miRNA display CGI


Results 1 - 20 of 33 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
7275 3' -58.1 NC_001900.1 + 20956 0.68 0.396032
Target:  5'- cGGCGgUCgUCAACCUGGcUGGaGaCGGCc -3'
miRNA:   3'- -CCGCgAG-AGUUGGACCaGCCgC-GUCG- -5'
7275 3' -58.1 NC_001900.1 + 35074 0.69 0.387095
Target:  5'- -cCGC-CUCGGCCaGGUCaGCGUAGUc -3'
miRNA:   3'- ccGCGaGAGUUGGaCCAGcCGCGUCG- -5'
7275 3' -58.1 NC_001900.1 + 45000 0.69 0.361096
Target:  5'- cGUGCgagCacgUCAACCUGGUCGGCcuuCAGa -3'
miRNA:   3'- cCGCGa--G---AGUUGGACCAGCCGc--GUCg -5'
7275 3' -58.1 NC_001900.1 + 18684 0.69 0.352705
Target:  5'- aGGCGCagCUCGACCaGaUCaaGGCGCAGa -3'
miRNA:   3'- -CCGCGa-GAGUUGGaCcAG--CCGCGUCg -5'
7275 3' -58.1 NC_001900.1 + 12990 0.7 0.328366
Target:  5'- aGGCGUUCgucgcucugacCAACgUGGUCaGCgGCGGCg -3'
miRNA:   3'- -CCGCGAGa----------GUUGgACCAGcCG-CGUCG- -5'
7275 3' -58.1 NC_001900.1 + 43096 0.7 0.297881
Target:  5'- -cCGCUUgCGGCCUGGcCGGUucaGCAGCc -3'
miRNA:   3'- ccGCGAGaGUUGGACCaGCCG---CGUCG- -5'
7275 3' -58.1 NC_001900.1 + 18133 0.71 0.283481
Target:  5'- uGGCGUcCUggCAGaCUGcGUCGGCGCAGUc -3'
miRNA:   3'- -CCGCGaGA--GUUgGAC-CAGCCGCGUCG- -5'
7275 3' -58.1 NC_001900.1 + 8450 0.71 0.269637
Target:  5'- cGGCGCaaguucCUCAACCaGGUCaaCGCGGCc -3'
miRNA:   3'- -CCGCGa-----GAGUUGGaCCAGccGCGUCG- -5'
7275 3' -58.1 NC_001900.1 + 24937 0.72 0.242967
Target:  5'- aGGCaGCUCaccccagugguaUCGgguacgcACCUGGUggcggCGGCGCAGCc -3'
miRNA:   3'- -CCG-CGAG------------AGU-------UGGACCA-----GCCGCGUCG- -5'
7275 3' -58.1 NC_001900.1 + 3765 0.77 0.0999
Target:  5'- cGGCGCUCguUCGAUgaGGUCGGCGUcGUc -3'
miRNA:   3'- -CCGCGAG--AGUUGgaCCAGCCGCGuCG- -5'
7275 3' -58.1 NC_001900.1 + 6303 1.12 0.000277
Target:  5'- uGGCGCUCUCAACCUGGUCGGCGCAGCc -3'
miRNA:   3'- -CCGCGAGAGUUGGACCAGCCGCGUCG- -5'
7275 3' -58.1 NC_001900.1 + 37167 0.68 0.423622
Target:  5'- --gGUUCUCGAacuugaaCUGGUCGGCGUacucgaccagAGCu -3'
miRNA:   3'- ccgCGAGAGUUg------GACCAGCCGCG----------UCG- -5'
7275 3' -58.1 NC_001900.1 + 3544 0.68 0.405099
Target:  5'- cGGCGCUCggGGCC-GGUaaCGGCcuGguGCa -3'
miRNA:   3'- -CCGCGAGagUUGGaCCA--GCCG--CguCG- -5'
7275 3' -58.1 NC_001900.1 + 39118 0.66 0.502415
Target:  5'- cGGCGCUaugcgCUCcccgauGACCUGGaCGGCcgGgGGCu -3'
miRNA:   3'- -CCGCGA-----GAG------UUGGACCaGCCG--CgUCG- -5'
7275 3' -58.1 NC_001900.1 + 1647 0.66 0.523124
Target:  5'- cGCGCUCUguACgaGGa-GGCGUGGUu -3'
miRNA:   3'- cCGCGAGAguUGgaCCagCCGCGUCG- -5'
7275 3' -58.1 NC_001900.1 + 44799 0.68 0.414297
Target:  5'- aGCGCagcggaagCUUGAUCUGcGUcaCGGCGCGGCc -3'
miRNA:   3'- cCGCGa-------GAGUUGGAC-CA--GCCGCGUCG- -5'
7275 3' -58.1 NC_001900.1 + 27602 0.66 0.548393
Target:  5'- cGCGCUCgaucccggaugcagCGAUCaGGUUcgagcaGGCGUAGCa -3'
miRNA:   3'- cCGCGAGa-------------GUUGGaCCAG------CCGCGUCG- -5'
7275 3' -58.1 NC_001900.1 + 28659 0.66 0.559036
Target:  5'- cGGUGUUgCUC-ACCUGGaaggugaugcccuccUCGGCgauguaccaggGCAGCu -3'
miRNA:   3'- -CCGCGA-GAGuUGGACC---------------AGCCG-----------CGUCG- -5'
7275 3' -58.1 NC_001900.1 + 3842 0.67 0.492195
Target:  5'- cGGC-UUCUcCGGgCUGaUCGGCGCGGUg -3'
miRNA:   3'- -CCGcGAGA-GUUgGACcAGCCGCGUCG- -5'
7275 3' -58.1 NC_001900.1 + 15548 0.66 0.512727
Target:  5'- cGGC-CUCUC-GCCgGG-CGGUGgAGCc -3'
miRNA:   3'- -CCGcGAGAGuUGGaCCaGCCGCgUCG- -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.