miRNA display CGI


Results 1 - 13 of 13 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
21741 3' -46.5 NC_004813.1 + 29068 1.1 0.006478
Target:  5'- aCAGAAAAGCCUCAUCCACCGAAUAACc -3'
miRNA:   3'- -GUCUUUUCGGAGUAGGUGGCUUAUUG- -5'
21741 3' -46.5 NC_004813.1 + 46656 0.73 0.800613
Target:  5'- gGGGAAAGCCUU-UCC-CCgGAAUAACa -3'
miRNA:   3'- gUCUUUUCGGAGuAGGuGG-CUUAUUG- -5'
21741 3' -46.5 NC_004813.1 + 33679 0.71 0.906428
Target:  5'- aCGGuAAAAGUCUCA-CC-CCGGAUGAUg -3'
miRNA:   3'- -GUC-UUUUCGGAGUaGGuGGCUUAUUG- -5'
21741 3' -46.5 NC_004813.1 + 33841 0.71 0.906428
Target:  5'- aCGGuAAAAGUCUCA-CC-CCGGAUGAUg -3'
miRNA:   3'- -GUC-UUUUCGGAGUaGGuGGCUUAUUG- -5'
21741 3' -46.5 NC_004813.1 + 34002 0.71 0.906428
Target:  5'- aCGGcAAAAGUCUCA-CC-CCGGAUGAUg -3'
miRNA:   3'- -GUC-UUUUCGGAGUaGGuGGCUUAUUG- -5'
21741 3' -46.5 NC_004813.1 + 42314 0.7 0.941807
Target:  5'- cCGGuc-AGCCUCgcucagccagggcaGUCCACCgGGAUGACu -3'
miRNA:   3'- -GUCuuuUCGGAG--------------UAGGUGG-CUUAUUG- -5'
21741 3' -46.5 NC_004813.1 + 30802 0.68 0.97833
Target:  5'- uGGAAGuGGCCcgUCGUCaguauCCGGAUGACa -3'
miRNA:   3'- gUCUUU-UCGG--AGUAGgu---GGCUUAUUG- -5'
21741 3' -46.5 NC_004813.1 + 24556 0.67 0.988869
Target:  5'- cCGGGAcgacAGGUUUacCAUCCACCaGGAUGGCa -3'
miRNA:   3'- -GUCUU----UUCGGA--GUAGGUGG-CUUAUUG- -5'
21741 3' -46.5 NC_004813.1 + 27833 0.67 0.985281
Target:  5'- aCAGGAA--CCUCAUCCACCu------ -3'
miRNA:   3'- -GUCUUUucGGAGUAGGUGGcuuauug -5'
21741 3' -46.5 NC_004813.1 + 34457 0.66 0.990386
Target:  5'- uGGGAAuGCCUgGUUgACgGggUGGCg -3'
miRNA:   3'- gUCUUUuCGGAgUAGgUGgCuuAUUG- -5'
21741 3' -46.5 NC_004813.1 + 9540 0.66 0.992931
Target:  5'- aAGAGAGGCCUUguugAUCCAUaCGGAa--- -3'
miRNA:   3'- gUCUUUUCGGAG----UAGGUG-GCUUauug -5'
21741 3' -46.5 NC_004813.1 + 21653 0.66 0.994907
Target:  5'- gCAGAAu-GCCcgCAUUCGCCGGuAUAAa -3'
miRNA:   3'- -GUCUUuuCGGa-GUAGGUGGCU-UAUUg -5'
21741 3' -46.5 NC_004813.1 + 48138 0.66 0.992931
Target:  5'- cCGGAcgGGCaUCAUCCuCCGucAUGGCa -3'
miRNA:   3'- -GUCUuuUCGgAGUAGGuGGCu-UAUUG- -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.