miRNA display CGI


Results 1 - 20 of 46 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
28917 3' -53.6 NC_006146.1 + 9929 0.69 0.870951
Target:  5'- aGCCcGCgagCAGGAgcagcugagcgaaaaGCCUGGCCAUg-- -3'
miRNA:   3'- -UGGuUGaa-GUCCU---------------CGGACCGGUAacu -5'
28917 3' -53.6 NC_006146.1 + 12691 1.08 0.004979
Target:  5'- cACCAACUUCAGGAGCCUGGCCAUUGAc -3'
miRNA:   3'- -UGGUUGAAGUCCUCGGACCGGUAACU- -5'
28917 3' -53.6 NC_006146.1 + 23348 0.67 0.94207
Target:  5'- gACCGACcUCAGc-GCCUGGCgCGUgGAa -3'
miRNA:   3'- -UGGUUGaAGUCcuCGGACCG-GUAaCU- -5'
28917 3' -53.6 NC_006146.1 + 31815 0.67 0.946643
Target:  5'- cCCAACUcCAGGcgaGGCCcgUGGCCAa--- -3'
miRNA:   3'- uGGUUGAaGUCC---UCGG--ACCGGUaacu -5'
28917 3' -53.6 NC_006146.1 + 39406 0.72 0.750035
Target:  5'- gGCCAcauggACUUgAagcagaaguuggccGGGGCCUGGCCcgUGAg -3'
miRNA:   3'- -UGGU-----UGAAgU--------------CCUCGGACCGGuaACU- -5'
28917 3' -53.6 NC_006146.1 + 39800 0.68 0.909405
Target:  5'- cCCGGCUUCuGGGAcGgC-GGCCGUUGAc -3'
miRNA:   3'- uGGUUGAAG-UCCU-CgGaCCGGUAACU- -5'
28917 3' -53.6 NC_006146.1 + 40135 0.67 0.93725
Target:  5'- cACCGuCUggaGGGGGgCUGGCCAUaccUGGa -3'
miRNA:   3'- -UGGUuGAag-UCCUCgGACCGGUA---ACU- -5'
28917 3' -53.6 NC_006146.1 + 40809 0.66 0.965917
Target:  5'- aGCCGGCgUCAauGGCCuUGGCCAU-GAg -3'
miRNA:   3'- -UGGUUGaAGUccUCGG-ACCGGUAaCU- -5'
28917 3' -53.6 NC_006146.1 + 45521 0.66 0.965917
Target:  5'- gGCC-ACggUGGGGGCCUgGGCCuccUUGGg -3'
miRNA:   3'- -UGGuUGaaGUCCUCGGA-CCGGu--AACU- -5'
28917 3' -53.6 NC_006146.1 + 50355 0.66 0.969085
Target:  5'- gGCCAGCcUgGGGAuCUUGGCCAg--- -3'
miRNA:   3'- -UGGUUGaAgUCCUcGGACCGGUaacu -5'
28917 3' -53.6 NC_006146.1 + 52132 0.66 0.964924
Target:  5'- cACCAGC-UCGGGccccaccaggucgaAGCCgcuGCCGUUGGc -3'
miRNA:   3'- -UGGUUGaAGUCC--------------UCGGac-CGGUAACU- -5'
28917 3' -53.6 NC_006146.1 + 59254 0.73 0.692356
Target:  5'- gGCCuggGugUUCAGG-GCCUGGCCGa--- -3'
miRNA:   3'- -UGG---UugAAGUCCuCGGACCGGUaacu -5'
28917 3' -53.6 NC_006146.1 + 62117 0.66 0.969085
Target:  5'- cGCCu-CggCGGGAGaCCUG-CCAUUGGa -3'
miRNA:   3'- -UGGuuGaaGUCCUC-GGACcGGUAACU- -5'
28917 3' -53.6 NC_006146.1 + 64749 0.73 0.65075
Target:  5'- gACUauGACUUCucGAGCCUGGCC-UUGGa -3'
miRNA:   3'- -UGG--UUGAAGucCUCGGACCGGuAACU- -5'
28917 3' -53.6 NC_006146.1 + 71242 0.68 0.90309
Target:  5'- gUCAACUcCuGGGGCCUGGCgGggGGc -3'
miRNA:   3'- uGGUUGAaGuCCUCGGACCGgUaaCU- -5'
28917 3' -53.6 NC_006146.1 + 74493 0.67 0.946643
Target:  5'- cGCUGugUUCAGGAGC-UGGCaCAUc-- -3'
miRNA:   3'- -UGGUugAAGUCCUCGgACCG-GUAacu -5'
28917 3' -53.6 NC_006146.1 + 97262 0.66 0.965917
Target:  5'- uACCGGag-CAGucGCCUGGCCAUc-- -3'
miRNA:   3'- -UGGUUgaaGUCcuCGGACCGGUAacu -5'
28917 3' -53.6 NC_006146.1 + 97356 0.71 0.772414
Target:  5'- aACCAcccgcccggggaGC-UCcGGAGCCUGGCCAUg-- -3'
miRNA:   3'- -UGGU------------UGaAGuCCUCGGACCGGUAacu -5'
28917 3' -53.6 NC_006146.1 + 101166 0.66 0.95506
Target:  5'- uCCAAcCUUUaccuGGGcuGCCUGGCCcUUGAa -3'
miRNA:   3'- uGGUU-GAAG----UCCu-CGGACCGGuAACU- -5'
28917 3' -53.6 NC_006146.1 + 101400 0.74 0.598453
Target:  5'- gGCCGACgaucuuuggCAGGucgGGCCUGGCCAUg-- -3'
miRNA:   3'- -UGGUUGaa-------GUCC---UCGGACCGGUAacu -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.