUGGACGGGU--UCuuCGGCC- -5'
30930 3' -50.6 NC_006552.1 + 17910 0.7 0.785532
Target:  5'- gCGAAcGCUAUCgGCCCGAG-AGCuauCGGg -3'
miRNA:   3'- -GCUUuUGAUGGaCGGGUUCuUCG---GCC- -5'
30930 3' -50.6 NC_006552.1 + 2956 0.71 0.722676
Target:  5'- cCGGuuguGCUGCC-GCCCGAGuuGGcCCGGg -3'
miRNA:   3'- -GCUuu--UGAUGGaCGGGUUCu-UC-GGCC- -5'
30930 3' -50.6 NC_006552.1 + 11722 0.74 0.589376
Target:  5'- cCGGAAGCacgaugGCCuUGCCgGuGAGGCCGGa -3'
miRNA:   3'- -GCUUUUGa-----UGG-ACGGgUuCUUCGGCC- -5'
30930 3' -50.6 NC_006552.1 + 61623 0.79 0.348626
Target:  5'- aCGgcAACUGCCugaucuggaUGCCCGAGGccgccGGCCGGa -3'
miRNA:   3'- -GCuuUUGAUGG---------ACGGGUUCU-----UCGGCC- -5'
30930 3' -50.6 NC_006552.1 + 35359 0.8 0.307209
Target:  5'- cCGGAGGCUugCcGCCCGGGAuauccgagagacuGGCCGGc -3'
miRNA:   3'- -GCUUUUGAugGaCGGGUUCU-------------UCGGCC- -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.