miRNA display CGI


Results 1 - 20 of 21 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
3508 3' -46.8 NC_001623.1 + 107512 0.66 0.999873
Target:  5'- -aUCACAAUCGAucAUUUGCUgcuCCGa -3'
miRNA:   3'- cgAGUGUUGGCU--UGAACGAaauGGUc -5'
3508 3' -46.8 NC_001623.1 + 48775 0.67 0.999558
Target:  5'- cGCUCGCG--CG-ACUUGgUUUGCCAu -3'
miRNA:   3'- -CGAGUGUugGCuUGAACgAAAUGGUc -5'
3508 3' -46.8 NC_001623.1 + 117645 0.67 0.999558
Target:  5'- uUUCAaAACCGAACUUGaUUUACgGGu -3'
miRNA:   3'- cGAGUgUUGGCUUGAACgAAAUGgUC- -5'
3508 3' -46.8 NC_001623.1 + 117718 0.67 0.99914
Target:  5'- uUUCAaAACUGAACUcGCUUUACgAGu -3'
miRNA:   3'- cGAGUgUUGGCUUGAaCGAAAUGgUC- -5'
3508 3' -46.8 NC_001623.1 + 26359 0.67 0.99914
Target:  5'- uUUCAaAACUGAACUgGCUUUACgAGu -3'
miRNA:   3'- cGAGUgUUGGCUUGAaCGAAAUGgUC- -5'
3508 3' -46.8 NC_001623.1 + 26801 0.67 0.99914
Target:  5'- uUUCAaAACUGAACUcGCUUUACgAGu -3'
miRNA:   3'- cGAGUgUUGGCUUGAaCGAAAUGgUC- -5'
3508 3' -46.8 NC_001623.1 + 5082 0.67 0.99914
Target:  5'- gGgUCGCAACgcaGAGCgUGUUggGCCAGg -3'
miRNA:   3'- -CgAGUGUUGg--CUUGaACGAaaUGGUC- -5'
3508 3' -46.8 NC_001623.1 + 36741 0.67 0.99894
Target:  5'- aCUCGCAuuuGCCGAACgagUGUUUUaaacaaauagacGCCAa -3'
miRNA:   3'- cGAGUGU---UGGCUUGa--ACGAAA------------UGGUc -5'
3508 3' -46.8 NC_001623.1 + 120730 0.68 0.998622
Target:  5'- uGCUUACAcacCCGcGCUUGCUgaaagccguuugacgGCCAGc -3'
miRNA:   3'- -CGAGUGUu--GGCuUGAACGAaa-------------UGGUC- -5'
3508 3' -46.8 NC_001623.1 + 110097 0.69 0.997246
Target:  5'- --aCACGGCCGAAC-UGCcgUUGCUAa -3'
miRNA:   3'- cgaGUGUUGGCUUGaACGa-AAUGGUc -5'
3508 3' -46.8 NC_001623.1 + 120181 0.7 0.988881
Target:  5'- cGUaCACGGCCGAAaccgGCUUUACUAa -3'
miRNA:   3'- -CGaGUGUUGGCUUgaa-CGAAAUGGUc -5'
3508 3' -46.8 NC_001623.1 + 101036 0.72 0.979183
Target:  5'- uGCUUACGGcCCGGACUUGU--UACgCAGc -3'
miRNA:   3'- -CGAGUGUU-GGCUUGAACGaaAUG-GUC- -5'
3508 3' -46.8 NC_001623.1 + 118444 0.72 0.976657
Target:  5'- -gUCACGACCGAAaccaGCUuuUUGCCGGc -3'
miRNA:   3'- cgAGUGUUGGCUUgaa-CGA--AAUGGUC- -5'
3508 3' -46.8 NC_001623.1 + 70836 0.72 0.973913
Target:  5'- uUUCAaAACCGAACUcGCUUUACgAGu -3'
miRNA:   3'- cGAGUgUUGGCUUGAaCGAAAUGgUC- -5'
3508 3' -46.8 NC_001623.1 + 97660 0.72 0.973913
Target:  5'- uUUCAaAACCGAACUcGCUUUACgAGu -3'
miRNA:   3'- cGAGUgUUGGCUUGAaCGAAAUGgUC- -5'
3508 3' -46.8 NC_001623.1 + 26431 0.72 0.973913
Target:  5'- uUUCAaAACCGAACUcGCUUUACgAGu -3'
miRNA:   3'- cGAGUgUUGGCUUGAaCGAAAUGgUC- -5'
3508 3' -46.8 NC_001623.1 + 117823 0.73 0.952417
Target:  5'- gGCUCAUAACUaAACUcGCUUUACgGGu -3'
miRNA:   3'- -CGAGUGUUGGcUUGAaCGAAAUGgUC- -5'
3508 3' -46.8 NC_001623.1 + 415 0.9 0.260495
Target:  5'- gGCUCAUAACCGAACUgGCUUUACgAGu -3'
miRNA:   3'- -CGAGUGUUGGCUUGAaCGAAAUGgUC- -5'
3508 3' -46.8 NC_001623.1 + 505 0.9 0.260495
Target:  5'- gGCUCAUAACCGAACUcGCUUUACgAGu -3'
miRNA:   3'- -CGAGUGUUGGCUUGAaCGAAAUGgUC- -5'
3508 3' -46.8 NC_001623.1 + 117435 0.9 0.260495
Target:  5'- gGCUCAUAACCGAACUgGCUUUACgAGu -3'
miRNA:   3'- -CGAGUGUUGGCUUGAaCGAAAUGgUC- -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.